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Genetic map articles

Acinonyx jubatus (cheetah)

Actinemys marmorata (Pacific pond turtle)

Agapornis roseicollis (peach-faced lovebird)

Agelaius tricolor (tricolored blackbird)

Ahaetulla prasina (Asian vine snakes)

Alligator mississippiensis (American alligator)

Amazona vittata (Puerto Rican parrot)

Amblyraja radiata (thorny skate)

Amia calva (bowfin)

Anas platyrhynchos (Mallard)

Andrias davidianus (Chinese giant salamander)

Anser cygnoides (swan goose)

Ara macao (scarlet macaw)

Aratinga solstitialis (sun parakeet)

Archocentrus centrarchus (flier cichlid)

Arizona elegans occidentalis

Astatotilapia calliptera (eastern happy)

Astyanax mexicanus (Mexican tetra)

Aythya fuligula (tufted duck)

Bison bison (American bison)

Bombyx mori (domestic silkworm)

Bos gaurus (gaur)

Bos indicus (zebu)

Bos taurus (cattle)

Brachyistius frenatus (kelp perch)

Bubalus bubalis (water buffalo)

Cairina moschata (Muscovy duck)

Callipepla californica (California quail)

Callithrix jacchus (white-tufted-ear marmoset)

Calotes versicolor (garden lizard)

Calypte anna (Anna's hummingbird)

Camelus bactrianus (Bactrian camel)

Camelus dromedarius (Arabian camel)

Campylomormyrus compressirostris

Canis lupus (gray wolf)

Canis lupus familiaris (dog)

Capra aegagrus (wild goat)

Capra hircus (goat)

Caranx ignobilis (giant trevally)

Carassius auratus (goldfish)

Cervidae (deer)

Cervus elaphus (red deer)

Champsocephalus esox (pike icefish)

Champsocephalus gunnari (mackerel icefish)

Channa argus (northern snakehead)

Charina bottae

Chelonia mydas (green sea turtle)

Chlorocebus sabaeus (green monkey)

Clinocottus analis (woolly sculpin)

Clupea harengus (Atlantic herring)

Cociella crocodila (crocodile flathead)

Colossoma macropomum (tambaqui)

Conuropsis carolinensis (Carolina parakeet)

Cottoperca trigloides (channel bull blenny)

Coturnix japonica (Japanese quail)

Cranoglanis bouderius

Crocodylus porosus (Australian saltwater crocodile)

Cyanistes caeruleus (Blue tit)

Cynomys gunnisoni (Gunnison's prairie dog)

Cyprinus carpio (common carp)

Danio rerio (zebrafish)

Dascyllus trimaculatus (three spot damselfish)

Elephantidae (elephants)

Elephas maximus (Asiatic elephant)

Embiotoca jacksoni (black perch)

Enhydra lutris (sea otter)

Equus asinus (ass)

Equus caballus (horse)

Eremias argus

Erythrura gouldiae (Gouldian finch)

Eublepharis macularius (Leopard gecko)

Eumicrotremus spinosus (Atlantic spiny lumpsucker)

Felis catus (domestic cat)

Ficedula

Gadus morhua (Atlantic cod)

Gallus gallus (chicken)

Gavialis gangeticus (Gharial)

Giraffa camelopardalis tippelskirchi

Globicephala macrorhynchus (short-finned pilot whale)

Gopherus evgoodei (Goodes thornscrub tortoise)

Gouania willdenowi (blunt-snouted clingfish)

Hylobates moloch (silvery gibbon)

Ictalurus punctatus (channel catfish)

Labeo rohita (rohu)

Lamprotornis superbus (superb starling)

Lemur catta (Ring-tailed lemur)

Lynx canadensis (Canada lynx)

Lynx rufus (bobcat)

Macaca mulatta (Rhesus monkey)

Mandrillus sphinx (mandrill)

Mastacembelus armatus (zig-zag eel)

Megalobrama amblycephala (Wuchang bream)

Meleagris gallopavo (turkey)

Melopsittacus undulatus (budgerigar)

Mesocricetus auratus (golden hamster)

Monodelphis domestica (gray short-tailed opossum)

Moschus moschiferus (Siberian musk deer)

Mugil cephalus (flathead mullet)

Myrmecobius fasciatus (numbat)

Neovison vison (American mink)

Nestor notabilis (Kea)

Numida meleagris (helmeted guineafowl)

Nyctereutes procyonoides (raccoon dog)

Ochotona princeps (American pika)

Odocoileus virginianus (white-tailed deer)

Odontobutis potamophila

Okapia johnstoni (okapi)

Oncorhynchus mykiss (rainbow trout)

Oncorhynchus nerka (sockeye salmon)

Oplegnathus fasciatus (barred knifejaw)

Oreochromis mossambicus (Mozambique tilapia)

Oreochromis mossambicus x Oreochromis niloticus

Oreochromis niloticus (Nile tilapia)

Ornithorhynchus anatinus (platypus)

Orycteropus afer (aardvark)

Oryctolagus cuniculus (rabbit)

Oryzias latipes (Japanese medaka)

Oryzias melastigma (Indian medaka)

Ostrea denselamellosa

Ovis aries (sheep)

Ovis orientalis (Asiatic mouflon)

Pan troglodytes (chimpanzee)

Pangasianodon hypophthalmus (striped catfish)

Panthera tigris (tiger)

Pantherophis guttatus (corn snake)

Paracanthobrama guichenoti

Penaeus monodon (black tiger shrimp)

Perdix hodgsoniae (Tibetan partridge)

Perisoreus infaustus

Peromyscus polionotus (oldfield mouse)

Petromyzon marinus (sea lamprey)

Phascolarctos cinereus (koala)

Phocoena sinus (vaquita)

Phodopus roborovskii (desert hamster)

Phrynocephalus forsythii

Phyllostomus discolor (pale spear-nosed bat)

Plecoglossus altivelis (ayu)

Podarcis raffoneae (Aeolian wall lizard)

Prionailurus bengalensis (leopard cat)

Protosalanx hyalocranius (clearhead icefish)

Pseudocaranx georgianus (silver trevally)

Pteronura brasiliensis (giant otter)

Puma yagouaroundi (jaguarundi)

Puntigrus tetrazona (Sumatra barb)

Rangifer tarandus (reindeer)

Rhinatrema bivittatum (two-lined caecilian)

Rhinolophus ferrumequinum (greater horseshoe bat)

Saccostrea glomerata

Salmo salar (Atlantic salmon)

Salmo trutta (brown trout)

Sarotherodon galilaeus (mango tilapia)

Scaptonyx fusicaudus (long-tailed mole)

Sciurus niger (fox squirrel)

Scomber colias (Atlantic chub mackerel)

Semicossyphus pulcher

Seriola lalandi (yellowtail amberjack)

Siniperca chuatsi (mandarin fish)

Sparidentex hasta (sobaity seabream)

Strigops habroptilus (kakapo)

Struthio camelus (African ostrich)

Sus scrofa (pig)

Tachyglossus aculeatus (Australian echidna)

Tachysurus fulvidraco × Tachysurus vachelli (hybrid yellow catfish)

Taeniopygia guttata (zebra finch)

Tanypteryx hageni

Thymallus thymallus (grayling)

Thyrsites atun (snoek)

Trachurus trachurus (Atlantic horse mackerel)

Tremarctos ornatus (spectacled bear)

Tympanuchus pallidicinctus (lesser prairie-chicken)

Ursidae (bears)

Ursus americanus (American black bear)

Ursus arctos (brown bear)

Varanus komodoensis (Komodo dragon)

Vicugna pacos (alpaca)

Vulpes vulpes (red fox)

Acinonyx jubatus (cheetah) :

2023 Winter, S., Meißner, R., Greve, C., Ben Hamadou, A., Horin, P., Prost, S., Burger, P.A. :
A chromosome-scale high-contiguity genome assembly of the cheetah (Acinonyx jubatus). J Hered :, 2023. Pubmed reference: 36869783 . DOI: 10.1093/jhered/esad015.

Actinemys marmorata (Pacific pond turtle) :

2022 Todd, B.D., Jenkinson, T.S., Escalona, M., Beraut, E., Nguyen, O., Sahasrabudhe, R., Scott, P.A., Toffelmier, E., Wang, I.J., Shaffer, H.B. :
Reference genome of the northwestern pond turtle, Actinemys marmorata. J Hered 113:624-631, 2022. Pubmed reference: 35665811 . DOI: 10.1093/jhered/esac021.

Agapornis roseicollis (peach-faced lovebird) :

2018 van der Zwan, H., van der Westhuizen, F., Visser, C., van der Sluis, R. :
Draft de novo genome sequence of Agapornis roseicollis for application in avian breeding. Anim Biotechnol 29:241-246, 2018. Pubmed reference: 29035135 . DOI: 10.1080/10495398.2017.1367692.

Agelaius tricolor (tricolored blackbird) :

2022 Ballare, K.M., Escalona, M., Barr, K., Seligmann, W., Sacco, S., Sahasrabudhe, R.M., Nguyen, O., Wyckoff, C., Smith, T.B., Shapiro, B. :
A reference genome assembly of the declining tricolored blackbird, Agelaius tricolor. J Hered :, 2022. Pubmed reference: 36099176 . DOI: 10.1093/jhered/esac053.

Ahaetulla prasina (Asian vine snakes) :

2023 Tang, C.Y., Zhang, X., Xu, X., Sun, S., Peng, C., Song, M.H., Yan, C., Sun, H., Liu, M., Xie, L., Luo, S.J., Li, J.T. :
Genetic mapping and molecular mechanism behind color variation in the Asian vine snake. Genome Biol 24:46, 2023. Pubmed reference: 36895044 . DOI: 10.1186/s13059-023-02887-z.

Alligator mississippiensis (American alligator) :

2017 Rice, E.S., Kohno, S., John, J.S., Pham, S., Howard, J., Lareau, L.F., O'Connell, B.L., Hickey, G., Armstrong, J., Deran, A., Fiddes, I., Platt, R.N., Gresham, C., McCarthy, F., Kern, C., Haan, D., Phan, T., Schmidt, C., Sanford, J.R., Ray, D.A., Paten, B., Guillette, L.J., Green, R.E. :
Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling. Genome Res :, 2017. Pubmed reference: 28137821 . DOI: 10.1101/gr.213595.116.
2014 Green, R.E., Braun, E.L., Armstrong, J., Earl, D., Nguyen, N., Hickey, G., Vandewege, M.W., St John, J.A., Capella-Gutiérrez, S., Castoe, T.A., Kern, C., Fujita, M.K., Opazo, J.C., Jurka, J., Kojima, K.K., Caballero, J., Hubley, R.M., Smit, A.F., Platt, R.N., Lavoie, C.A., Ramakodi, M.P., Finger, J.W., Suh, A., Isberg, S.R., Miles, L., Chong, A.Y., Jaratlerdsiri, W., Gongora, J., Moran, C., Iriarte, A., McCormack, J., Burgess, S.C., Edwards, S.V., Lyons, E., Williams, C., Breen, M., Howard, J.T., Gresham, C.R., Peterson, D.G., Schmitz, J., Pollock, D.D., Haussler, D., Triplett, E.W., Zhang, G., Irie, N., Jarvis, E.D., Brochu, C.A., Schmidt, C.J., McCarthy, F.M., Faircloth, B.C., Hoffmann, F.G., Glenn, T.C., Gabaldón, T., Paten, B., Ray, D.A. :
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science 346:1254449, 2014. Pubmed reference: 25504731 . DOI: 10.1126/science.1254449.

Amazona vittata (Puerto Rican parrot) :

2012 Oleksyk, T.K., Pombert, J.F., Siu, D., Mazo-Vargas, A., Ramos, B., Guiblet, W., Afanador, Y., Ruiz-Rodriguez, C.T., Nickerson, M.L., Logue, D.M., Dean, M., Figueroa, L., Valentin, R., Martinez-Cruzado, J.C. :
A locally funded Puerto Rican parrot (Amazona vittata) genome sequencing project increases avian data and advances young researcher education. Gigascience 1:14, 2012. Pubmed reference: 23587420 . DOI: 10.1186/2047-217X-1-14.

Amblyraja radiata (thorny skate) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Amia calva (bowfin) :

2021 Thompson, A.W., Hawkins, M.B., Parey, E., Wcisel, D.J., Ota, T., Kawasaki, K., Funk, E., Losilla, M., Fitch, O.E., Pan, Q., Feron, R., Louis, A., Montfort, J., Milhes, M., Racicot, B.L., Childs, K.L., Fontenot, Q., Ferrara, A., David, S.R., McCune, A.R., Dornburg, A., Yoder, J.A., Guiguen, Y., Roest Crollius, H., Berthelot, C., Harris, M.P., Braasch, I. :
The bowfin genome illuminates the developmental evolution of ray-finned fishes. Nat Genet 53:1373-84, 2021. Pubmed reference: 34462605 . DOI: 10.1038/s41588-021-00914-y.

Anas platyrhynchos (Mallard) :

2021 Zhu, F., Yin, Z.T., Wang, Z., Smith, J., Zhang, F., Martin, F., Ogeh, D., Hincke, M., Lin, F.B., Burt, D.W., Zhou, Z.K., Hou, S.S., Zhao, Q.S., Li, X.Q., Ding, S.R., Li, G.S., Yang, F.X., Hao, J.P., Zhang, Z., Lu, L.Z., Yang, N., Hou, Z.C. :
Three chromosome-level duck genome assemblies provide insights into genomic variation during domestication. Nat Commun 12:5932, 2021. Pubmed reference: 34635656 . DOI: 10.1038/s41467-021-26272-1.
2013 Huang, Y., Li, Y., Burt, D.W., Chen, H., Zhang, Y., Qian, W., Kim, H., Gan, S., Zhao, Y., Li, J., Yi, K., Feng, H., Zhu, P., Li, B., Liu, Q., Fairley, S., Magor, K.E., Du, Z., Hu, X., Goodman, L., Tafer, H., Vignal, A., Lee, T., Kim, K.W., Sheng, Z., An, Y., Searle, S., Herrero, J., Groenen, M.A., Crooijmans, R.P., Faraut, T., Cai, Q., Webster, R.G., Aldridge, J.R., Warren, W.C., Bartschat, S., Kehr, S., Marz, M., Stadler, P.F., Smith, J., Kraus, R.H., Zhao, Y., Ren, L., Fei, J., Morisson, M., Kaiser, P., Griffin, D.K., Rao, M., Pitel, F., Wang, J., Li, N. :
The duck genome and transcriptome provide insight into an avian influenza virus reservoir species. Nat Genet 45:776-83, 2013. Pubmed reference: 23749191 . DOI: 10.1038/ng.2657.

Andrias davidianus (Chinese giant salamander) :

2021 Hu, Q., Liu, Y., Liao, X., Tian, H., Ji, X., Zhu, J., Xiao, H. :
A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander. BMC Genomics 22:230, 2021. Pubmed reference: 33794798 . DOI: 10.1186/s12864-021-07550-0.

Anser cygnoides (swan goose) :

2023 Ni, H., Zhang, Y., Yang, Y., Yin, Y., Xie, H., Zheng, J., Dong, L., Diao, J., Wei, M., Lv, Z., Yan, S., Li, Y., Sun, H., Sun, X. :
Whole genome sequencing of a wild swan goose population. Front Genet 14:1038606, 2023. Pubmed reference: 36911404 . DOI: 10.3389/fgene.2023.1038606.
2022 Zhang, Y., Ni, H., Xie, H., Yin, Y., Zheng, J., Dong, L., Diao, J., Yan, S., Yang, Y., Sun, H., Sun, X. :
De novo assembly of a wild swan goose (Anser cygnoides) genome. Anim Genet 53:878-880, 2022. Pubmed reference: 36086875 . DOI: 10.1111/age.13262.
2015 Lu, L., Chen, Y., Wang, Z., Li, X., Chen, W., Tao, Z., Shen, J., Tian, Y., Wang, D., Li, G., Chen, L., Chen, F., Fang, D., Yu, L., Sun, Y., Ma, Y., Li, J., Wang, J. :
The goose genome sequence leads to insights into the evolution of waterfowl and susceptibility to fatty liver. Genome Biol 16:89, 2015. Pubmed reference: 25943208 . DOI: 10.1186/s13059-015-0652-y.

Ara macao (scarlet macaw) :

2013 Seabury, C.M., Dowd, S.E., Seabury, P.M., Raudsepp, T., Brightsmith, D.J., Liboriussen, P., Halley, Y., Fisher, C.A., Owens, E., Viswanathan, G., Tizard, I.R. :
A multi-platform draft de novo genome assembly and comparative analysis for the Scarlet Macaw (Ara macao). PLoS One 8:e62415, 2013. Pubmed reference: 23667475 . DOI: 10.1371/journal.pone.0062415.

Aratinga solstitialis (sun parakeet) :

2020 Gelabert, P., Sandoval-Velasco, M., Serres, A., de Manuel, M., Renom, P., Margaryan, A., Stiller, J., de-Dios, T., Fang, Q., Feng, S., Mañosa, S., Pacheco, G., Ferrando-Bernal, M., Shi, G., Hao, F., Chen, X., Petersen, B., Olsen, R.A., Navarro, A., Deng, Y., Dalén, L., Marquès-Bonet, T., Zhang, G., Antunes, A., Gilbert, M.T.P., Lalueza-Fox, C. :
Evolutionary history, genomic adaptation to toxic diet, and extinction of the Carolina parakeet. Curr Biol 30:108-114.e5, 2020. Pubmed reference: 31839456 . DOI: 10.1016/j.cub.2019.10.066.

Archocentrus centrarchus (flier cichlid) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Arizona elegans occidentalis :

2022 Wood, D.A., Richmond, J.Q., Escalona, M., Marimuthu, M.P.A., Nguyen, O., Sacco, S., Beraut, E., Westphal, M., Fisher, R.N., Vandergast, A.G., Toffelmier, E., Wang, I.J., Shaffer, H.B. :
Reference genome of the California glossy snake, Arizona elegans occidentalis: A declining California species of special concern. J Hered 113:632-640, 2022. Pubmed reference: 35939354 . DOI: 10.1093/jhered/esac040.

Astatotilapia calliptera (eastern happy) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Astyanax mexicanus (Mexican tetra) :

2014 McGaugh, S.E., Gross, J.B., Aken, B., Blin, M., Borowsky, R., Chalopin, D., Hinaux, H., Jeffery, W.R., Keene, A., Ma, L., Minx, P., Murphy, D., O'Quin, K.E., Rétaux, S., Rohner, N., Searle, S.M., Stahl, B.A., Tabin, C., Volff, J.N., Yoshizawa, M., Warren, W.C. :
The cavefish genome reveals candidate genes for eye loss. Nat Commun 5:5307, 2014. Pubmed reference: 25329095 . DOI: 10.1038/ncomms6307.
2002 Borowsky, R., Wilkens, H. :
Mapping a cave fish genome: polygenic systems and regressive evolution. J Hered 93:19-21, 2002. Pubmed reference: 12011170 .

Aythya fuligula (tufted duck) :

2021 Mueller, R.C., Ellström, P., Howe, K., Uliano-Silva, M., Kuo, R.I., Miedzinska, K., Warr, A., Fedrigo, O., Haase, B., Mountcastle, J., Chow, W., Torrance, J., Wood, J.M.D., Järhult, J.D., Naguib, M.M., Olsen, B., Jarvis, E.D., Smith, J., Eöry, L., Kraus, R.H.S. :
A high-quality genome and comparison of short- versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck). Gigascience 10:giab081, 2021. Pubmed reference: 34927191 . DOI: 10.1093/gigascience/giab081.

Bison bison (American bison) :

2021 Dobson, L.K., Zimin, A., Bayles, D., Fritz-Waters, E., Alt, D., Olsen, S., Blanchong, J., Reecy, J., Smith, T.P.L., Derr, J.N. :
De novo assembly and annotation of the North American bison (Bison bison) reference genome and subsequent variant identification. Anim Genet :, 2021. Pubmed reference: 33780561 . DOI: 10.1111/age.13060.
Oppenheimer, J., Rosen, B.D., Heaton, M.P., Vander Ley, B.L., Shafer, W.R., Schuetze, F.T., Stroud, B., Kuehn, L.A., McClure, J.C., Barfield, J.P., Blackburn, H.D., Kalbfleisch, T.S., Bickhart, D.M., Davenport, K.M., Kuhn, K.L., Green, R.E., Shapiro, B., Smith, T.P.L. :
A reference genome assembly of American bison, Bison bison bison. J Hered 112:174-183, 2021. Pubmed reference: 33595645 . DOI: 10.1093/jhered/esab003.

Bombyx mori (domestic silkworm) :

2023 Waizumi, R., Tsubota, T., Jouraku, A., Kuwazaki, S., Yokoi, K., Iizuka, T., Yamamoto, K., Sezutsu, H. :
Highly accurate genome assembly of an improved high-yielding silkworm strain, Nichi01. G3 (Bethesda) :, 2023. Pubmed reference: 36814357 . DOI: 10.1093/g3journal/jkad044.

Bos gaurus (gaur) :

2022 Low, W.Y., Rosen, B.D., Ren, Y., Bickhart, D.M., To, T.H., Martin, F.J., Billis, K., Sonstegard, T.S., Sullivan, S.T., Hiendleder, S., Williams, J.L., Heaton, M.P., Smith, T.P.L. :
Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle. BMC Genomics 23:344, 2022. Pubmed reference: 35508966 . DOI: 10.1186/s12864-022-08561-1.

Bos indicus (zebu) :

2023 Rahman, J.U., Kumar, D., Singh, S.P., Shahi, B.N., Ghosh, A.K., Verma, M.K., Pathak, A., Dar, A.H., Kumar, A., Sharma, R.K. :
Genome-wide identification and annotation of SNPs and their mapping in candidate genes related to milk production and fertility traits in Badri cattle. Trop Anim Health Prod 55:117, 2023. Pubmed reference: 36928332 . DOI: 10.1007/s11250-023-03535-1.

Bos taurus (cattle) :

2023 Song, B., Wang, X., Liang, Z., Ma, J., Huang, D., Wang, Y., de Magalhães, J.P., Rigden, D.J., Meng, J., Liu, G., Chen, K., Wei, Z. :
RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res 51:D1388-D1396, 2023. Pubmed reference: 36062570 . DOI: 10.1093/nar/gkac750.
Sasaki, S., Haga, Y., Wakaguri, H., Abe, K., Suzuki, Y. :
De novo genome assembly of Japanese Black cattle as model of an economically relevant animal. Methods Mol Biol 2632:41-55, 2023. Pubmed reference: 36781720 . DOI: 10.1007/978-1-0716-2996-3_4.
2022 Yang, L., Gao, Y., Li, M., Park, K.E., Liu, S., Kang, X., Liu, M., Oswalt, A., Fang, L., Telugu, B.P., Sattler, C.G., Li, C.J., Cole, J.B., Seroussi, E., Xu, L., Yang, L., Zhou, Y., Li, L., Zhang, H., Rosen, B.D., Van Tassell, C.P., Ma, L., Liu, G.E. :
Genome-wide recombination map construction from single sperm sequencing in cattle. BMC Genomics 23:181, 2022. Pubmed reference: 35247961 . DOI: 10.1186/s12864-022-08415-w.
Raz, R., Roth, Z., Gershoni, M. :
ExAgBov: A public database of annotated variations from hundreds of bovine whole-exome sequencing samples. Sci Data 9:469, 2022. Pubmed reference: 35918364 . DOI: 10.1038/s41597-022-01597-8.
2021 Heaton, M.P., Smith, T.P.L., Bickhart, D.M., Vander Ley, B.L., Kuehn, L.A., Oppenheimer, J., Shafer, W.R., Schuetze, F.T., Stroud, B., McClure, J.C., Barfield, J.P., Blackburn, H.D., Kalbfleisch, T.S., Davenport, K.M., Kuhn, K.L., Green, R.E., Shapiro, B., Rosen, B.D. :
A reference genome assembly of Simmental cattle, Bos taurus taurus. J Hered 112:184-91, 2021. Pubmed reference: 33438035 . DOI: 10.1093/jhered/esab002.
Heaton, M.P., Smith, T.P.L., Bickhart, D.M., Vander Ley, B.L., Kuehn, L.A., Oppenheimer, J., Shafer, W.R., Schuetze, F.T., Stroud, B., McClure, J.C., Barfield, J.P., Blackburn, H.D., Kalbfleisch, T.S., Davenport, K.M., Kuhn, K.L., Green, R.E., Shapiro, B., Rosen, B.D. :
Erratum to: A reference genome assembly of Simmental cattle, Bos taurus taurus. J Hered :, 2021. Pubmed reference: 34436588 . DOI: 10.1093/jhered/esab039.
MacPhillamy, C., Pitchford, W.S., Alinejad-Rokny, H., Low, W.Y. :
Opportunity to improve livestock traits using 3D genomics. Anim Genet :, 2021. Pubmed reference: 34494283 . DOI: 10.1111/age.13135.
Neumann, G.B., Korkuć, P., Arends, D., Wolf, M.J., May, K., Reißmann, M., Elzaki, S., König, S., Brockmann, G.A. :
Design and performance of a bovine 200 k SNP chip developed for endangered German Black Pied cattle (DSN). BMC Genomics 22:905, 2021. Pubmed reference: 34922441 . DOI: 10.1186/s12864-021-08237-2.
2020 De Lorenzi, L., Parma, P. :
Identification of Some Errors in the Genome Assembly of Bovidae by FISH. Cytogenet Genome Res :, 2020. Pubmed reference: 32235117 . DOI: 10.1159/000506221.
Rosen, B.D., Bickhart, D.M., Schnabel, R.D., Koren, S., Elsik, C.G., Tseng, E., Rowan, T.N., Low, W.Y., Zimin, A., Couldrey, C., Hall, R., Li, W., Rhie, A., Ghurye, J., McKay, S.D., Thibaud-Nissen, F., Hoffman, J., Murdoch, B.M., Snelling, W.M., McDaneld, T.G., Hammond, J.A., Schwartz, J.C., Nandolo, W., Hagen, D.E., Dreischer, C., Schultheiss, S.J., Schroeder, S.G., Phillippy, A.M., Cole, J.B., Van Tassell, C.P., Liu, G., Smith, T.P.L., Medrano, J.F. :
De novo assembly of the cattle reference genome with single-molecule sequencing. Gigascience 9:, 2020. Pubmed reference: 32191811 . DOI: 10.1093/gigascience/giaa021.
Triant, D.A., Le Tourneau, J.J., Diesh, C.M., Unni, D.R., Shamimuzzaman, M., Walsh, A.T., Gardiner, J., Goldkamp, A.K., Li, Y., Nguyen, H.N., Roberts, C., Zhao, Z., Alexander, L.J., Decker, J.E., Schnabel, R.D., Schroeder, S.G., Sonstegard, T.S., Taylor, J.F., Rivera, R.M., Hagen, D.E., Elsik, C.G. :
Using online tools at the Bovine Genome Database to manually annotate genes in the new reference genome. Anim Genet :, 2020. Pubmed reference: 32537769 . DOI: 10.1111/age.12962.
2019 Sasaki, S., Muraki, E., Inoue, Y., Suezawa, R., Nikadori, H., Yoshida, Y., Nariai, S., Hideshima, R., Moriwaki, S., Nakashima, R., Uchiyama, K., Yoshinari, K., Takeda, M., Kojima, T. :
Genotypes and allele frequencies of buried SNPs in a bovine single-nucleotide polymorphism array in Japanese Black cattle. Anim Sci J 90:1503-1509, 2019. Pubmed reference: 31599477 . DOI: 10.1111/asj.13293.
Womack, J.E.J. :
Mapping Genes Is Good for You. Annu Rev Anim Biosci 7:1-16, 2019. Pubmed reference: 30296836 . DOI: 10.1146/annurev-animal-020518-114902.
2015 Ma, L., O'Connell, J.R., VanRaden, P.M., Shen, B., Padhi, A., Sun, C., Bickhart, D.M., Cole, J.B., Null, D.J., Liu, G.E., Da, Y., Wiggans, G.R. :
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis. PLoS Genet 11:e1005387, 2015. Pubmed reference: 26540184 . DOI: 10.1371/journal.pgen.1005387.
2013 Kõks, S., Lilleoja, R., Reimann, E., Salumets, A., Reemann, P., Jaakma, Ü. :
Sequencing and annotated analysis of the Holstein cow genome. Mamm Genome 24:309-21, 2013. Pubmed reference: 23893136 . DOI: 10.1007/s00335-013-9464-0.
2012 Boichard, D., Chung, H., Dassonneville, R., David, X., Eggen, A., Fritz, S., Gietzen, K.J., Hayes, B.J., Lawley, C.T., Sonstegard, T.S., Van Tassell, C.P., VanRaden, P.M., Viaud-Martinez, K.A., Wiggans, G.R. :
Design of a bovine low-density SNP array optimized for imputation. PLoS One 7:e34130, 2012. Pubmed reference: 22470530 . DOI: 10.1371/journal.pone.0034130.
2011 Stothard, P., Choi, J.W., Basu, U., Sumner-Thomson, J.M., Meng, Y., Liao, X., Moore, S.S. :
Whole genome resequencing of black Angus and Holstein cattle for SNP and CNV discovery. BMC Genomics 12:559, 2011. Pubmed reference: 22085807 . DOI: 10.1186/1471-2164-12-559.
Rincon, G., Weber, K.L., Eenennaam, A.L., Golden, B.L., Medrano, J.F. :
Hot topic: performance of bovine high-density genotyping platforms in Holsteins and Jerseys. J Dairy Sci 94:6116-21, 2011. Pubmed reference: 22118099 . DOI: 10.3168/jds.2011-4764.
2009 Zimin, A.V., Delcher, A.L., Florea, L., Kelley, D.R., Schatz, M.C., Puiu, D., Hanrahan, F., Pertea, G., Van Tassell, C.P., Sonstegard, T.S., Marçais, G., Roberts, M., Subramanian, P., Yorke, J.A., Salzberg, S.L. :
A whole-genome assembly of the domestic cow, Bos taurus. Genome Biol 10:R42, 2009. Pubmed reference: 19393038 . DOI: 10.1186/gb-2009-10-4-r42.
Bovine Genome Sequencing and Analysis Consortium :
The genome sequence of taurine cattle: a window to ruminant biology and evolution. Science 324:522-8, 2009. Pubmed reference: 19390049 . DOI: 10.1126/science.1169588.
Liu, Y., Qin, X., Song, X.Z., Jiang, H., Shen, Y., Durbin, K.J., Lien, S., Kent, M.P., Sodeland, M., Ren, Y., Zhang, L., Sodergren, E., Havlak, P., Worley, K.C., Weinstock, G.M., Gibbs, R.A. :
Bos taurus genome assembly. BMC Genomics 10:180, 2009. Pubmed reference: 19393050 . DOI: 10.1186/1471-2164-10-180.
Eck, S.H., Benet-Pagès, A., Flisikowski, K., Meitinger, T., Fries, R., Strom, T.M. :
Whole genome sequencing of a single Bos taurus animal for single nucleotide polymorphism discovery. Genome Biol 10:R82, 2009. Pubmed reference: 19660108 . DOI: 10.1186/gb-2009-10-8-r82.
Bovine HapMap Consortium et al. :
Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds. Science 324:528-32, 2009. Pubmed reference: 19390050 . DOI: 10.1126/science.1167936.
Matukumalli, L.K., Lawley, C.T., Schnabel, R.D., Taylor, J.F., Allan, M.F., Heaton, M.P., O'Connell, J., Moore, S.S., Smith, T.P., Sonstegard, T.S., Van Tassell, C.P. :
Development and characterization of a high density SNP genotyping assay for cattle. PLoS One 4:e5350, 2009. Pubmed reference: 19390634 . DOI: 10.1371/journal.pone.0005350.
2008 Van Tassell, C.P., Smith, T.P., Matukumalli, L.K., Taylor, J.F., Schnabel, R.D., Lawley, C.T., Haudenschild, C.D., Moore, S.S., Warren, W.C., Sonstegard, T.S. :
SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nat Methods 5:247-52, 2008. Pubmed reference: 18297082 . DOI: 10.1038/nmeth.1185.
Charlier, C., Coppieters, W., Rollin, F., Desmecht, D., Agerholm, JS., Cambisano, N., Carta, E., Dardano, S., Dive, M., Fasquelle, C., Frennet, JC., Hanset, R., Hubin, X., Jorgensen, C., Karim, L., Kent, M., Harvey, K., Pearce, BR., Simon, P., Tama, N., Nie, H., Vandeputte, S., Lien, S., Longeri, M., Fredholm, M., Harvey, RJ., Georges, M. :
Highly effective SNP-based association mapping and management of recessive defects in livestock. Nat Genet 40:449-54, 2008. Pubmed reference: 18344998 . DOI: 10.1038/ng.96.
2007 Snelling, W.M., Chiu, R., Schein, J.E., Hobbs, M., Abbey, C.A., Adelson, D.L., Aerts, J., Bennett, G.L., Bosdet, I.E., Boussaha, M., Brauning, R., Caetano, A.R., Costa, M.M., Crawford, A.M., Dalrymple, B.P., Eggen, A., Everts-van der Wind, A., Floriot, S., Gautier, M., Gill, C.A., Green, R.D., Holt, R., Jann, O., Jones, S.J., Kappes, S.M., Keele, J.W., de Jong, P.J., Larkin, D.M., Lewin, H.A., McEwan, J.C., McKay, S., Marra, M.A., Mathewson, C.A., Matukumalli, L.K., Moore, S.S., Murdoch, B., Nicholas, F.W., Osoegawa, K., Roy, A., Salih, H., Schibler, L., Schnabel, R.D., Silveri, L., Skow, L.C., Smith, T.P., Sonstegard, T.S., Taylor, J.F., Tellam, R., Van Tassell, C.P., Williams, J.L., Womack, J.E., Wye, N.H., Yang, G., Zhao, S. :
A physical map of the bovine genome. Genome Biol 8:R165, 2007. Pubmed reference: 17697342 . DOI: 10.1186/gb-2007-8-8-r165.
2006 Womack, J.E. :
The bovine genome. Genome Dyn 2:69-78, 2006. Pubmed reference: 18753770 . DOI: 10.1159/000095095.
Jann, O.C., Aerts, J., Jones, M., Hastings, N., Law, A., McKay, S., Marques, E., Prasad, A., Yu, J., Moore, S.S., Floriot, S., Mahé, M.F., Eggen, A., Silveri, L., Negrini, R., Milanesi, E., Ajmone-Marsan, P., Valentini, A., Marchitelli, C., Savarese, M.C., Janitz, M., Herwig, R., Hennig, S., Gorni, C., Connor, E.E., Sonstegard, T.S., Smith, T., Drögemüller, C., Williams, J.L. :
A second generation radiation hybrid map to aid the assembly of the bovine genome sequence. BMC Genomics 7:283, 2006. Pubmed reference: 17087818 . DOI: 10.1186/1471-2164-7-283.
Weikard, R., Goldammer, T., Laurent, P., Womack, J.E., Kuehn, C. :
A gene-based high-resolution comparative radiation hybrid map as a framework for genome sequence assembly of a bovine chromosome 6 region associated with QTL for growth, body composition, and milk performance traits. BMC Genomics 7:53, 2006. Pubmed reference: 16542434 . DOI: 10.1186/1471-2164-7-53.
2003 Larkin, D.M., Everts-van, der, Wind, A., Rebeiz, M., Schweitzer, P.A., Bachman, S., Green, C., Wright, C.L., Campos, E.J., Benson, L.D., Edwards, J., Liu, L., Osoegawa, K., Womack, J.E., de, Jong, P.J., Lewin, H.A. :
A cattle-human comparative map built with cattle BAC-ends and human genome sequence Genome Research 13:1966-72, 2003. Pubmed reference: 12902387 . DOI: 10.1101/gr.1560203.
2002 Drogemuller, C., Bader, A., Wohlke, A., Kuiper, H., Leeb, T., Distl, O. :
A high-resolution comparative RH map of the proximal part of bovine chromosome 1 Animal Genetics 33:271-279, 2002. Pubmed reference: 12139506 .
Reed, K.M., Ihara, N., Mariani, P., Mendoza, K.M., Jensen, L.E., Bellavia, R., de, Leon, F.A.P., Bennett, G.L., Sugimoto, Y., Beattie, C.W. :
High-resolution genetic map of bovine chromosome 29 through focused marker development Cytogenetic & Genome Research 96:210-216, 2002.
Jiang, Z.H., Melville, J.S., Cao, H.H., Kumar, S., Filipski, A., Gibbins, A.M.V. :
Measuring conservation of contiguous sets of autosomal markers on bovine and porcine genomes in relation to the map of the human genome Genome 45:769-776, 2002. Pubmed reference: 12175081 .
Liu, W.S., Mariani, P., Beattie, C.W., Alexander, L.J., Ponce, De, Leon, F.A. :
A radiation hybrid map for the bovine Y Chromosome Mammalian Genome 13:320-6, 2002. Pubmed reference: 12115036 . DOI: 10.1007/s00335-001-2133-8.
Gautier, M., Hayes, H., Eggen, A. :
An extensive and comprehensive radiation hybrid map of bovine Chromosome 15: comparison with human Chromosome 11 Mammalian Genome 13:316-319, 2002. Pubmed reference: 12115035 . DOI: 10.1007/s00335-001-3069-8.
Schlapfer, J., Stahlberger-Saitbekova, N., Comincini, S., Gaillard, C., Hills, D., Meyer, R.K., Williams, J.L., Womack, J., Zurbriggen, A., Dolf, G. :
A higher resolution radiation hybrid map of bovine chromosome 13 Genetics Selection Evolution 34:255-267, 2002.
Williams, J.L., Eggen, A., Ferretti, L., Farr, C.J., Gautier, M., Amati, G., Ball, G., Caramorr, T., Critcher, R., Costa, S., Hextall, P., Hills, D., Jeulin, A., Kiguwa, S.L., Ross, O., Smith, A.L., Saunier, K., Urquhart, B., Waddington, D. :
A bovine whole-genome radiation hybrid panel and outline map Mammalian Genome 13:469-474, 2002. Pubmed reference: 12226714 . DOI: 10.1007/s00335-002-3001-x.
Weikard, R., Kuhn, C., Goldammer, T., Laurent, P., Womack, J.E., Schwerin, M. :
Targeted construction of a high-resolution, integrated, comprehensive, and comparative map for a region specific to bovine chromosome 6 based on radiation hybrid mapping Genomics 79:768-776, 2002. Pubmed reference: 12036290 . DOI: 10.1006/geno.2002.6778.
Antoniou, E., Gallagher, D., Taylor, J., Davis, S., Womack, J., Grosz, M. :
A comparative map of bovine chromosome 25 with human chromosomes 7 and 16 Cytogenetic & Genome Research 97:128-132, 2002.
2001 Sonstegard, T.S., Bennett, G.L., Kalm, E., Kappes, S.M., Lewin, H.A., Olsaker, I., Schmutz, S., Thomsen, H., Vage, D.I., Van, Tassell, C.P., Xu, N. :
Consensus and comprehensive linkage maps of bovine chromosome 25 Animal Genetics 32:114-115, 2001. Pubmed reference: 11421953 .
2000 Band, M.R., Larson, J.H., Rebeiz, M., Green, C.A., Heyen, D.W., Donovan, J., Windish, R., Steining, C., Mahyuddin, P., Womack, J.E., Lewin, H.A. :
An ordered comparative map of the cattle and human genomes Genome Research 10:1359-1368, 2000. Pubmed reference: 10984454 .
Vage, D.I., Olsaker, I., Klungland, H., Gomez-Raya, L., Lien, S. :
A male genetic map designed for quantitative trait loci mapping in Norwegian cattle Acta Agriculturae Scandinavica Section A-Animal Science 50:56-63, 2000.
Ozawa, A., Band, M.R., Larson, J.H., Donovan, J., Green, C.A., Womack, J.E., Lewin, H.A. :
Comparative organization of cattle chromosome 5 revealed by comparative mapping by annotation and sequence similarity and radiation hybrid mapping Proceedings of the National Academy of Sciences of the United States of America 97:4150-4155, 2000. Pubmed reference: 10737760 . DOI: 10.1073/pnas.050007097.
Amarante, M.R.V., Yang, Y.P., Kata, S.R., Lopes, C.R., Womack, J.E. :
RH maps of bovine chromosomes 15 and 29: conservation of human chromosomes 11 and 5 Mammalian Genome 11:364-368, 2000. Pubmed reference: 10790535 .
1999 Gu, Z., Womack, J.E., Kirkpatrick, B.W. :
A radiation hybrid map of bovine chromosome 7 and comparative mapping with human chromosome 19 p arm Mammalian Genome 10:1112-1114, 1999. Pubmed reference: 10556435 .
Rexroad, C.E., Womack, J.E. :
Parallel RH mapping of BTA1 with HSA3 and HSA21 Mammalian Genome 10:1095-1097, 1999. Pubmed reference: 10556430 .
Rexroad, C.E., Schlapfer, J.S., Yang, Y., Harlizius, B., Womack, J.E. :
A radiation hybrid map of bovine chromosome one Animal Genetics 30:325-332, 1999. Pubmed reference: 10582277 .
1998 Yang, Y.P., Rexroad, C.E., Schlapfer, J., Womack, J.E. :
An integrated radiation hybrid map of bovine chromosome 19 and ordered comparative mapping with human chromosome 17 Genomics 48:93-99, 1998. Pubmed reference: 9503021 . DOI: 10.1006/geno.1997.5143.
Band, M., Larson, J.H., Womack, J.E., Lewin, H.A. :
A radiation hybrid map of BTA23 - identification of a chromosomal rearrangement leading to separation of the cattle mhc class ii subregions Genomics 53:269-275, 1998. Pubmed reference: 9799592 . DOI: 10.1006/geno.1998.5507.
Yang, Y.P., Womack, J.E. :
Parallel radiation hybrid mapping - a powerful tool for high-resolution genomic comparison Genome Research 8:731-736, 1998. Pubmed reference: 9685320 .
1997 Agaba, M.K., Kemp, S.J., Barendse, W., Teale, A. :
Comparative mapping in cattle of genes located on human chromosome 18 Mammalian Genome 8:530-532, 1997. Pubmed reference: 9196003 .
Smith, T.P.L., Lopezcorrales, N., Grosz, M.D., Beattie, C.W., Kappes, S.M. :
Anchoring of bovine chromosomes 4, 6, 7, 10, and 14 linkage group telomeric ends via fish analysis of lambda clones Mammalian Genome 8:333-336, 1997. Pubmed reference: 9107677 .
Womack, J.E., Johnson, J.S., Owens, E.K., Rexroad, C.E., Schlapfer, J., Yang, Y.P. :
A whole-genome radiation hybrid panel for bovine gene mapping Mammalian Genome 8:854-856, 1997. Pubmed reference: 9337401 .
Barendse, W. :
A medium density genetic linkage map of the bovine genome (vol 8, pg 21, 1997) Mammalian Genome 8:798, 1997.
Kappes, S.M., Keele, J.W., Stone, R.T., Sonstegard, T.S., Smith, T.P.L., Mcgraw, R.A., Lopezcorrales, N.L., Beattie, C.W. :
A second-generation linkage map of the bovine genome Genome Research 7:235-249, 1997. Pubmed reference: 9074927 .
Ferretti, L., Urquhart, B.G.D., Eggen, A., Olsaker, I., Harlizius, B., Castiglioni, B., Mezzelani, A., Toldo, S.S., Thieven, U., Zhang, Y., Morgan, A.L.G., Teres, V.M., Schwerin, M., Martinburriel, I., Chowdhary, B.P., Erhardt, G., Nijman, I.J., Cribiu, E.P., Barendse, W., Leveziel, H., Fries, R., Williams, J.L. :
Cosmid-derived markers anchoring the bovine genetic map to the physical map Mammalian Genome 8:29-36, 1997. Pubmed reference: 9021144 .
Kalm, E. :
Genome mapping by cattle [German] Archiv fur Tierzucht-Archives of Animal Breeding 40:74-79, 1997.
Beever, J.E., Fisher, S.R., Guerin, G., Lewin, H.A. :
Mapping of eight human chromosome 1 orthologs to cattle chromosomes 3 and 16 Mammalian Genome 8:533-536, 1997. Pubmed reference: 9196004 .
Sonstegard, T.S., Lopezcorrales, N.L., Kappes, S.M., Stone, R.T., Ambady, S., Deleon, F.A.P., Beattie, C.W. :
An integrated genetic and physical map of the bovine x chromosome Mammalian Genome 8:16-20, 1997. Pubmed reference: 9021142 .
Barendse, W., Vaiman, D., Kemp, S.J., Sugimoto, Y., Armitage, S.M., Williams, J.L., Sun, H.S., Eggen, A., Agaba, M., Aleyasin, S.A., Band, M., Bishop, M.D., Buitkamp, J., Byrne, K., Collins, F., Cooper, L., Coppettiers, W., Denys, B., Drinkwater, R.D., Easterday, K., Elduque, C., Ennis, S., Erhardt, G., Ferretti, L., Flavin, N., et al. :
A medium-density genetic linkage map of the bovine genome Mammalian Genome 8:21-28, 1997. Pubmed reference: 9021143 .
1996 Andersson, L., Archibald, A., Ashburner, M., Audun, S., Barendse, W., Bitgood, J., Bottema, C., Broad, T., Brown, S., Burt, D., Charlier, C., Copeland, N., Davis, S., Davisson, M., Edwards, J., Eggen, A., Elgar, G., Eppig, J.T., Franklin, I., Grewe, P., Gill, T., Graves, J.A.M., Hawken, R., Hetzel, J., Hillyard, A., Jacob, H., Jaswinska, L., Jenkins, N., Kunz, H., Levan, G., Lie, O., Lyons, L., Maccarone, P., Mellersh, C., Montgomery, G., Moore, S., Moran, C., Morizot, D., Neff, M., Nicholas, F.W., O'Brien, S.J., Parsons, Y., Peters, J., Postlethwait, J., Raymond, M., Rothschild, M., Schook, L., Sugimoto, Y., Szpirer, C., Tate, M., Taylor, J., Vandeberg, J., Wakefield, M., Wienberg, J., Womack, J. :
Comparative genome organization of vertebrates Mammalian Genome 7:717-734, 1996. Pubmed reference: 8854859 .
Chowdhary, B.P., Fronicke, L., Gustavsson, I., Scherthan, H. :
Comparative analysis of the cattle and human genomes - detection of zoo-FISH and gene mapping-based chromosomal homologies Mammalian Genome 7:297-302, 1996. Pubmed reference: 8661702 .
Beever, J.E., Lewin, H.A., Barendse, W., Andersson, L., Armitage, S.M., Beattie, C.W., Burns, B.M., Davis, S.K., Kappes, S.M., Kirkpatrick, B.W., Ma, R.Z., Mcgraw, R.A., Stone, R.T., Taylor, J.F. :
Report of the first workshop on the genetic map of bovine chromosome 23 Animal Genetics 27:69-75, 1996. Pubmed reference: 8856895 .
Ma, R.Z., Beever, J.E., Da, Y., Green, C.A., Russ, I., Park, C., Heyen, D.W., Everts, R.E., Fisher, S.R., Overton, K.M., Teale, A.J., Kemp, S.J., Hines, H.C., Guerin, G., Lewin, H.A. :
A male linkage map of the cattle (bos taurus) genome Journal of Heredity 87:261-271, 1996. Pubmed reference: 8776874 .
1995 Hawkins, G.A., Toldo, S.S., Bishop, M.D., Kappes, S.M., Fries, R., Beattie, C.W. :
Physical and linkage mapping of the bovine genome with cosmids Mammalian Genome 6:249-254, 1995. Pubmed reference: 7613028 .
Eggen, A., Fries, R. :
An integrated cytogenetic and meiotic map of the bovine genome Animal Genetics 26:215-236, 1995. Pubmed reference: 7661394 .
Georges, M., Nielsen, D., Mackinnon, M., Mishra, A., Okimoto, R., Pasquino, A.T., Sargeant, L.S., Sorensen, A., Steele, M.R., Zhao, X. :
Mapping quantitative trait loci controlling milk production in dairy cattle by exploiting progeny testing. Genetics 139:907-20, 1995. Pubmed reference: 7713441 .
1994 Barendse, W., Armitage, S.M., Kossarek, L.M., Shalom, A., Kirkpatrick, B.W., Ryan, A.M., Clayton, D., Li, L., Neibergs, H.L., Zhang, N., Grosse, W.M., Weiss, J., Creighton, P., Mccarthy, F., Ron, M., Teale, A.J., Fries, R., Mcgraw, R.A., Moore, S.S., Georges, M., Soller, M., Womack, J.E., Hetzel, D.J.S. :
A Genetic Linkage Map of the Bovine Genome Nature Genetics 6:227-235, 1994. Pubmed reference: 8012383 . DOI: 10.1038/ng0394-227.
Beattie, C.W. :
Livestock genome maps Trends in Genetics 10:334-338, 1994. Pubmed reference: 7974748 .
Echard, G., Broad, T.E., Hill, D., Pearce, P. :
Present Status of the Ovine Gene Map (Ovis aries) - Comparison with the Bovine Map (Bos taurus) Mammalian Genome 5:324-332, 1994. Pubmed reference: 8043945 .
Bishop, M.D., Kappes, S.M., Keele, J.W., Stone, R.T., Sunden, S.L.F., Hawkins, G.A., Toldo, S.S., Fries, R., Grosz, M.D., Yoo, J.Y., Beattie, C.W. :
A Genetic Linkage Map for Cattle Genetics 136:619-639, 1994. Pubmed reference: 7908653 .
1993 Vaiman, D., Bahridarwich, I., Mercier, D., Yerle, M., Eggen, A., Leveziel, H., Guerin, G., Gellin, J., Cribiu, E.P. :
Mapping of New Bovine Microsatellites on Cattle Chromosome-15 with Somatic Cell Hybrids, Linkage Analysis, and Fluorescence Insitu Hybridization Mammalian Genome 4:676-679, 1993. Pubmed reference: 8281017 .
Barendse, W., Armitage, S.M., Kirkpatrick, B.W., Moore, S.S., Georges, M., Womack, J.E., Hetzel, J. :
A Genetic Map of Index DNA Loci on Bovine Chromosome 21 Genomics 18:598-601, 1993. Pubmed reference: 8307569 .
Fries, R., Eggen, A., Womack, J.E. :
The Bovine Genome Map (Vol 4, Pg 405, 1993) Mammalian Genome 4:731, 1993.
Toldo, S.S., Fries, R., Steffen, P., Neibergs, H.L., Barendse, W., Womack, J.E., Hetzel, D.J.S., Stranzinger, G. :
Physically Mapped, Cosmid-Derived Microsatellite Markers as Anchor Loci on Bovine Chromosomes Mammalian Genome 4:720-727, 1993. Pubmed reference: 8111120 .
Fries, R., Eggen, A., Womack, J.E. :
The bovine gene map Mammalian Genome 4:405-428, 1993. Pubmed reference: 8104056 .
1989 Fries, R., Beckmann, J.S., Georges, M., Soller, M., Womack, J. :
The bovine gene map. Anim Genet 20:3-29, 1989. Pubmed reference: 2567135 . DOI: 10.1111/j.1365-2052.1989.tb00838.x.

Brachyistius frenatus (kelp perch) :

2023 Toy, J.A., Bernardi, G. :
A high-quality reference genome of the kelp surfperch, Brachyistius frenatus (Embiotocidae), a wide-ranging Eastern Pacific reef fish with no pelagic larval stage. J Hered :, 2023. Pubmed reference: 36790952 . DOI: 10.1093/jhered/esad009.

Bubalus bubalis (water buffalo) :

2022 Khan, A., Singh, K., Jaiswal, S., Raza, M., Jasrotia, R.S., Kumar, A., Gurjar, A.K.S., Kumari, J., Nayan, V., Iquebal, M.A., Angadi, U.B., Rai, A., Datta, T.K., Kumar, D. :
Whole-genome-based web genomic resource for water buffalo (Bubalus bubalis). Front Genet 13:809741, 2022. Pubmed reference: 35480326 . DOI: 10.3389/fgene.2022.809741.
2021 Nascimento, A.V., Romero, A.R.S., Nawaz, M.Y., Cardoso, D.F., Santos, D.J.A., Gondro, C., Tonhati, H. :
An updated Axiom buffalo genotyping array map and mapping of cattle quantitative trait loci to the new water buffalo reference genome assembly. Anim Genet 52:505-8, 2021. Pubmed reference: 34106478 . DOI: 10.1111/age.13103.
2020 El-Khishin, D.A., Ageez, A., Saad, M.E., Ibrahim, A., Shokrof, M., Hassan, L.R., Abouelhoda, M.I. :
Sequencing and assembly of the Egyptian buffalo genome. PLoS One 15:e0237087, 2020. Pubmed reference: 32813723 . DOI: 10.1371/journal.pone.0237087.
2019 Low, W.Y., Tearle, R., Bickhart, D.M., Rosen, B.D., Kingan, S.B., Swale, T., Thibaud-Nissen, F., Murphy, T.D., Young, R., Lefevre, L., Hume, D.A., Collins, A., Ajmone-Marsan, P., Smith, T.P.L., Williams, J.L. :
Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity. Nat Commun 10:260, 2019. Pubmed reference: 30651564 . DOI: 10.1038/s41467-018-08260-0.
2017 Iamartino, D., Nicolazzi, E.L., Van Tassell, C.P., Reecy, J.M., Fritz-Waters, E.R., Koltes, J.E., Biffani, S., Sonstegard, T.S., Schroeder, S.G., Ajmone-Marsan, P., Negrini, R., Pasquariello, R., Ramelli, P., Coletta, A., Garcia, J.F., Ali, A., Ramunno, L., Cosenza, G., de Oliveira, D.A.A., Drummond, M.G., Bastianetto, E., Davassi, A., Pirani, A., Brew, F., Williams, J.L. :
Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis). PLoS One 12:e0185220, 2017. Pubmed reference: 28981529 . DOI: 10.1371/journal.pone.0185220.
Williams, J.L., Iamartino, D., Pruitt, K.D., Sonstegard, T., Smith, T.P.L., Low, W.Y., Biagini, T., Bomba, L., Capomaccio, S., Castiglioni, B., Coletta, A., Corrado, F., Ferré, F., Iannuzzi, L., Lawley, C., Macciotta, N., McClure, M., Mancini, G., Matassino, D., Mazza, R., Milanesi, M., Moioli, B., Morandi, N., Ramunno, L., Peretti, V., Pilla, F., Ramelli, P., Schroeder, S., Strozzi, F., Thibaud-Nissen, F., Zicarelli, L., Ajmone-Marsan, P., Valentini, A., Chillemi, G., Zimin, A. :
Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50). Gigascience 6:1-6, 2017. Pubmed reference: 29048578 . DOI: 10.1093/gigascience/gix088.
1998 Iannuzzi, L. :
A genetic physical map in river buffalo (Bubalus bubalis, 2n=50) Caryologia 51:311-318, 1998.
1997 Dehondt, H.A., Gallagher, D., Oraby, H., Othman, O.E., Bosma, A.A., Womack, J.E., Elnahas, S.M. :
Gene mapping in the river buffalo (Bubalus bubalis l) - five syntenic groups Journal of Animal Breeding & Genetics-Zeitschrift fur Tierzuchtung und Zuchtungsbiologie 114:79-85, 1997.

Cairina moschata (Muscovy duck) :

2021 Jiang, F., Jiang, Y., Wang, W., Xiao, C., Lin, R., Xie, T., Sung, W.K., Li, S., Jakovlić, I., Chen, J., Du, X. :
A chromosome-level genome assembly of Cairina moschata and comparative genomic analyses. BMC Genomics 22:581, 2021. Pubmed reference: 34330207 . DOI: 10.1186/s12864-021-07897-4.

Callipepla californica (California quail) :

2023 Benham, P.M., Cicero, C., Escalona, M., Beraut, E., Marimuthu, M.P.A., Nguyen, O., Nachman, M.W., Bowie, R.C.K. :
A highly contiguous genome assembly for the California quail (Callipepla californica). J Hered :, 2023. Pubmed reference: 36763048 . DOI: 10.1093/jhered/esad008.

Callithrix jacchus (white-tufted-ear marmoset) :

2021 Yang, C., Zhou, Y., Marcus, S., Formenti, G., Bergeron, L.A., Song, Z., Bi, X., Bergman, J., Rousselle, M.M.C., Zhou, C., Zhou, L., Deng, Y., Fang, M., Xie, D., Zhu, Y., Tan, S., Mountcastle, J., Haase, B., Balacco, J., Wood, J., Chow, W., Rhie, A., Pippel, M., Fabiszak, M.M., Koren, S., Fedrigo, O., Freiwald, W.A., Howe, K., Yang, H., Phillippy, A.M., Schierup, M.H., Jarvis, E.D., Zhang, G. :
Evolutionary and biomedical insights from a marmoset diploid genome assembly. Nature 594(7862):227-233, 2021. Pubmed reference: 33910227 . DOI: 10.1038/s41586-021-03535-x.
2020 Jayakumar, V., Ishii, H., Seki, M., Kumita, W., Inoue, T., Hase, S., Sato, K., Okano, H., Sasaki, E., Sakakibara, Y. :
An improved de novo genome assembly of the common marmoset genome yields improved contiguity and increased mapping rates of sequence data. BMC Genomics 21:243, 2020. Pubmed reference: 32241258 . DOI: 10.1186/s12864-020-6657-2.

Calotes versicolor (garden lizard) :

2023 Wang, Q., He, F., Huang, R.Y., Yang, X., Yang, D., Ngatia, J.N., Gong, Y., Xu, Y., Huang, S., Liu, H. :
Draft genome of the oriental garden lizard (Calotes versicolor). Front Genet 14:1091544, 2023. Pubmed reference: 36891152 . DOI: 10.3389/fgene.2023.1091544.

Calypte anna (Anna's hummingbird) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Camelus bactrianus (Bactrian camel) :

2019 Futas, J., Oppelt, J., Jelinek, A., Elbers, J.P., Wijacki, J., Knoll, A., Burger, P.A., Horin, P. :
Natural killer cell receptor genes in camels: Another mammalian model. Front Genet 10:620, 2019. Pubmed reference: 31312212 . DOI: 10.3389/fgene.2019.00620.

Camelus dromedarius (Arabian camel) :

2020 Sabahat, S., Brauning, R., Clarke, S.M., Nadeem, A., Thomson, P.C., Khatkar, M.S. :
SNP discovery and population structure analysis in Lassi and Marecha camel breeds using a genotyping by sequencing method. Anim Genet 51:620-623, 2020. Pubmed reference: 32421863 . DOI: 10.1111/age.12953.
2019 Ruvinskiy, D., Larkin, D.M., Farré, M. :
A near chromosome assembly of the dromedary camel genome. Front Genet 10:32, 2019. Pubmed reference: 30804979 . DOI: 10.3389/fgene.2019.00032.
Futas, J., Oppelt, J., Jelinek, A., Elbers, J.P., Wijacki, J., Knoll, A., Burger, P.A., Horin, P. :
Natural killer cell receptor genes in camels: Another mammalian model. Front Genet 10:620, 2019. Pubmed reference: 31312212 . DOI: 10.3389/fgene.2019.00620.

Campylomormyrus compressirostris :

2023 Cheng, F., Dennis, A.B., Osuoha, J.I., Canitz, J., Kirschbaum, F., Tiedemann, R. :
A new genome assembly of an African weakly electric fish (Campylomormyrus compressirostris, Mormyridae) indicates rapid gene family evolution in Osteoglossomorpha. BMC Genomics 24:129, 2023. Pubmed reference: 36941548 . DOI: 10.1186/s12864-023-09196-6.

Canis lupus (gray wolf) :

2019 Tang, B., Zhou, Q., Dong, L., Li, W., Zhang, X., Lan, L., Zhai, S., Xiao, J., Zhang, Z., Bao, Y., Zhang, Y.P., Wang, G.D., Zhao, W. :
iDog: an integrated resource for domestic dogs and wild canids. Nucleic Acids Res 47:D793-D800, 2019. Pubmed reference: 30371881 . DOI: 10.1093/nar/gky1041.

Canis lupus familiaris (dog) :

2021 Wang, C., Wallerman, O., Arendt, M.L., Sundström, E., Karlsson, Å., Nordin, J., Mäkeläinen, S., Pielberg, G.R., Hanson, J., Ohlsson, Å., Saellström, S., Rönnberg, H., Ljungvall, I., Häggström, J., Bergström, T.F., Hedhammar, Å., Meadows, J.R.S., Lindblad-Toh, K. :
A novel canine reference genome resolves genomic architecture and uncovers transcript complexity. Commun Biol 4:185, 2021. Pubmed reference: 33568770 . DOI: 10.1038/s42003-021-01698-x.
Edwards, R.J., Field, M.A., Ferguson, J.M., Dudchenko, O., Keilwagen, J., Rosen, B.D., Johnson, G.S., Rice, E.S., Hillier, D., Hammond, J.M., Towarnicki, S.G., Omer, A., Khan, R., Skvortsova, K., Bogdanovic, O., Zammit, R.A., Aiden, E.L., Warren, W.C., Ballard, J.W.O. :
Chromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome. BMC Genomics 22:188, 2021. Pubmed reference: 33726677 . DOI: 10.1186/s12864-021-07493-6.
Jagannathan, V., Hitte, C., Kidd, J.M., Masterson, P., Murphy, T.D., Emery, S., Davis, B., Buckley, R.M., Liu, Y.H., Zhang, X.Q., Leeb, T., Zhang, Y.P., Ostrander, E.A., Wang, G.D. :
Dog10K_Boxer_Tasha_1.0: A long-read assembly of the dog reference genome. Genes (Basel) 12:847, 2021. Pubmed reference: 34070911 . DOI: 10.3390/genes12060847.
Serres-Armero, A., Davis, B.W., Povolotskaya, I.S., Morcillo-Suarez, C., Plassais, J., Juan, D., Ostrander, E.A., Marques-Bonet, T. :
Copy number variation underlies complex phenotypes in domestic dog breeds and other canids. Genome Res 31:762-774, 2021. Pubmed reference: 33863806 . DOI: 10.1101/gr.266049.120.
2020 Field, M.A., Rosen, B.D., Dudchenko, O., Chan, E.K.F., Minoche, A.E., Edwards, R.J., Barton, K., Lyons, R.J., Tuipulotu, D.E., Hayes, V.M., D Omer, A., Colaric, Z., Keilwagen, J., Skvortsova, K., Bogdanovic, O., Smith, M.A., Aiden, E.L., Smith, T.P.L., Zammit, R.A., Ballard, J.W.O. :
Canfam_GSD: De novo chromosome-length genome assembly of the German Shepherd Dog (Canis lupus familiaris) using a combination of long reads, optical mapping, and Hi-C. Gigascience 9:, 2020. Pubmed reference: 32236524 . DOI: 10.1093/gigascience/giaa027.
2019 Hayward, J.J., White, M.E., Boyle, M., Shannon, L.M., Casal, M.L., Castelhano, M.G., Center, S.A., Meyers-Wallen, V.N., Simpson, K.W., Sutter, N.B., Todhunter, R.J., Boyko, A.R. :
Imputation of canine genotype array data using 365 whole-genome sequences improves power of genome-wide association studies. PLoS Genet 15:e1008003, 2019. Pubmed reference: 31525180 . DOI: 10.1371/journal.pgen.1008003.
Ostrander, E.A., Wang, G.D., Larson, G., vonHoldt, B.M., Davis, B.W., Jagannathan, V., Hitte, C., Wayne, R.K., Zhang, Y.P. :
Dog10K: an international sequencing effort to advance studies of canine domestication, phenotypes and health. Natl Sci Rev 6:810-824, 2019. Pubmed reference: 31598383 . DOI: 10.1093/nsr/nwz049.
Tang, B., Zhou, Q., Dong, L., Li, W., Zhang, X., Lan, L., Zhai, S., Xiao, J., Zhang, Z., Bao, Y., Zhang, Y.P., Wang, G.D., Zhao, W. :
iDog: an integrated resource for domestic dogs and wild canids. Nucleic Acids Res 47:D793-D800, 2019. Pubmed reference: 30371881 . DOI: 10.1093/nar/gky1041.
2018 Holden, L.A., Arumilli, M., Hytönen, M.K., Hundi, S., Salojärvi, J., Brown, K.H., Lohi, H. :
Assembly and analysis of unmapped genome sequence reads reveal novel sequence and variation in dogs. Sci Rep 8:10862, 2018. Pubmed reference: 30022108 . DOI: 10.1038/s41598-018-29190-3.
2014 Hoeppner, M.P., Lundquist, A., Pirun, M., Meadows, J.R., Zamani, N., Johnson, J., Sundström, G., Cook, A., Fitzgerald, M.G., Swofford, R., Mauceli, E., Moghadam, B.T., Greka, A., Alföldi, J., Abouelleil, A., Aftuck, L., Bessette, D., Berlin, A., Brown, A., Gearin, G., Lui, A., Macdonald, J.P., Priest, M., Shea, T., Turner-Maier, J., Zimmer, A., Lander, E.S., di Palma, F., Lindblad-Toh, K., Grabherr, M.G. :
An improved canine genome and a comprehensive catalogue of coding genes and non-coding transcripts. PLoS One 9:e91172, 2014. Pubmed reference: 24625832 . DOI: 10.1371/journal.pone.0091172.
2010 Wong, A.K., Ruhe, A.L., Dumont, B.L., Robertson, K.R., Guerrero, G., Shull, S.M., Ziegle, J.S., Millon, L.V., Broman, K.W., Payseur, B.A., Neff, M.W. :
A comprehensive linkage map of the dog genome. Genetics 184:595-605, 2010. Pubmed reference: 19966068 . DOI: 10.1534/genetics.109.106831.
2008 Thomas, R., Duke, S.E., Karlsson, E.K., Evans, A., Ellis, P., Lindblad-Toh, K., Langford, C.F., Breen, M. :
A genome assembly-integrated dog 1 Mb BAC microarray: a cytogenetic resource for canine cancer studies and comparative genomic analysis. Cytogenet Genome Res 122:110-21, 2008. Pubmed reference: 19096206 . DOI: 10.1159/000163088.
2007 Thomas, R., Duke, S.E., Bloom, S.K., Breen, T.E., Young, A.C., Feiste, E., Seiser, E.L., Tsai, P.C., Langford, C.F., Ellis, P., Karlsson, E.K., Lindblad-Toh, K., Breen, M. :
A cytogenetically characterized, genome-anchored 10-Mb BAC set and CGH array for the domestic dog. J Hered 98:474-84, 2007. Pubmed reference: 17702974 . DOI: 10.1093/jhered/esm053.
Sargan, D.R., Aguirre-Hernandez, J., Galibert, F., Ostrander, E.A. :
An extended microsatellite set for linkage mapping in the domestic dog. J Hered 98:221-31, 2007. Pubmed reference: 17406025 . DOI: 10.1093/jhered/esm006.
2005 Lindblad-Toh, K., Wade, C.M., Mikkelsen, T.S., Karlsson, E.K., Jaffe, D.B., Kamal, M., Clamp, M., Chang, J.L., Kulbokas, E.J., Zody, M.C., Mauceli, E., Xie, X., Breen, M., Wayne, R.K., Ostrander, E.A., Ponting, C.P., Galibert, F., Smith, D.R., DeJong, P.J., Kirkness, E., Alvarez, P., Biagi, T., Brockman, W., Butler, J., Chin, C.W., Cook, A., Cuff, J., Daly, M.J., DeCaprio, D., Gnerre, S., Grabherr, M., Kellis, M., Kleber, M., Bardeleben, C., Goodstadt, L., Heger, A., Hitte, C., Kim, L., Koepfli, K.P., Parker, H.G., Pollinger, J.P., Searle, S.M., Sutter, N.B., Thomas, R., Webber, C., Baldwin, J., Abebe, A., Abouelleil, A., Aftuck, L., Ait-Zahra, M., Aldredge, T., Allen, N., An, P., Anderson, S., Antoine, C., Arachchi, H., Aslam, A., Ayotte, L., Bachantsang, P., Barry, A., Bayul, T., Benamara, M., Berlin, A., Bessette, D., Blitshteyn, B., Bloom, T., Blye, J., Boguslavskiy, L., Bonnet, C., Boukhgalter, B., Brown, A., Cahill, P., Calixte, N., Camarata, J., Cheshatsang, Y., Chu, J., Citroen, M., Collymore, A., Cooke, P., Dawoe, T., Daza, R., Decktor, K., DeGray, S., Dhargay, N., Dooley, K., Dooley, K., Dorje, P., Dorjee, K., Dorris, L., Duffey, N., Dupes, A., Egbiremolen, O., Elong, R., Falk, J., Farina, A., Faro, S., Ferguson, D., Ferreira, P., Fisher, S., FitzGerald, M., Foley, K., Foley, C., Franke, A., Friedrich, D., Gage, D., Garber, M., Gearin, G., Giannoukos, G., Goode, T., Goyette, A., Graham, J., Grandbois, E., Gyaltsen, K., Hafez, N., Hagopian, D., Hagos, B., Hall, J., Healy, C., Hegarty, R., Honan, T., Horn, A., Houde, N., Hughes, L., Hunnicutt, L., Husby, M., Jester, B., Jones, C., Kamat, A., Kanga, B., Kells, C., Khazanovich, D., Kieu, A.C., Kisner, P., Kumar, M., Lance, K., Landers, T., Lara, M., Lee, W., Leger, J.P., Lennon, N., Leuper, L., LeVine, S., Liu, J., Liu, X., Lokyitsang, Y., Lokyitsang, T., Lui, A., Macdonald, J., Major, J., Marabella, R., Maru, K., Matthews, C., McDonough, S., Mehta, T., Meldrim, J., Melnikov, A., Meneus, L., Mihalev, A., Mihova, T., Miller, K., Mittelman, R., Mlenga, V., Mulrain, L., Munson, G., Navidi, A., Naylor, J., Nguyen, T., Nguyen, N., Nguyen, C., Nguyen, T., Nicol, R., Norbu, N., Norbu, C., Novod, N., Nyima, T., Olandt, P., O'Neill, B., O'Neill, K., Osman, S., Oyono, L., Patti, C., Perrin, D., Phunkhang, P., Pierre, F., Priest, M., Rachupka, A., Raghuraman, S., Rameau, R., Ray, V., Raymond, C., Rege, F., Rise, C., Rogers, J., Rogov, P., Sahalie, J., Settipalli, S., Sharpe, T., Shea, T., Sheehan, M., Sherpa, N., Shi, J., Shih, D., Sloan, J., Smith, C., Sparrow, T., Stalker, J., Stange-Thomann, N., Stavropoulos, S., Stone, C., Stone, S., Sykes, S., Tchuinga, P., Tenzing, P., Tesfaye, S., Thoulutsang, D., Thoulutsang, Y., Topham, K., Topping, I., Tsamla, T., Vassiliev, H., Venkataraman, V., Vo, A., Wangchuk, T., Wangdi, T., Weiand, M., Wilkinson, J., Wilson, A., Yadav, S., Yang, S., Yang, X., Young, G., Yu, Q., Zainoun, J., Zembek, L., Zimmer, A., Lander, E.S. :
Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature 438:803-19, 2005. Pubmed reference: 16341006 . DOI: 10.1038/nature04338.
2004 Switonski, M., Szczerbal, I., Nowacka, J. :
The dog genome map and its use in mammalian comparative genomics. J Appl Genet 45:195-214, 2004. Pubmed reference: 15131351 .
2003 Guyon, R., Lorentzen, T.D., Hitte, C., Kim, L., Cadieu, E., Parker, H.G., Quignon, P., Lowe, J.K., Renier, C., Gelfenbeyn, B., Vignaux, F., DeFrance, H.B., Gloux, S., Mahairas, G.G., Andre, C., Galibert, F., Ostrander, E.A. :
A 1-Mb resolution radiation hybrid map of the canine genome Proceedings of the National Academy of Sciences of the United States of America 100:5296-301, 2003. Pubmed reference: 12700351 . DOI: 10.1073/pnas.0831002100.
Spriggs, H.F., Holmes, N.G., Breen, M.G., Deloukas, P.G., Langford, C.F., Ross, M.T., Carter, N.P., Davis, M.E., Knights, C.E., Smith, A.E., Farr, C.J., McCarthy, L.C., Binns, M.M. :
Construction and integration of radiation-hybrid and cytogenetic maps of dog Chromosome X Mammalian Genome 14:214-21, 2003. Pubmed reference: 12647244 . DOI: 10.1007/s00335-002-3051-0.
Roberts, M.C., Hitte, C.C., Hendrickson, J.A., Hoffmann, D.E., Flickinger, G.H., Rutherford, M.S., Guyon, R.S., Galibert, F.S., Mickelson, J.R. :
Characterization and radiation hybrid mapping of expressed sequence tags from the canine brain Mammalian Genome 14:203-13, 2003. Pubmed reference: 12647243 . DOI: 10.1007/s00335-002-2207-2.
2002 Dukes-McEwan, J., Jackson, I.J. :
The promises and problems of linkage analysis by using the current canine genome map Mammalian Genome 13:667-672, 2002. Pubmed reference: 12461654 . DOI: 10.1007/s00335-002-4004-3.
2001 Breen, M., Jouquand, S., Renier, C., Mellersh, C.S., Hitte, C., Holmes, N.G., Cheron, A., Suter, N., Vignaux, F., Bristow, A.E., Priat, C., McCann, E., Andre, C., Boundy, S., Gitsham, P., Thomas, R., Bridge, W.L., Spriggs, H.F., Ryder, E.J., Curson, A., Sampson, J., Ostrander, E.A., Binns, M.M., Galibert, F. :
Chromosome-specific single-locus FISH probes allow anchorage of an 1800-marker integrated radiation-hybrid/linkage map of the domestic dog genome to all chromosomes Genome Research 11:1784-1795, 2001. Pubmed reference: 11591656 . DOI: 10.1101/gr.189401.
2000 Mellersh, C.S., Hitte, C., Richman, M., Vignaux, F., Priat, C., Jouquand, S., Werner, P., Andre, C., DeRose, S., Patterson, D.F., Ostrander, E.A., Galibert, F. :
An integrated linkage-radiation hybrid map of the canine genome Mammalian Genome 11:120-130, 2000. Pubmed reference: 10656926 .
1999 Vignaux, F., Priat, C., Jouquand, S., Hitte, C., Jiang, Z., Cheron, A., Renier, C., Andre, C., Galibert, F. :
Toward a dog radiation hybrid map Journal of Heredity 90:62-67, 1999. Pubmed reference: 9987906 .
Langston, A.A., Mellersh, C.S., Wiegand, N.A., Acland, G.M., Ray, K., Aguirre, G.D., Ostrander, E.A. :
Toward a framework linkage map of the canine genome Journal of Heredity 90:7-14, 1999. Pubmed reference: 9987896 .
Neff, M.W., Broman, K.W., Mellersh, C.S., Ray, K., Acland, G.M., Aguirre, G.D., Ziegle, J.S., Ostrander, E.A., Rine, J. :
A second-generation genetic linkage map of the domestic dog, Canis familiaris Genetics 151:803-820, 1999. Pubmed reference: 9927471 .
Vignaux, F., Hitte, C., Priat, C., Chuat, J.C., Andre, C., Galibert, F. :
Construction and optimization of a dog whole-genome radiation hybrid panel Mammalian Genome 10:888-894, 1999. Pubmed reference: 10441740 .
Werner, P., Mellersh, C.S., Raducha, M.G., DeRose, S., Acland, G.M., Prociuk, U., Wiegand, N., Aguirre, G.D., Henthorn, P.S., Patterson, D.F., Ostrander, E.A. :
Anchoring of canine linkage groups with chromosome-specific markers Mammalian Genome 10:814-823, 1999. Pubmed reference: 10430668 .
Priat, C., Jiang, Z.H.H., Renier, C., Andre, C., Gailbert, F. :
Characterization of 463 Type I markers suitable for dog genome mapping Mammalian Genome 10:803-813, 1999. Pubmed reference: 10430667 .
Yang, F., O'Brien, P.C.M., Milne, B.S., Graphodatsky, A.S., Solanky, N., Trifonov, V., Rens, W., Sargan, D., Ferguson-Smith, M.A. :
A complete comparative chromosome map for the dog, red fox, and human and its integration with canine genetic maps Genomics 62:189-202, 1999. Pubmed reference: 10610712 . DOI: 10.1006/geno.1999.5989.
Lyons, L.A., Kehler, J.S., O'Brien, S.J. :
Development of comparative anchor tagged sequences (CATS) for canine genome mapping. J Hered 90:15-26, 1999. Pubmed reference: 9987897 .
Dolf, G., Batt, R., Baumle, E., Binns, M., Brenig, B., Bull, B., Dunner, S., Fredholm, M., Gaillard, C., Gerlach, J., Giger, U., Goldspink, G., Graphodatsky, A.S., Holmes, N., Judd, S., Juneja, K., Kelly, E.P., Kent, M.G., King, W.A., Lingaas, F., Long, S.E., Lubas, G., Mariat, D., Marki, U., Matthews, M., et al. :
DogMap: An international collaboration toward a low-resolution canine genetic marker map Journal of Heredity 90:3-6, 1999. Pubmed reference: 9987895 .
1998 Anon. :
Canine genetic linkage map just six months away Veterinary Record 142:383, 1998.
Anon. :
Cornell team helps put dog on the map Canine Practice 23:1 ff., 1998.
Priat, C., Hitte, C., Vignaux, F., Renier, C., Jiang, Z.H., Jouquand, S., Cheron, A., Andre, C., Galibert, F. :
A whole-genome radiation hybrid map of the dog genome Genomics 54:361-378, 1998. Pubmed reference: 9878239 . DOI: 10.1006/geno.1998.5602.
1997 Lingaas, F., Sorensen, A., Juneja, R.K., Johansson, S., Fredholm, M., Wintero, A.K., Sampson, J., Mellersh, C., Curzon, A., Holmes, N.G., Binns, M.M., Dickens, H.F., Ryder, E.J., Gerlach, J., Baumle, E., Dolf, G. :
Towards construction of a canine linkage map - establishment of 16 linkage groups Mammalian Genome 8:218-221, 1997. Pubmed reference: 9069125 .
Leveque, N.W. :
Canine genome mapping a dogged pursuit American Journal of Veterinary Research 58:936-937, 1997.
Mellersh, C.S., Langston, A.A., Acland, G.M., Fleming, M.A., Ray, K., Wiegand, N.A., Francisco, L.V., Gibbs, M., Aguirre, G.D., Ostrander, E.A. :
A linkage map of the canine genome Genomics 46:326-336, 1997. Pubmed reference: 9441735 . DOI: 10.1006/geno.1997.5098.
1996 Anon. :
Canine genome project offers hope for the future Veterinary Record 138:406, 1996.
1993 Miller, S.K. :
Search for Genes That Make Mans Best Friend New Scientist 138:5, 1993.

Capra aegagrus (wild goat) :

2015 Dong, Y., Zhang, X., Xie, M., Arefnezhad, B., Wang, Z., Wang, W., Feng, S., Huang, G., Guan, R., Shen, W., Bunch, R., McCulloch, R., Li, Q., Li, B., Zhang, G., Xu, X., Kijas, J.W., Salekdeh, G.H., Wang, W., Jiang, Y. :
Reference genome of wild goat (capra aegagrus) and sequencing of goat breeds provide insight into genic basis of goat domestication. BMC Genomics 16:431, 2015. Pubmed reference: 26044654 . DOI: 10.1186/s12864-015-1606-1.

Capra hircus (goat) :

2023 Song, B., Wang, X., Liang, Z., Ma, J., Huang, D., Wang, Y., de Magalhães, J.P., Rigden, D.J., Meng, J., Liu, G., Chen, K., Wei, Z. :
RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res 51:D1388-D1396, 2023. Pubmed reference: 36062570 . DOI: 10.1093/nar/gkac750.
Zhang, H., Liang, Y., Chen, S., Xuan, Z., Jiang, Y., Li, R., Cao, Y. :
Full-length transcriptome sequencing reveals extreme incomplete annotation of the goat genome. Anim Genet :, 2023. Pubmed reference: 36849788 . DOI: 10.1111/age.13311.
2021 Bhat, B., Ganai, N.A., Singh, A., Mir, R., Ahmad, S.M., Majeed Zargar, S., Malik, F. :
Changthangi Pashmina goat genome: Sequencing, assembly, and annotation. Front Genet 12:695178, 2021. Pubmed reference: 34354739 . DOI: 10.3389/fgene.2021.695178.
2019 Li, R., Fu, W., Su, R., Tian, X., Du, D., Zhao, Y., Zheng, Z., Chen, Q., Gao, S., Cai, Y., Wang, X., Li, J., Jiang, Y. :
Towards the Complete Goat Pan-Genome by Recovering Missing Genomic Segments From the Reference Genome. Front Genet 10:1169, 2019. Pubmed reference: 31803240 . DOI: 10.3389/fgene.2019.01169.
Wang, F.H., Zhang, L., Li, X.K., Fan, Y.X., Qiao, X., Gong, G., Yan, X.C., Zhang, L.T., Wang, Z.Y., Wang, R.J., Liu, Z.H., Wang, Z.X., He, L., Zhang, Y., Li, J.Q., Zhao, Y.H., Su, R. :
[Progress in goat genome studies]. Yi Chuan 41:928-938, 2019. Pubmed reference: 31624055 . DOI: 10.16288/j.yczz.19-147.
2017 Worley, K.C. :
A golden goat genome. Nat Genet 49:485-486, 2017. Pubmed reference: 28358125 . DOI: 10.1038/ng.3824.
Bickhart, D.M., Rosen, B.D., Koren, S., Sayre, B.L., Hastie, A.R., Chan, S., Lee, J., Lam, E.T., Liachko, I., Sullivan, S.T., Burton, J.N., Huson, H.J., Nystrom, J.C., Kelley, C.M., Hutchison, J.L., Zhou, Y., Sun, J., Crisà, A., Ponce de León, F.A., Schwartz, J.C., Hammond, J.A., Waldbieser, G.C., Schroeder, S.G., Liu, G.E., Dunham, M.J., Shendure, J., Sonstegard, T.S., Phillippy, A.M., Van Tassell, C.P., Smith, T.P. :
Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome. Nat Genet 49:643-650, 2017. Pubmed reference: 28263316 . DOI: 10.1038/ng.3802.
2014 Du, X., Servin, B., Womack, J.E., Cao, J., Yu, M., Dong, Y., Wang, W., Zhao, S. :
An update of the goat genome assembly using dense radiation hybrid maps allows detailed analysis of evolutionary rearrangements in Bovidae. BMC Genomics 15:625, 2014. Pubmed reference: 25052253 . DOI: 10.1186/1471-2164-15-625.
2013 Dong, Y., Xie, M., Jiang, Y., Xiao, N., Du, X., Zhang, W., Tosser-Klopp, G., Wang, J., Yang, S., Liang, J., Chen, W., Chen, J., Zeng, P., Hou, Y., Bian, C., Pan, S., Li, Y., Liu, X., Wang, W., Servin, B., Sayre, B., Zhu, B., Sweeney, D., Moore, R., Nie, W., Shen, Y., Zhao, R., Zhang, G., Li, J., Faraut, T., Womack, J., Zhang, Y., Kijas, J., Cockett, N., Xu, X., Zhao, S., Wang, J., Wang, W. :
Sequencing and automated whole-genome optical mapping of the genome of a domestic goat (Capra hircus). Nat Biotechnol 31:135-41, 2013. Pubmed reference: 23263233 . DOI: 10.1038/nbt.2478.
1998 Schibler, L., Vaiman, D., Oustry, A., Girauddelville, C., Cribiu, E.P. :
Comparative gene mapping - a fine-scale survey of chromosome rearrangements between ruminants and humans Genome Research 8:901-915, 1998. Pubmed reference: 9750190 .
1996 Vaiman, D., Schibler, L., Bourgeois, F., Oustry, A., Amigues, Y., Cribiu, E.P. :
A genetic linkage map of the male goat genome Genetics 144:279-305, 1996. Pubmed reference: 8878693 .

Caranx ignobilis (giant trevally) :

2022 Pickett, B.D., Glass, J.R., Johnson, T.P., Ridge, P.G., Kauwe, J.S.K. :
The genome of a giant (trevally): Caranx ignobilis. GigaByte 2022:gigabyte67, 2022. Pubmed reference: 36824527 . DOI: 10.46471/gigabyte.67.

Carassius auratus (goldfish) :

2021 Li, J.T., Wang, Q., Huang Yang, M.D., Li, Q.S., Cui, M.S., Dong, Z.J., Wang, H.W., Yu, J.H., Zhao, Y.J., Yang, C.R., Wang, Y.X., Sun, X.Q., Zhang, Y., Zhao, R., Jia, Z.Y., Wang, X.Y. :
Parallel subgenome structure and divergent expression evolution of allo-tetraploid common carp and goldfish. Nat Genet 53:1493-1503, 2021. Pubmed reference: 34594040 . DOI: 10.1038/s41588-021-00933-9.
2019 Omori, Y., Kon, T. :
Goldfish: an old and new model system to study vertebrate development, evolution and human disease. J Biochem 165:209-218, 2019. Pubmed reference: 30219851 . DOI: 10.1093/jb/mvy076.

Cervidae (deer) :

2002 Slate, J., Van Stijn, T.C., Anderson, R.M., McEwan, K.M., Maqbool, N.J., Mathias, H.C., Bixley, M.J., Stevens, D.R., Molenaar, A.J., Beever, J.E., Galloway, S.M., Tate, M.L. :
A deer (subfamily cervinae) genetic linkage map and the evolution of ruminant Genomes Genetics 160:1587-1597, 2002. Pubmed reference: 11973312 .
1995 Tate, M.L., Mathias, H.C., Fennessy, P.F., Dodds, K.G., Penty, J.M., Hill, D.F. :
A new gene mapping resource: Interspecies hybrids between Pere David's deer (Elaphurus davidianus) and red deer (Cervus elaphus) Genetics 139:1383-1391, 1995. Pubmed reference: 7768446 .

Cervus elaphus (red deer) :

2021 Vozdova, M., Kubickova, S., Cernohorska, H., Fröhlich, J., Rubes, J. :
Anchoring the CerEla1.0 genome assembly to red deer (Cervus elaphus) and cattle (Bos taurus) chromosomes and specification of evolutionary chromosome rearrangements in cervidae. Animals (Basel) 11:, 2021. Pubmed reference: 34573579 . DOI: 10.3390/ani11092614.
2018 Bana, N.Á., Nyiri, A., Nagy, J., Frank, K., Nagy, T., Stéger, V., Schiller, M., Lakatos, P., Sugár, L., Horn, P., Barta, E., Orosz, L. :
The red deer Cervus elaphus genome CerEla1.0: sequencing, annotating, genes, and chromosomes. Mol Genet Genomics 293:665-684, 2018. Pubmed reference: 29294181 . DOI: 10.1007/s00438-017-1412-3.
2017 Johnston, S.E., Huisman, J., Ellis, P.A., Pemberton, J.M. :
A High-Density Linkage Map Reveals Sexual Dimorphism in Recombination Landscapes in Red Deer (<i>Cervus elaphus</i>). G3 (Bethesda) 7:2859-2870, 2017. Pubmed reference: 28667018 . DOI: 10.1534/g3.117.044198.

Champsocephalus esox (pike icefish) :

2023 Rivera-Colón, A.G., Rayamajhi, N., Fazal Minhas, B., Madrigal, G., Bilyk, K.T., Yoon, V., Hüne, M., Gregory, S., Cheng, C.C., Catchen, J.M. :
Genomics of secondarily temperate adaptation in the only non-antarctic icefish. Mol Biol Evol :, 2023. Pubmed reference: 36806940 . DOI: 10.1093/molbev/msad029.

Champsocephalus gunnari (mackerel icefish) :

2023 Rivera-Colón, A.G., Rayamajhi, N., Fazal Minhas, B., Madrigal, G., Bilyk, K.T., Yoon, V., Hüne, M., Gregory, S., Cheng, C.C., Catchen, J.M. :
Genomics of secondarily temperate adaptation in the only non-antarctic icefish. Mol Biol Evol :, 2023. Pubmed reference: 36806940 . DOI: 10.1093/molbev/msad029.

Channa argus (northern snakehead) :

2017 Xu, J., Bian, C., Chen, K., Liu, G., Jiang, Y., Luo, Q., You, X., Peng, W., Li, J., Huang, Y., Yi, Y., Dong, C., Deng, H., Zhang, S., Zhang, H., Shi, Q., Xu, P. :
Draft genome of the Northern snakehead, Channa argus. Gigascience 6:1-5, 2017. Pubmed reference: 28327946 . DOI: 10.1093/gigascience/gix011.

Charina bottae :

2022 Grismer, J.L., Escalona, M., Miller, C., Beraut, E., Fairbairn, C.W., Marimuthu, M.P.A., Nguyen, O., Toffelmier, E., Wang, I.J., Shaffer, H.B. :
Reference genome of the Rubber Boa, Charina bottae (Serpentes: Boidae). J Hered :, 2022. Pubmed reference: 36056886 . DOI: 10.1093/jhered/esac048.

Chelonia mydas (green sea turtle) :

2023 Dolfo, V., Boissin, E., Tatarata, M., Planes, S. :
Characterization of 25 new microsatellite markers for the green turtle (Chelonia mydas) and cross-species amplification in other marine turtle species. Mol Biol Rep :, 2023. Pubmed reference: 36877349 . DOI: 10.1007/s11033-023-08341-4.

Chlorocebus sabaeus (green monkey) :

2023 Song, B., Wang, X., Liang, Z., Ma, J., Huang, D., Wang, Y., de Magalhães, J.P., Rigden, D.J., Meng, J., Liu, G., Chen, K., Wei, Z. :
RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res 51:D1388-D1396, 2023. Pubmed reference: 36062570 . DOI: 10.1093/nar/gkac750.

Clinocottus analis (woolly sculpin) :

2023 Wright, D.B., Escalona, M., Marimuthu, M.P.A., Sahasrabudhe, R., Nguyen, O., Sacco, S., Beraut, E., Toffelmier, E., Miller, C., Shaffer, H.B., Bernardi, G. :
Reference genome of the Woolly Sculpin, Clinocottus analis. J Hered 114:60-67, 2023. Pubmed reference: 36107748 . DOI: 10.1093/jhered/esac055.

Clupea harengus (Atlantic herring) :

2019 Pettersson, M.E., Rochus, C.M., Han, F., Chen, J., Hill, J., Wallerman, O., Fan, G., Hong, X., Xu, Q., Zhang, H., Liu, S., Liu, X., Haggerty, L., Hunt, T., Martin, F.J., Flicek, P., Bunikis, I., Folkvord, A., Andersson, L. :
A chromosome-level assembly of the Atlantic herring genome-detection of a supergene and other signals of selection. Genome Res 29:1919-1928, 2019. Pubmed reference: 31649060 . DOI: 10.1101/gr.253435.119.
2016 Martinez Barrio, A., Lamichhaney, S., Fan, G., Rafati, N., Pettersson, M., Zhang, H., Dainat, J., Ekman, D., Höppner, M., Jern, P., Martin, M., Nystedt, B., Liu, X., Chen, W., Liang, X., Shi, C., Fu, Y., Ma, K., Zhan, X., Feng, C., Gustafson, U., Rubin, C.J., Sällman Almén, M., Blass, M., Casini, M., Folkvord, A., Laikre, L., Ryman, N., Ming-Yuen Lee, S., Xu, X., Andersson, L. :
The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencing. Elife 5:, 2016. Pubmed reference: 27138043 . DOI: 10.7554/eLife.12081.

Cociella crocodila (crocodile flathead) :

2021 Zhao, R., Lu, Z., Cai, S., Gao, T., Xu, S. :
Whole genome survey and genetic markers development of crocodile flathead Cociella crocodilus. Anim Genet 52:891-895, 2021. Pubmed reference: 34486145 . DOI: 10.1111/age.13136.

Colossoma macropomum (tambaqui) :

2021 Varela, E.S., Bekaert, M., Ganeco-Kirschnik, L.N., Torati, L.S., Shiotsuki, L., de Almeida, F.L., Villela, L.C.V., Rezende, F.P., da Silva Barroso, A., de Freitas, L.E.L., Taggart, J.B., Migaud, H. :
A high-density linkage map and sex-linked markers for the Amazon Tambaqui Colossoma macropomum. BMC Genomics 22:709, 2021. Pubmed reference: 34598670 . DOI: 10.1186/s12864-021-08037-8.

Conuropsis carolinensis (Carolina parakeet) :

2020 Gelabert, P., Sandoval-Velasco, M., Serres, A., de Manuel, M., Renom, P., Margaryan, A., Stiller, J., de-Dios, T., Fang, Q., Feng, S., Mañosa, S., Pacheco, G., Ferrando-Bernal, M., Shi, G., Hao, F., Chen, X., Petersen, B., Olsen, R.A., Navarro, A., Deng, Y., Dalén, L., Marquès-Bonet, T., Zhang, G., Antunes, A., Gilbert, M.T.P., Lalueza-Fox, C. :
Evolutionary history, genomic adaptation to toxic diet, and extinction of the Carolina parakeet. Curr Biol 30:108-114.e5, 2020. Pubmed reference: 31839456 . DOI: 10.1016/j.cub.2019.10.066.

Cottoperca trigloides (channel bull blenny) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Coturnix japonica (Japanese quail) :

2020 Morris, K.M., Hindle, M.M., Boitard, S., Burt, D.W., Danner, A.F., Eory, L., Forrest, H.L., Gourichon, D., Gros, J., Hillier, L.W., Jaffredo, T., Khoury, H., Lansford, R., Leterrier, C., Loudon, A., Mason, A.S., Meddle, S.L., Minvielle, F., Minx, P., Pitel, F., Seiler, J.P., Shimmura, T., Tomlinson, C., Vignal, A., Webster, R.G., Yoshimura, T., Warren, W.C., Smith, J. :
The quail genome: insights into social behaviour, seasonal biology and infectious disease response. BMC Biol 18:14, 2020. Pubmed reference: 32050986 . DOI: 10.1186/s12915-020-0743-4.

Cranoglanis bouderius :

2022 Xu, Y., Shao, F., Chen, W., Ni, L., Peng, Z. :
A chromosome-level genome of the helmet catfish (Cranoglanis bouderius). Front Genet 13:962406, 2022. Pubmed reference: 36035162 . DOI: 10.3389/fgene.2022.962406.

Crocodylus porosus (Australian saltwater crocodile) :

2020 Ghosh, A., Johnson, M.G., Osmanski, A.B., Louha, S., Bayona-Vásquez, N.J., Glenn, T.C., Gongora, J., Green, R.E., Isberg, S., Stevens, R.D., Ray, D.A. :
A high-quality reference genome assembly of the saltwater crocodile, Crocodylus porosus, reveals patterns of selection in crocodylidae. Genome Biol Evol 12:3635-3646, 2020. Pubmed reference: 31821505 . DOI: 10.1093/gbe/evz269.
2014 Green, R.E., Braun, E.L., Armstrong, J., Earl, D., Nguyen, N., Hickey, G., Vandewege, M.W., St John, J.A., Capella-Gutiérrez, S., Castoe, T.A., Kern, C., Fujita, M.K., Opazo, J.C., Jurka, J., Kojima, K.K., Caballero, J., Hubley, R.M., Smit, A.F., Platt, R.N., Lavoie, C.A., Ramakodi, M.P., Finger, J.W., Suh, A., Isberg, S.R., Miles, L., Chong, A.Y., Jaratlerdsiri, W., Gongora, J., Moran, C., Iriarte, A., McCormack, J., Burgess, S.C., Edwards, S.V., Lyons, E., Williams, C., Breen, M., Howard, J.T., Gresham, C.R., Peterson, D.G., Schmitz, J., Pollock, D.D., Haussler, D., Triplett, E.W., Zhang, G., Irie, N., Jarvis, E.D., Brochu, C.A., Schmidt, C.J., McCarthy, F.M., Faircloth, B.C., Hoffmann, F.G., Glenn, T.C., Gabaldón, T., Paten, B., Ray, D.A. :
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science 346:1254449, 2014. Pubmed reference: 25504731 . DOI: 10.1126/science.1254449.

Cyanistes caeruleus (Blue tit) :

2010 Hansson, B., Ljungqvist, M., Dawson, DA., Mueller, JC., Olano-Marin, J., Ellegren, H., Nilsson, JA. :
Avian genome evolution: insights from a linkage map of the blue tit (Cyanistes caeruleus). Heredity 104:67-78, 2010. Pubmed reference: 19707235 . DOI: 10.1038/hdy.2009.107.

Cynomys gunnisoni (Gunnison's prairie dog) :

2020 Tsuchiya, M.T.N., Dikow, R.B., Cassin-Sackett, L. :
First genome sequence of the Gunnison's prairie dog (Cynomys gunnisoni), a keystone species and player in the transmission of sylvatic plague. Genome Biol Evol 12:618-625, 2020. Pubmed reference: 32277812 . DOI: 10.1093/gbe/evaa069.

Cyprinus carpio (common carp) :

2021 Li, J.T., Wang, Q., Huang Yang, M.D., Li, Q.S., Cui, M.S., Dong, Z.J., Wang, H.W., Yu, J.H., Zhao, Y.J., Yang, C.R., Wang, Y.X., Sun, X.Q., Zhang, Y., Zhao, R., Jia, Z.Y., Wang, X.Y. :
Parallel subgenome structure and divergent expression evolution of allo-tetraploid common carp and goldfish. Nat Genet 53:1493-1503, 2021. Pubmed reference: 34594040 . DOI: 10.1038/s41588-021-00933-9.
2014 Xu, P., Zhang, X., Wang, X., Li, J., Liu, G., Kuang, Y., Xu, J., Zheng, X., Ren, L., Wang, G., Zhang, Y., Huo, L., Zhao, Z., Cao, D., Lu, C., Li, C., Zhou, Y., Liu, Z., Fan, Z., Shan, G., Li, X., Wu, S., Song, L., Hou, G., Jiang, Y., Jeney, Z., Yu, D., Wang, L., Shao, C., Song, L., Sun, J., Ji, P., Wang, J., Li, Q., Xu, L., Sun, F., Feng, J., Wang, C., Wang, S., Wang, B., Li, Y., Zhu, Y., Xue, W., Zhao, L., Wang, J., Gu, Y., Lv, W., Wu, K., Xiao, J., Wu, J., Zhang, Z., Yu, J., Sun, X. :
Genome sequence and genetic diversity of the common carp, Cyprinus carpio. Nat Genet 46:1212-9, 2014. Pubmed reference: 25240282 . DOI: 10.1038/ng.3098.
2013 Zhao, L., Zhang, Y., Ji, P., Zhang, X., Zhao, Z., Hou, G., Huo, L., Liu, G., Li, C., Xu, P., Sun, X. :
A dense genetic linkage map for common carp and its integration with a BAC-based physical map. PLoS One 8:e63928, 2013. Pubmed reference: 23704958 . DOI: 10.1371/journal.pone.0063928.

Danio rerio (zebrafish) :

1999 Gates, M.A., Kim, L., Egan, E.S., Cardozo, T., Sirotkin, H.I., Dougan, S.T., Lashkari, D., Abagyan, R., Schier, A.F., Talbot, W.S. :
A genetic linkage map for zebrafish: Comparative analysis and localization of genes and expressed sequences Genome Research 9:334-347, 1999. Pubmed reference: 10207156 .
1998 Knapik, E.W., Goodman, A., Ekker, M., Chevrette, M., Delgado, J., Neuhauss, S., Shimoda, N., Driever, W., Fishman, M.C., Jacob, H.J. :
A microsatellite genetic linkage map for zebrafish (danio rerio) Nature Genetics 18:338-343, 1998. Pubmed reference: 9537415 . DOI: 10.1038/ng0498-338.
Postlethwait, J.H., Yan, Y.L., Gates, M.A., Horne, S., Amores, A., Brownlie, A., Donovan, A., Egan, E.S., Force, A., Gong, Z.Y., Goutel, C., Fritz, A., Kelsh, R., Knapik, E., Liao, E., Paw, B., Ransom, D., Singer, A., Thomson, M., Abduljabbar, T.S., Yelick, P., Beier, D., Joly, J.S., Larhammar, D., Rosa, F., et al. :
Vertebrate genome evolution and the zebrafish gene map Nature Genetics 18:345-349, 1998. Pubmed reference: 9537416 . DOI: 10.1038/ng0498-345.
1996 Johnson, S.L., Gates, M.A., Johnson, M., Talbot, W.S., Horne, S., Baik, K., Rude, S., Wong, J.R., Postlethwait, J.H. :
Centromere-linkage analysis and consolidation of the zebrafish genetic map Genetics 142:1277-1288, 1996. Pubmed reference: 8846904 .

Dascyllus trimaculatus (three spot damselfish) :

2023 Roberts, M.B., Schultz, D.T., Gatins, R., Escalona, M., Bernardi, G. :
Chromosome-level genome of the three-spot damselfish, Dascyllus trimaculatus. G3 (Bethesda) :, 2023. Pubmed reference: 36905099 . DOI: 10.1093/g3journal/jkac339.

Elephantidae (elephants) :

2003 Yang, F., Alkalaeva, E.Z., Perelman, P.L., Pardini, A.T., Harrison, W.R., O'Brien, P.C., Fu, B., Graphodatsky, A.S., Ferguson-Smith, M.A., Robinson, T.J. :
Reciprocal chromosome painting among human, aardvark, and elephant (superorder Afrotheria) reveals the likely eutherian ancestral karyotype. Proc Natl Acad Sci U S A 100:1062-6, 2003. Pubmed reference: 12552116 . DOI: 10.1073/pnas.0335540100.
Frönicke, L., Wienberg, J., Stone, G., Adams, L., Stanyon, R. :
Towards the delineation of the ancestral eutherian genome organization: comparative genome maps of human and the African elephant (Loxodonta africana) generated by chromosome painting. Proc Biol Sci 270:1331-40, 2003. Pubmed reference: 12965023 . DOI: 10.1098/rspb.2003.2383.

Elephas maximus (Asiatic elephant) :

2023 Cernohorska, H., Kubickova, S., Musilova, P., Vozdova, M., Vodicka, R., Rubes, J. :
Supernumerary Marker Chromosome Identified in Asian Elephant (Elephas maximus). Animals (Basel) 13:, 2023. Pubmed reference: 36830488 . DOI: 10.3390/ani13040701.

Embiotoca jacksoni (black perch) :

2022 Bernardi, G., Toy, J.A., Escalona, M., Marimuthu, M.P.A., Sahasrabudhe, R., Nguyen, O., Sacco, S., Beraut, E., Toffelmier, E., Miller, C., Shaffer, H.B. :
Reference genome of the black surfperch, Embiotoca jacksoni (Embiotocidae, Perciformes), a California kelp forest fish that lacks a pelagic larval stage. J Hered 113:657-664, 2022. Pubmed reference: 35809222 . DOI: 10.1093/jhered/esac034.

Enhydra lutris (sea otter) :

2019 Beichman, A.C., Koepfli, K.P., Li, G., Murphy, W., Dobrynin, P., Kliver, S., Tinker, M.T., Murray, M.J., Johnson, J., Lindblad-Toh, K., Karlsson, E.K., Lohmueller, K.E., Wayne, R.K. :
Aquatic adaptation and depleted diversity: A deep dive into the genomes of the sea otter and giant otter. Mol Biol Evol 36:2631-2655, 2019. Pubmed reference: 31212313 . DOI: 10.1093/molbev/msz101.
2017 Jones, S.J., Haulena, M., Taylor, G.A., Chan, S., Bilobram, S., Warren, R.L., Hammond, S.A., Mungall, K.L., Choo, C., Kirk, H., Pandoh, P., Ally, A., Dhalla, N., Tam, A.K.Y., Troussard, A., Paulino, D., Coope, R.J.N., Mungall, A.J., Moore, R., Zhao, Y., Birol, I., Ma, Y., Marra, M., Jones, S.J.M. :
The genome of the Northern sea otter (Enhydra lutris kenyoni). Genes (Basel) 8:, 2017. Pubmed reference: 29232880 . DOI: 10.3390/genes8120379.

Equus asinus (ass) :

2022 Miao, X., Yu, Y., Zhao, Z., Wang, Y., Qian, X., Wang, Y., Li, S., Wang, C. :
Chromosome-level haplotype assembly for Equus asinu. Front Genet 13:738105, 2022. Pubmed reference: 35692816 . DOI: 10.3389/fgene.2022.738105.
2020 Wang, C., Li, H., Guo, Y., Huang, J., Sun, Y., Min, J., Wang, J., Fang, X., Zhao, Z., Wang, S., Zhang, Y., Liu, Q., Jiang, Q., Wang, X., Guo, Y., Yang, C., Wang, Y., Tian, F., Zhuang, G., Fan, Y., Gao, Q., Li, Y., Ju, Z., Li, J., Li, R., Hou, M., Yang, G., Liu, G., Liu, W., Guo, J., Pan, S., Fan, G., Zhang, W., Zhang, R., Yu, J., Zhang, X., Yin, Q., Ji, C., Jin, Y., Yue, G., Liu, M., Xu, J., Liu, S., Jordana, J., Noce, A., Amills, M., Wu, D.D., Li, S., Zhou, X., Zhong, J. :
Donkey genomes provide new insights into domestication and selection for coat color. Nat Commun 11:6014, 2020. Pubmed reference: 33293529 . DOI: 10.1038/s41467-020-19813-7.

Equus caballus (horse) :

2023 Peng, S., Dahlgren, A.R., Donnelly, C.G., Hales, E.N., Petersen, J.L., Bellone, R.R., Kalbfleisch, T., Finno, C.J. :
Functional annotation of the animal genomes: An integrated annotation resource for the horse. PLoS Genet 19:e1010468, 2023. Pubmed reference: 36862752 . DOI: 10.1371/journal.pgen.1010468.
2021 Peng, S., Petersen, J.L., Bellone, R.R., Kalbfleisch, T., Kingsley, N.B., Barber, A.M., Cappelletti, E., Giulotto, E., Finno, C.J. :
Decoding the equine genome: Lessons from ENCODE. Genes (Basel) 12:1707, 2021. Pubmed reference: 34828313 . DOI: 10.3390/genes12111707.
Durward-Akhurst, S.A., Schaefer, R.J., Grantham, B., Carey, W.K., Mickelson, J.R., McCue, M.E. :
Genetic variation and the distribution of variant types in the horse. Front Genet 12:758366, 2021. Pubmed reference: 34925451 . DOI: 10.3389/fgene.2021.758366.
2020 Beeson, S.K., Mickelson, J.R., McCue, M.E. :
Equine recombination map updated to EquCab3.0. Anim Genet 51:341-2, 2020. Pubmed reference: 31887785 . DOI: 10.1111/age.12898.
Schaefer, R.J., McCue, M.E. :
Equine genotyping arrays. Vet Clin North Am Equine Pract 36:183-93, 2020. Pubmed reference: 32534852 . DOI: 10.1016/j.cveq.2020.03.001.
2018 Janečka, J.E., Davis, B.W., Ghosh, S., Paria, N., Das, P.J., Orlando, L., Schubert, M., Nielsen, M.K., Stout, T.A.E., Brashear, W., Li, G., Johnson, C.D., Metz, R.P., Zadjali, A.M.A., Love, C.C., Varner, D.D., Bellott, D.W., Murphy, W.J., Chowdhary, B.P., Raudsepp, T. :
Horse Y chromosome assembly displays unique evolutionary features and putative stallion fertility genes. Nat Commun 9:2945, 2018. Pubmed reference: 30054462 . DOI: 10.1038/s41467-018-05290-6.
Kalbfleisch, T.S., Rice, E.S., DePriest, M.S., Walenz, B.P., Hestand, M.S., Vermeesch, J.R., O Connell, B.L., Fiddes, I.T., Vershinina, A.O., Saremi, N.F., Petersen, J.L., Finno, C.J., Bellone, R.R., McCue, M.E., Brooks, S.A., Bailey, E., Orlando, L., Green, R.E., Miller, D.C., Antczak, D.F., MacLeod, J.N. :
Improved reference genome for the domestic horse increases assembly contiguity and composition. Commun Biol 1:197, 2018. Pubmed reference: 30456315 . DOI: 10.1038/s42003-018-0199-z.
2017 Schaefer, R.J., Schubert, M., Bailey, E., Bannasch, D.L., Barrey, E., Bar-Gal, G.K., Brem, G., Brooks, S.A., Distl, O., Fries, R., Finno, C.J., Gerber, V., Haase, B., Jagannathan, V., Kalbfleisch, T., Leeb, T., Lindgren, G., Lopes, M.S., Mach, N., da Câmara Machado, A., MacLeod, J.N., McCoy, A., Metzger, J., Penedo, C., Polani, S., Rieder, S., Tammen, I., Tetens, J., Thaller, G., Verini-Supplizi, A., Wade, C.M., Wallner, B., Orlando, L., Mickelson, J.R., McCue, M.E. :
Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds. BMC Genomics 18:565, 2017. Pubmed reference: 28750625 . DOI: 10.1186/s12864-017-3943-8.
2012 McCue, M.E., Bannasch, D.L., Petersen, J.L., Gurr, J., Bailey, E., Binns, M.M., Distl, O., Guérin, G., Hasegawa, T., Hill, E.W., Leeb, T., Lindgren, G., Penedo, M.C., Røed, K.H., Ryder, O.A., Swinburne, J.E., Tozaki, T., Valberg, S.J., Vaudin, M., Lindblad-Toh, K., Wade, C.M., Mickelson, J.R. :
A high density SNP array for the domestic horse and extant Perissodactyla: utility for association mapping, genetic diversity, and phylogeny studies. PLoS Genet 8:e1002451, 2012. Pubmed reference: 22253606 . DOI: 10.1371/journal.pgen.1002451.
2010 Mittmann, E.H., Wrede, J., Pook, J., Distl, O. :
Identification of 21 781 equine microsatellites on the horse genome assembly 2.0. Anim Genet 41:222, 2010. Pubmed reference: 19793266 . DOI: 10.1111/j.1365-2052.2009.01970.x.
2009 Wade, C.M., Giulotto, E., Sigurdsson, S., Zoli, M., Gnerre, S., Imsland, F., Lear, T.L., Adelson, D.L., Bailey, E., Bellone, R.R., Blöcker, H., Distl, O., Edgar, R.C., Garber, M., Leeb, T., Mauceli, E., MacLeod, J.N., Penedo, M.C., Raison, J.M., Sharpe, T., Vogel, J., Andersson, L., Antczak, D.F., Biagi, T., Binns, M.M., Chowdhary, B.P., Coleman, S.J., Della Valle, G., Fryc, S., Guérin, G., Hasegawa, T., Hill, E.W., Jurka, J., Kiialainen, A., Lindgren, G., Liu, J., Magnani, E., Mickelson, J.R., Murray, J., Nergadze, S.G., Onofrio, R., Pedroni, S., Piras, M.F., Raudsepp, T., Rocchi, M., Røed, K.H., Ryder, O.A., Searle, S., Skow, L., Swinburne, J.E., Syvänen, A.C., Tozaki, T., Valberg, S.J., Vaudin, M., White, J.R., Zody, M.C. :
Genome sequence, comparative analysis, and population genetics of the domestic horse. Science 326:865-7, 2009. Pubmed reference: 19892987 . DOI: 10.1126/science.1178158.
2008 Raudsepp, T., Gustafson-Seabury, A., Durkin, K., Wagner, M.L., Goh, G., Seabury, C.M., Brinkmeyer-Langford, C., Lee, E.J., Agarwala, R., Stallknecht-Rice, E., Schäffer, A.A., Skow, L.C., Tozaki, T., Yasue, H., Penedo, M.C., Lyons, L.A., Khazanehdari, K.A., Binns, M.M., MacLeod, J.N., Distl, O., Guérin, G., Leeb, T., Mickelson, J.R., Chowdhary, B.P. :
A 4,103 marker integrated physical and comparative map of the horse genome. Cytogenet Genome Res 122:28-36, 2008. Pubmed reference: 18931483 . DOI: 10.1159/000151313.
Chowdhary, B.P., Raudsepp, T. :
The horse genome derby: racing from map to whole genome sequence. Chromosome Res 16:109-27, 2008. Pubmed reference: 18274866 . DOI: 10.1007/s10577-008-1204-z.
Brinkmeyer-Langford, C., Raudsepp, T., Gustafson-Seabury, A., Chowdhary, B.P. :
A BAC contig map over the proximal approximately 3.3 Mb region of horse chromosome 21. Cytogenet Genome Res 120:164-72, 2008. Pubmed reference: 18467843 . DOI: 10.1159/000118758.
2007 Tozaki, T., Swinburne, J., Hirota, K., Hasegawa, T., Ishida, N., Tobe, T. :
Improved resolution of the comparative horse-human map: investigating markers with in silico and linkage mapping approaches. Gene 392:181-6, 2007. Pubmed reference: 17306472 . DOI: 10.1016/j.gene.2006.12.018.
Goh, G., Raudsepp, T., Durkin, K., Wagner, M.L., Schäffer, A.A., Agarwala, R., Tozaki, T., Mickelson, J.R., Chowdhary, B.P. :
High-resolution gene maps of horse chromosomes 14 and 21: additional insights into evolution and rearrangements of HSA5 homologs in mammals. Genomics 89:89-112, 2007. Pubmed reference: 16916595 . DOI: 10.1016/j.ygeno.2006.06.012.
2006 Chowdhary, B.P., Raudsepp, T. :
The horse genome. Genome Dyn 2:97-110, 2006. Pubmed reference: 18753773 . DOI: 10.1159/000095098.
Dierks, C., Mömke, S., Drögemüller, C., Leeb, T., Chowdhary, B.P., Distl, O. :
A high-resolution comparative radiation hybrid map of equine chromosome 4q12-q22. Anim Genet 37:513-7, 2006. Pubmed reference: 16978184 . DOI: 10.1111/j.1365-2052.2006.01510.x.
Leeb, T., Vogl, C., Zhu, B., de Jong, P.J., Binns, M.M., Chowdhary, B.P., Scharfe, M., Jarek, M., Nordsiek, G., Schrader, F., Blöcker, H. :
A human-horse comparative map based on equine BAC end sequences. Genomics 87:772-6, 2006. Pubmed reference: 16603334 . DOI: 10.1016/j.ygeno.2006.03.002.
Perrocheau, M., Boutreux, V., Chadi, S., Mata, X., Decaunes, P., Raudsepp, T., Durkin, K., Incarnato, D., Iannuzzi, L., Lear, T.L., Hirota, K., Hasegawa, T., Zhu, B., de Jong, P., Cribiu, E.P., Chowdhary, B.P., Guérin, G. :
Construction of a medium-density horse gene map. Anim Genet 37:145-55, 2006. Pubmed reference: 16573529 . DOI: 10.1111/j.1365-2052.2005.01401.x.
Wagner, M.L., Raudsepp, T., Goh, G., Agarwala, R., Schaffer, A.A., Dranchak, P.K., Brinkmeyer-Langford, C., Skow, L.C., Chowdhary, B.P., Mickelson, J.R. :
A 1.3-Mb interval map of equine homologs of HSA2. Cytogenet Genome Res 112:227-34, 2006. Pubmed reference: 16484777 . DOI: 10.1159/000089875.
Swinburne, J.E., Boursnell, M., Hill, G., Pettitt, L., Allen, T., Chowdhary, B., Hasegawa, T., Kurosawa, M., Leeb, T., Mashima, S., Mickelson, J.R., Raudsepp, T., Tozaki, T., Binns, M. :
Single linkage group per chromosome genetic linkage map for the horse, based on two three-generation, full-sibling, crossbred horse reference families. Genomics 87:1-29, 2006. Pubmed reference: 16314071 . DOI: 10.1016/j.ygeno.2005.09.001.
2005 Brinkmeyer-Langford, C., Raudsepp, T., Lee, E.J., Goh, G., Schäffer, A.A., Agarwala, R., Wagner, M.L., Tozaki, T., Skow, L.C., Womack, J.E., Mickelson, J.R., Chowdhary, B.P. :
A high-resolution physical map of equine homologs of HSA19 shows divergent evolution compared with other mammals. Mamm Genome 16:631-49, 2005. Pubmed reference: 16180145 . DOI: 10.1007/s00335-005-0023-1.
Gustafson-Seabury, A., Raudsepp, T., Goh, G., Kata, S.R., Wagner, M.L., Tozaki, T., Mickelson, J.R., Womack, J.E., Skow, L.C., Chowdhary, B.P. :
High-resolution RH map of horse chromosome 22 reveals a putative ancestral vertebrate chromosome. Genomics 85:188-200, 2005. Pubmed reference: 15676277 . DOI: 10.1016/j.ygeno.2004.10.012.
Penedo, M.C., Millon, L.V., Bernoco, D., Bailey, E., Binns, M., Cholewinski, G., Ellis, N., Flynn, J., Gralak, B., Guthrie, A., Hasegawa, T., Lindgren, G., Lyons, L.A., Røed, K.H., Swinburne, J.E., Tozaki, T. :
International Equine Gene Mapping Workshop Report: a comprehensive linkage map constructed with data from new markers and by merging four mapping resources. Cytogenet Genome Res 111:5-15, 2005. Pubmed reference: 16093715 . DOI: 10.1159/000085664.
2004 Wagner, M.L., Goh, G., Wu, J.T., Morrison, L.Y., Alexander, L.J., Raudsepp, T., Skow, L.C., Chowdhary, B.P., Mickelson, J.R. :
Sixty-seven new equine microsatellite loci assigned to the equine radiation hybrid map. Anim Genet 35:484-6, 2004. Pubmed reference: 15566483 . DOI: 10.1111/j.1365-2052.2004.01205.x.
Mickelson, J.R., Wagner, M.L., Goh, G., Wu, J.T., Morrison, L.Y., Alexander, L.J., Raudsepp, T., Skow, L.C., Chowdhary, B.P., Swinburne, J.E., Binns, M.M. :
Thirty-five new equine microsatellite loci assigned to genetic linkage and radiation hybrid maps. Anim Genet 35:481-4, 2004. Pubmed reference: 15566482 . DOI: 10.1111/j.1365-2052.2004.01206.x.
Raudsepp, T., Santani, A., Wallner, B., Kata, S.R., Ren, C., Zhang, H.B., Womack, J.E., Skow, L.C., Chowdhary, B.P. :
A detailed physical map of the horse Y chromosome. Proc Natl Acad Sci U S A 101:9321-6, 2004. Pubmed reference: 15197257 . DOI: 10.1073/pnas.0403011101.
Yang, F., Fu, B., O'Brien, P.C., Nie, W., Ryder, O.A., Ferguson-Smith, M.A. :
Refined genome-wide comparative map of the domestic horse, donkey and human based on cross-species chromosome painting: insight into the occasional fertility of mules. Chromosome Res 12:65-76, 2004. Pubmed reference: 14984103 .
Lee, E.J., Raudsepp, T., Kata, S.R., Adelson, D., Womack, J.E., Skow, L.C., Chowdhary, B.P. :
A 1.4-Mb interval RH map of horse chromosome 17 provides detailed comparison with human and mouse homologues. Genomics 83:203-15, 2004. Pubmed reference: 14706449 .
2003 Chowdhary, B.P., Raudsepp, T., Kata, S.R., Goh, G., Millon, L.V., Allan, V., Piumi, F., Guérin, G., Swinburne, J., Binns, M., Lear, T.L., Mickelson, J., Murray, J., Antczak, D.F., Womack, J.E., Skow, L.C. :
The first-generation whole-genome radiation hybrid map in the horse identifies conserved segments in human and mouse genomes. Genome Res 13:742-51, 2003. Pubmed reference: 12671008 . DOI: 10.1101/gr.917503.
Swinburne, J.E., Turner, A., Alexander, L.J., Mickleson, J.R., Binns, M.M. :
Characterization and linkage map assignments for 61 new horse microsatellite loci (AHT49-109). Anim Genet 34:65-8, 2003. Pubmed reference: 12580791 .
Guérin, G., Bailey, E., Bernoco, D., Anderson, I., Antczak, D.F., Bell, K., Biros, I., Bjørnstad, G., Bowling, A.T., Brandon, R., Caetano, A.R., Cholewinski, G., Colling, D., Eggleston, M., Ellis, N., Flynn, J., Gralak, B., Hasegawa, T., Ketchum, M., Lindgren, G., Lyons, L.A., Millon, L.V., Mariat, D., Murray, J., Neau, A., Røed, K., Sandberg, K., Skow, L.C., Tammen, I., Tozaki, T., Van Dyk, E., Weiss, B., Young, A., Ziegle, J. :
The second generation of the International Equine Gene Mapping Workshop half-sibling linkage map. Anim Genet 34:161-8, 2003. Pubmed reference: 12755815 .
2002 O'Rourke, K. :
And coming around the track, looking promising ... the horse genome map. J Am Vet Med Assoc 221:15, 20, 2002. Pubmed reference: 12420810 .
Chowdhary, B.P., Raudsepp, T., Honeycutt, D., Owens, E.K., Piumi, F., Guérin, G., Matise, T.C., Kata, S.R., Womack, J.E., Skow, L.C. :
Construction of a 5000(rad) whole-genome radiation hybrid panel in the horse and generation of a comprehensive and comparative map for ECA11. Mamm Genome 13:89-94, 2002. Pubmed reference: 11889556 . DOI: 10.1007/s00335-001-2089-8.
2001 Lear, T.L., Brandon, R., Piumi, F., Terry, R.R., Guérin, G., Thomas, S., Bailey, E. :
Mapping of 31 horse genes in BACs by FISH. Chromosome Res 9:261-2, 2001. Pubmed reference: 11330401 .
2000 Kiguwa, S.L., Hextall, P., Smith, A.L., Critcher, R., Swinburne, J., Millon, L., Binns, M.M., Goodfellow, P.N., McCarthy, L.C., Farr, C.J., Oakenfull, E.A. :
A horse whole-genome-radiation hybrid panel: chromosome 1 and 10 preliminary maps. Mamm Genome 11:803-5, 2000. Pubmed reference: 10967144 .
Swinburne, J., Gerstenberg, C., Breen, M., Aldridge, V., Lockhart, L., Marti, E., Antczak, D., Eggleston-Stott, M., Bailey, E., Mickelson, J., Røed, K., Lindgren, G., von Haeringen, W., Guérin, G., Bjarnason, J., Allen, T., Binns, M. :
First comprehensive low-density horse linkage map based on two 3-generation, full-sibling, cross-bred horse reference families. Genomics 66:123-34, 2000. Pubmed reference: 10860657 . DOI: 10.1006/geno.2000.6207.
1999 Caetano, A.R., Shiue, Y.L., Lyons, L.A., O'Brien, S.J., Laughlin, T.F., Bowling, A.T., Murray, J.D. :
A comparative gene map of the horse (Equus caballus). Genome Res 9:1239-49, 1999. Pubmed reference: 10613847 .
Guérin, G., Bailey, E., Bernoco, D., Anderson, I., Antczak, D.F., Bell, K., Binns, M.M., Bowling, A.T., Brandon, R., Cholewinski, G., Cothran, E.G., Ellegren, H., Förster, M., Godard, S., Horin, P., Ketchum, M., Lindgren, G., McPartlan, H., Mériaux, J.C., Mickelson, J.R., Millon, L.V., Murray, J., Neau, A., Røed, K., Ziegle, J. :
Report of the International Equine Gene Mapping Workshop: male linkage map. Anim Genet 30:341-54, 1999. Pubmed reference: 10582279 .
Shiue, Y.L., Bickel, L.A., Caetano, A.R., Millon, L.V., Clark, R.S., Eggleston, M.L., Michelmore, R., Bailey, E., Guérin, G., Godard, S., Mickelson, J.R., Valberg, S.J., Murray, J.D., Bowling, A.T. :
A synteny map of the horse genome comprised of 240 microsatellite and RAPD markers. Anim Genet 30:1-9, 1999. Pubmed reference: 10050277 .
1998 Lindgren, G., Sandberg, K., Persson, H., Marklund, S., Breen, M., Sandgren, B., Carlstén, J., Ellegren, H. :
A primary male autosomal linkage map of the horse genome. Genome Res 8:951-66, 1998. Pubmed reference: 9750194 .
Bailey, E., Binns, M.M. :
The Horse Gene Map. ILAR J 39:171-176, 1998. Pubmed reference: 11528075 .

Eremias argus :

2023 Li, W., Du, J., Yang, L., Liang, Q., Yang, M., Zhou, X., Du, W. :
Chromosome-level genome assembly and population genomics of Mongolian racerunner (Eremias argus) provide insights into high-altitude adaptation in lizards. BMC Biol 21:40, 2023. Pubmed reference: 36803146 . DOI: 10.1186/s12915-023-01535-z.

Erythrura gouldiae (Gouldian finch) :

2018 Toomey, M.B., Marques, C.I., Andrade, P., Araújo, P.M., Sabatino, S., Gazda, M.A., Afonso, S., Lopes, R.J., Corbo, J.C., Carneiro, M. :
A non-coding region near Follistatin controls head colour polymorphism in the Gouldian finch. Proc Biol Sci 285:20181788, 2018. Pubmed reference: 30282656 . DOI: 10.1098/rspb.2018.1788.

Eublepharis macularius (Leopard gecko) :

2023 Pinto, B.J., Gamble, T., Smith, C.H., Keating, S.E., Havird, J.C., Chiari, Y. :
The revised reference genome of the leopard gecko (Eublepharis macularius) provides insight into the considerations of genome phasing and assembly. J Hered :, 2023. Pubmed reference: 36869788 . DOI: 10.1093/jhered/esad016.

Eumicrotremus spinosus (Atlantic spiny lumpsucker) :

2023 Pinninti, L.R., Maurstad, M.F., Hoff, S.N.K., Kristensen, T., Noble, L.R., Jentoft, S., Fernandes, J.M.O. :
The complete mitochondrial genome of the Atlantic spiny lumpsucker Eumicrotremus spinosus (Fabricius, 1776). Mitochondrial DNA B Resour 8:364-367, 2023. Pubmed reference: 36926640 . DOI: 10.1080/23802359.2023.2184649.

Felis catus (domestic cat) :

2021 de Groot, M., Anderson, H., Bauer, H., Bauguil, C., Bellone, R.R., Brugidou, R., Buckley, R.M., Dovč, P., Forman, O., Grahn, R.A., Kock, L., Longeri, M., Mouysset-Geniez, S., Qiu, J., Sofronidis, G., van der Goor, L.H.P., Lyons, L.A. :
Standardization of a SNP panel for parentage verification and identification in the domestic cat (Felis silvestris catus). Anim Genet :, 2021. Pubmed reference: 34143521 . DOI: 10.1111/age.13100.
2020 Zhang, W., Schoenebeck, J.J. :
The ninth life of the cat reference genome, Felis_catus. PLoS Genet 16:e1009045, 2020. Pubmed reference: 33091014 . DOI: 10.1371/journal.pgen.1009045.
Buckley, R.M., Davis, B.W., Brashear, W.A., Farias, F.H.G., Kuroki, K., Graves, T., Hillier, L.W., Kremitzki, M., Li, G., Middleton, R.P., Minx, P., Tomlinson, C., Lyons, L.A., Murphy, W.J., Warren, W.C. :
A new domestic cat genome assembly based on long sequence reads empowers feline genomic medicine and identifies a novel gene for dwarfism. PLoS Genet 16:e1008926, 2020. Pubmed reference: 33090996 . DOI: 10.1371/journal.pgen.1008926.
Bredemeyer, K.R., Harris, A.J., Li, G., Zhao, L., Foley, N.M., Roelke-Parker, M., O'Brien, S.J., Lyons, L.A., Warren, W.C., Murphy, W.J. :
Ultracontinuous single haplotype genome assemblies for the domestic cat (Felis catus) and Asian leopard cat (Prionailurus bengalensis). J Hered 112:165-73, 2020. Pubmed reference: 33305796 . DOI: 10.1093/jhered/esaa057.
2019 Gandolfi, B., Alhaddad, H., Abdi, M., Bach, L.H., Creighton, E.K., Davis, B.W., Decker, J.E., Dodman, N.H., Ginns, E.I., Grahn, J.C., Grahn, R.A., Haase, B., Haggstrom, J., Hamilton, M.J., Helps, C.R., Kurushima, J.D., Lohi, H., Longeri, M., Malik, R., Meurs, K.M., Montague, M.J., Mullikin, J.C., Murphy, W.J., Nilson, S.M., Pedersen, N.C., Peterson, C.B., Rusbridge, C., Saif, R., Shelton, G.D., Warren, W.C., Wasim, M., Lyons, L.A. :
Author Correction: Applications and efficiencies of the first cat 63 K DNA array. Sci Rep 9:4664, 2019. Pubmed reference: 30858384 . DOI: 10.1038/s41598-018-38073-6.
2018 Gandolfi, B., Alhaddad, H., Abdi, M., Bach, L.H., Creighton, E.K., Davis, B.W., Decker, J.E., Dodman, N.H., Grahn, J.C., Grahn, R.A., Haase, B., Haggstrom, J., Hamilton, M.J., Helps, C.R., Kurushima, J.D., Lohi, H., Longeri, M., Malik, R., Meurs, K.M., Montague, M.J., Mullikin, J.C., Murphy, W.J., Nilson, S.M., Pedersen, N.C., Peterson, C.B., Rusbridge, C., Saif, R., Shelton, G.D., Warren, W.C., Wasim, M., Lyons, L.A. :
Author Correction: Applications and efficiencies of the first cat 63K DNA array. Sci Rep 8:8746, 2018. Pubmed reference: 29867197 . DOI: 10.1038/s41598-018-26885-5.
Gandolfi, B., Alhaddad, H., Abdi, M., Bach, L.H., Creighton, E.K., Davis, B.W., Decker, J.E., Dodman, N.H., Grahn, J.C., Grahn, R.A., Haase, B., Haggstrom, J., Hamilton, M.J., Helps, C.R., Kurushima, J.D., Lohi, H., Longeri, M., Malik, R., Meurs, K.M., Montague, M.J., Mullikin, J.C., Murphy, W.J., Nilson, S.M., Pedersen, N.C., Peterson, C.B., Rusbridge, C., Saif, R., Shelton, D.G., Warren, W.C., Wasim, M., Lyons, L.A. :
Applications and efficiencies of the first cat 63K DNA array. Sci Rep 8:7024, 2018. Pubmed reference: 29728693 . DOI: 10.1038/s41598-018-25438-0.
2016 Li, G., Hillier, L.W., Grahn, R., Zimin, A.V., David, V.A., Menotti-Raymond, M., Middleton, R., Hannah, S., Hendrickson, S., Makunin, A., O'Brien, S.J., Minx, P., Wilson, R.K., Lyons, L.A., Warren, W.C., Murphy, W.J. :
A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination. G3 (Bethesda) :, 2016. Pubmed reference: 27172201 . DOI: 10.1534/g3.116.028746.
2014 Willet, C.E., Haase, B. :
An updated felCat5 SNP manifest for the Illumina Feline 63k SNP genotyping array. Anim Genet :, 2014. Pubmed reference: 24804964 . DOI: 10.1111/age.12169.
Tamazian, G., Simonov, S., Dobrynin, P., Makunin, A., Logachev, A., Komissarov, A., Shevchenko, A., Brukhin, V., Cherkasov, N., Svitin, A., Koepfli, K.P., Pontius, J., Driscoll, C.A., Blackistone, K., Barr, C., Goldman, D., Antunes, A., Quilez, J., Lorente-Galdos, B., Alkan, C., Marques-Bonet, T., Menotti-Raymond, M., David, V.A., Narfström, K., O'Brien, S.J. :
Annotated features of domestic cat - Felis catus genome. Gigascience 3:13, 2014. Pubmed reference: 25143822 . DOI: 10.1186/2047-217X-3-13.
Montague, M.J., Li, G., Gandolfi, B., Khan, R., Aken, B.L., Searle, S.M., Minx, P., Hillier, L.W., Koboldt, D.C., Davis, B.W., Driscoll, C.A., Barr, C.S., Blackistone, K., Quilez, J., Lorente-Galdos, B., Marques-Bonet, T., Alkan, C., Thomas, G.W., Hahn, M.W., Menotti-Raymond, M., O'Brien, S.J., Wilson, R.K., Lyons, L.A., Murphy, W.J., Warren, W.C. :
Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication. Proc Natl Acad Sci U S A 111:17230-5, 2014. Pubmed reference: 25385592 . DOI: 10.1073/pnas.1410083111.
2012 Bach, L.H., Gandolfi, B., Grahn, J.C., Millon, L.V., Kent, M.S., Narfstrom, K., Cole, S.A., Mullikin, J.C., Grahn, R.A., Lyons, L.A. :
A high-resolution 15,000(Rad) radiation hybrid panel for the domestic cat. Cytogenet Genome Res 137:7-14, 2012. Pubmed reference: 22777158 . DOI: 10.1159/000339416.
2010 Mullikin, J.C., Hansen, N.F., Shen, L., Ebling, H., Donahue, W.F., Tao, W., Saranga, D.J., Brand, A., Rubenfield, M.J., Young, A.C., Cruz, P. :
Light whole genome sequence for SNP discovery across domestic cat breeds. BMC Genomics 11:406, 2010. Pubmed reference: 20576142 . DOI: 10.1186/1471-2164-11-406.
2009 Menotti-Raymond, M., David, V.A., Schäffer, A.A., Tomlin, J.F., Eizirik, E., Phillip, C., Wells, D., Pontius, J.U., Hannah, S.S., O'Brien, S.J. :
An autosomal genetic linkage map of the domestic cat, Felis silvestris catus. Genomics 93:305-13, 2009. Pubmed reference: 19059333 . DOI: 10.1016/j.ygeno.2008.11.004.
2008 Borodin, P.M., Karamysheva, T.V., Rubtsov, N.B. :
[Immunofluorescent analysis of meiotic recombination and interference in the domestic cat]. Tsitologiia 50:62-6, 2008. Pubmed reference: 18409370 .
O'Brien, S.J., Johnson, W., Driscoll, C., Pontius, J., Pecon-Slattery, J., Menotti-Raymond, M. :
State of cat genomics. Trends Genet 24:268-79, 2008. Pubmed reference: 18471926 . DOI: 10.1016/j.tig.2008.03.004.
2007 Pontius, J.U., Mullikin, J.C., Smith, D.R., Agencourt Sequencing Team et al. :
Initial sequence and comparative analysis of the cat genome. Genome Res 17:1675-89, 2007. Pubmed reference: 17975172 . DOI: 10.1101/gr.6380007.
2006 Murphy, W.J. :
The feline genome. Genome Dyn 2:60-8, 2006. Pubmed reference: 18753769 . DOI: 10.1159/000095093.
2003 Menotti-Raymond, M., David, V.A., Roelke, M.E., Chen, Z.Q., Menotti, K.A., Sun, S., Schäffer, A.A., Tomlin, J.F., Agarwala, R., O'Brien, S.J., Murphy, W.J. :
Second-generation integrated genetic linkage/radiation hybrid maps of the domestic cat (Felis catus). J Hered 94:95-106, 2003. Pubmed reference: 12692169 .
2002 O'Brien, S.J., Menotti-Raymond, M., Murphy, W.J., Yuhki, N. :
The Feline Genome Project. Annu Rev Genet 36:657-86, 2002. Pubmed reference: 12359739 . DOI: 10.1146/annurev.genet.36.060602.145553.
2001 Sun, S., Murphy, W.J., Menotti-Raymond, M., O'Brien, S.J. :
Integration of the feline radiation hybrid and linkage maps. Mamm Genome 12:436-41, 2001. Pubmed reference: 11353390 . DOI: 10.1007/s003350010289.
2000 Murphy, W.J., Sun, S., Chen, Z.Q., Yuhki, N., Hirschmann, D., Menotti-Raymond, M., O'Brien, S.J. :
A radiation hybrid map of the cat genome: Implications for comparative mapping Genome Research 10:691-702, 2000. Pubmed reference: 10810092 .
1999 Menotti-Raymond, M., David, V.A., Lyons, L.A., Schäffer, A.A., Tomlin, J.F., Hutton, M.K., O'Brien, S.J. :
A genetic linkage map of microsatellites in the domestic cat (Felis catus). Genomics 57:9-23, 1999. Pubmed reference: 10191079 . DOI: 10.1006/geno.1999.5743.
1997 Obrien, S.J., Cevario, S.J., Martenson, J.S., Thompson, M.A., Nash, W.G., Chang, E., Graves, J.A.M., Spencer, J.A., Cho, K.W., Tsujimoto, H., Lyons, L.A. :
Comparative gene mapping in the domestic cat (felis catus) Journal of Heredity 88:408-414, 1997. Pubmed reference: 9378918 .
Obrien, S.J., Wienberg, J., Lyons, L.A. :
Comparative genomics - lessons from cats [Review] Trends in Genetics 13:393-399, 1997. Pubmed reference: 9351340 .
1995 Rettenberger, G., Klett, C., Zechner, U., Bruch, J., Just, W., Vogel, W., Hameister, H. :
ZOO-FISH analysis - cat and human karyotypes closely resemble the putative ancestral mammalian karyotype Chromosome Research 3:479-486, 1995. Pubmed reference: 8581300 .
1982 O'Brien, S.J., Nash, W.G. :
Genetic mapping in mammals: chromosome map of domestic cat. Science 216:257-65, 1982. Pubmed reference: 7063884 .

Ficedula :

2014 Kawakami, T., Backström, N., Burri, R., Husby, A., Olason, P., Rice, A.M., Alund, M., Qvarnström, A., Ellegren, H. :
Estimation of linkage disequilibrium and interspecific gene flow in Ficedula flycatchers by a newly developed 50k SNP array. Mol Ecol Resour :, 2014. Pubmed reference: 24784959 . DOI: 10.1111/1755-0998.12270.

Gadus morhua (Atlantic cod) :

2012 Ghigliotti, L., Fevolden, S.E., Cheng, C.H., Babiak, I., Dettai, A., Pisano, E. :
Karyotyping and cytogenetic mapping of Atlantic cod (Gadus morhua Linnaeus, 1758). Anim Genet 43:746-52, 2012. Pubmed reference: 22497346 . DOI: 10.1111/j.1365-2052.2012.02343.x.
2009 Higgins, B., Hubert, S., Simpson, G., Stone, C., Bowman, S. :
Characterization of 155 EST-derived microsatellites from Atlantic cod (Gadus morhua) and validation for linkage mapping. Mol Ecol Resour 9:733-7, 2009. Pubmed reference: 21564732 . DOI: 10.1111/j.1755-0998.2008.02475.x.

Gallus gallus (chicken) :

2023 Smith, J., Alfieri, J.M., Anthony, N., Arensburger, P., Athrey, G.N., Balacco, J., Balic, A., Bardou, P., Barela, P., Bigot, Y., Blackmon, H., Borodin, P.M., Carroll, R., Casono, M.C., Charles, M., Cheng, H., Chiodi, M., Cigan, L., Coghill, L.M., Crooijmans, R., Das, N., Davey, S., Davidian, A., Degalez, F., Dekkers, J.M., Derks, M., Diack, A.B., Djikeng, A., Drechsler, Y., Dyomin, A., Fedrigo, O., Fiddaman, S.R., Formenti, G., Frantz, L.A.F., Fulton, J.E., Gaginskaya, E., Galkina, S., Gallardo, R.A., Geibel, J., Gheyas, A., Godinez, C.J.P., Goodell, A., Graves, J.A.M., Griffin, D.K., Haase, B., Han, J.L., Hanotte, O., Henderson, L.J., Hou, Z.C., Howe, K., Huynh, L., Ilatsia, E., Jarvis, E., Johnson, S.M., Kaufman, J., Kelly, T., Kemp, S., Kern, C., Keroack, J.H., Klopp, C., Lagarrigue, S., Lamont, S.J., Lange, M., Lanke, A., Larkin, D.M., Larson, G., Layos, J.K.N., Lebrasseur, O., Malinovskaya, L.P., Martin, R.J., Martin Cerezo, M.L., Mason, A.S., McCarthy, F.M., McGrew, M.J., Mountcastle, J., Muhonja, C.K., Muir, W., Muret, K., Murphy, T., Ng'ang'a, I., Nishibori, M., O'Connor, R.E., Ogugo, M., Okimoto, R., Ouko, O., Patel, H.R., Perini, F., Pigozzi, M.I., Potter, K.C., Price, P.D., Reimer, C., Rice, E.S., Rocos, N., Rogers, T.F., Saelao, P., Schauer, J., Schnabel, R., Schneider, V., Simianer, H., Smith, A., Stevens, M.P., Stiers, K., Tiambo, C.K., Tixier-Boichard, M., Torgasheva, A.A., Tracey, A., Tregaskes, C.A., Vervelde, L., Wang, Y., Warren, W.C., Waters, P.D., Webb, D., Weigend, S., Wolc, A., Wright, A.E., Wright, D., Wu, Z., Yamagata, M., Yang, C., Yin, Z.T., Young, M.C., Zhang, G., Zhao, B., Zhou, H. :
Fourth report on chicken genes and chromosomes 2022. Cytogenet Genome Res :, 2023. Pubmed reference: 36716736 . DOI: 10.1159/000529376.
Huang, Z., Xu, Z., Bai, H., Huang, Y., Kang, N., Ding, X., Liu, J., Luo, H., Yang, C., Chen, W., Guo, Q., Xue, L., Zhang, X., Xu, L., Chen, M., Fu, H., Chen, Y., Yue, Z., Fukagawa, T., Liu, S., Chang, G., Xu, L. :
Evolutionary analysis of a complete chicken genome. Proc Natl Acad Sci U S A 120:e2216641120, 2023. Pubmed reference: 36780517 . DOI: 10.1073/pnas.2216641120.
Jin, S., Jia, Y., Jiang, L., Cao, C., Ding, Y., Zhang, T., Liu, X., Li, Y., Geng, Z. :
Characteristics of the complete mitochondrial genome of Douhua chicken (Gallus gallus) and phylogenetic considerations. J Anim Sci :, 2023. Pubmed reference: 36847733 . DOI: 10.1093/jas/skad064.
2019 Liu, R., Xing, S., Wang, J., Zheng, M., Cui, H., Crooijmans, R.P.M.A., Li, Q., Zhao, G., Wen, J. :
A new chicken 55K SNP genotyping array. BMC Genomics 20:410, 2019. Pubmed reference: 31117951 . DOI: 10.1186/s12864-019-5736-8.
2018 Piégu, B., Arensburger, P., Guillou, F., Bigot, Y. :
But where did the centromeres go in the chicken genome models? Chromosome Res 26:297-306, 2018. Pubmed reference: 30225548 . DOI: 10.1007/s10577-018-9585-0.
2014 Griffin, D., Burt, D.W. :
All chromosomes great and small: 10 years on. Chromosome Res :, 2014. Pubmed reference: 24700106 . DOI: 10.1007/s10577-014-9413-0.
2013 Gheyas, A.A., Burt, D.W. :
Microarray resources for genetic and genomic studies in chicken: A review. Genesis :, 2013. Pubmed reference: 23468091 . DOI: 10.1002/dvg.22387.
Kranis, A., Gheyas, A.A., Boschiero, C., Turner, F., Yu, L., Smith, S., Talbot, R., Pirani, A., Brew, F., Kaiser, P., Hocking, P.M., Fife, M., Salmon, N., Fulton, J., Strom, T.M., Haberer, G., Weigend, S., Preisinger, R., Gholami, M., Qanbari, S., Simianer, H., Watson, K.A., Woolliams, J.A., Burt, D.W. :
Development of a high density 600K SNP genotyping array for chicken. BMC Genomics 14:59, 2013. Pubmed reference: 23356797 . DOI: 10.1186/1471-2164-14-59.
2011 Groenen, M.A., Megens, H.J., Zare, Y., Warren, W.C., Hillier, L.W., Crooijmans, R.P., Vereijken, A., Okimoto, R., Muir, W.M., Cheng, H.H. :
The development and characterization of a 60K SNP chip for chicken. BMC Genomics 12:274, 2011. Pubmed reference: 21627800 . DOI: 10.1186/1471-2164-12-274.
2008 Muir, W.M., Wong, G.K., Zhang, Y., Wang, J., Groenen, M.A.M., Crooijmans, R.P.M.A., Megens, H.-J., Zhang, H.M., McKay, J.C., McLeod, S., Okimoto, R., Fulton, J.E., Settar, P., O'Sullivan, N.P., Vereijken, A., Jungerius-Rattink, A., Albers, G.A.A., Taylor Lawley, C., Delaney, M.E., Cheng, H.H. :
Review of the initial validation and characterization of a chicken 3K SNP array. Worlds Poultry Science Journal 64:219-226, 2008.
2007 Burt, D.W., White, S.J. :
Avian genomics in the 21st century. Cytogenet Genome Res 117:6-13, 2007. Pubmed reference: 17675839 . DOI: 10.1159/000103159.
2006 Burt, D.W. :
The chicken genome. Genome Dyn 2:123-37, 2006. Pubmed reference: 18753775 . DOI: 10.1159/000095100.
Mu, Y.S., Li, H. :
[Latest progress on the chicken genome project]. Yi Chuan 28:617-22, 2006. Pubmed reference: 16735245 .
2005 Burt, D.W. :
Chicken genome: current status and future opportunities. Genome Res 15:1692-8, 2005. Pubmed reference: 16339367 . DOI: 10.1101/gr.4141805.
Schmid, M., Nanda, I., Hoehn, H., Schartl, M., Haaf, T., Buerstedde, J.M., Arakawa, H., Caldwell, R.B., Weigend, S., Burt, D.W., Smith, J., Griffin, D.K., Masabanda, J.S., Groenen, M.A., Crooijmans, R.P., Vignal, A., Fillon, V., Morisson, M., Pitel, F., Vignoles, M., Garrigues, A., Gellin, J., Rodionov, A.V., Galkina, S.A., Lukina, N.A., Ben-Ari, G., Blum, S., Hillel, J., Twito, T., Lavi, U., David, L., Feldman, M.W., Delany, M.E., Conley, C.A., Fowler, V.M., Hedges, S.B., Godbout, R., Katyal, S., Smith, C., Hudson, Q., Sinclair, A., Mizuno, S. :
Second report on chicken genes and chromosomes 2005. Cytogenet Genome Res 109:415-79, 2005. Pubmed reference: 15905640 . DOI: 10.1159/000084205.
2004 Wong, G.K., Liu, B., Wang, J., Zhang, Y., Yang, X., Zhang, Z., Meng, Q., Zhou, J., Li, D., Zhang, J., Ni, P., Li, S., Ran, L., Li, H., Zhang, J., Li, R., Li, S., Zheng, H., Lin, W., Li, G., Wang, X., Zhao, W., Li, J., Ye, C., Dai, M., Ruan, J., Zhou, Y., Li, Y., He, X., Zhang, Y., Wang, J., Huang, X., Tong, W., Chen, J., Ye, J., Chen, C., Wei, N., Li, G., Dong, L., Lan, F., Sun, Y., Zhang, Z., Yang, Z., Yu, Y., Huang, Y., He, D., Xi, Y., Wei, D., Qi, Q., Li, W., Shi, J., Wang, M., Xie, F., Wang, J., Zhang, X., Wang, P., Zhao, Y., Li, N., Yang, N., Dong, W., Hu, S., Zeng, C., Zheng, W., Hao, B., Hillier, L.W., Yang, S.P., Warren, W.C., Wilson, R.K., Brandström, M., Ellegren, H., Crooijmans, R.P., van der Poel, J.J., Bovenhuis, H., Groenen, M.A., Ovcharenko, I., Gordon, L., Stubbs, L., Lucas, S., Glavina, T., Aerts, A., Kaiser, P., Rothwell, L., Young, J.R., Rogers, S., Walker, B.A., van Hateren, A., Kaufman, J., Bumstead, N., Lamont, S.J., Zhou, H., Hocking, P.M., Morrice, D., de Koning, D.J., Law, A., Bartley, N., Burt, D.W., Hunt, H., Cheng, H.H., Gunnarsson, U., Wahlberg, P., Andersson, L., Kindlund, E., Tammi, M.T., Andersson, B., Webber, C., Ponting, C.P., Overton, I.M., Boardman, P.E., Tang, H., Hubbard, S.J., Wilson, S.A., Yu, J., Wang, J., Yang, H. :
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature 432:717-22, 2004. Pubmed reference: 15592405 . DOI: 10.1038/nature03156.
Burt, D.W. :
Chicken genomics charts a path to the genome sequence. Brief Funct Genomic Proteomic 3:60-7, 2004. Pubmed reference: 15163360 .
International Chicken Genome Sequencing Consortium :
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432:695-716, 2004. Pubmed reference: 15592404 . DOI: 10.1038/nature03154.
Wallis, J.W., Aerts, J., Groenen, M.A., Crooijmans, R.P., Layman, D., Graves, T.A., Scheer, D.E., Kremitzki, C., Fedele, M.J., Mudd, N.K., Cardenas, M., Higginbotham, J., Carter, J., McGrane, R., Gaige, T., Mead, K., Walker, J., Albracht, D., Davito, J., Yang, S.P., Leong, S., Chinwalla, A., Sekhon, M., Wylie, K., Dodgson, J., Romanov, M.N., Cheng, H., de Jong, P.J., Osoegawa, K., Nefedov, M., Zhang, H., McPherson, J.D., Krzywinski, M., Schein, J., Hillier, L., Mardis, E.R., Wilson, R.K., Warren, W.C. :
A physical map of the chicken genome. Nature 432:761-4, 2004. Pubmed reference: 15592415 . DOI: 10.1038/nature03030.
2003 Dodgson, J.B. :
Chicken genome sequence: a centennial gift to poultry genetics. Cytogenet Genome Res 102:291-6, 2003. Pubmed reference: 14970719 . DOI: 75765.
2002 Smith, J., Paton, I.R., Murray, F., Crooijmans, R.P.M.A., Groenen, M.A.M., Burt, D.W. :
Comparative mapping of human Chromosome 19 with the chicken shows conserved synteny and gives an insight into chromosomal evolution Mammalian Genome 13:310-315, 2002. Pubmed reference: 12115034 . DOI: 10.1007/s00335-001-3071-1.
2000 Smith, J., Paton, I.R., Bruley, C.K., Windsor, D., Burke, D., de, Leon, F.A.P., Burt, D.W. :
Integration of the genetic and physical maps of the chicken macrochromosomes Animal Genetics 31:20-27, 2000. Pubmed reference: 10690357 .
Groenen, M.A.M., Cheng, H.H., Bumstead, N., Benkel, B.F., Briles, W.E., Burke, T., Burt, D.W., Crittenden, L.B., Dodgson, J., Hillel, J., Lamont, S., de, Leon, A.P., Soller, M., Takahashi, H., Vignal, A. :
A consensus linkage map of the chicken genome Genome Research 10:137-147, 2000. Pubmed reference: 10645958 .
1998 Groenen, M.A.M., Crooijmans, R.P.M.A., Veenendaal, A., Cheng, H.H., Siwek, M., Vanderpoel, J.J. :
A comprehensive microsatellite linkage map of the chicken genome Genomics 49:265-274, 1998. Pubmed reference: 9598314 . DOI: 10.1006/geno.1998.5225.
Burt, D.W., Cheng, H.H. :
The Chicken Gene Map. ILAR J 39:229-236, 1998. Pubmed reference: 11528082 .
1997 Koi, M., Lamb, P.W., Filatov, L., Feinberg, A.P., Barrett, J.C. :
Construction of chicken x human microcell hybrids for human gene targeting Cytogenetics & Cell Genetics 76:72-76, 1997.
1996 Crooijmans, R.P.M.A., Vanoers, P.A.M., Strijk, J.A., Vanderpoel, J.J., Groenen, M.A.M. :
Preliminary linkage map of the chicken (gallus domesticus) genome based on microsatellite markers - 77 new markers mapped Poultry Science 75:746-754, 1996. Pubmed reference: 8737840 .
Crittenden, L.B., Bitgood, J.J., Burt, D.W., Deleon, F.A.P., Tixierboichard, M. :
Nomenclature for naming loci, alleles, linkage groups and chromosomes to be used in poultry genome publications and databases Genetics Selection Evolution 28:289-297, 1996.
1995 Cheng, H.H., Levin, I., Vallejo, R.L., Khatib, H., Dodgson, J.B., Crittenden, L.B., Hillel, J. :
Development of a genetic map of the chicken with markers of high utility Poultry Science 74:1855-1874, 1995. Pubmed reference: 8614694 .
Burt, D.W., Bumstead, N., Bitgood, J.J., Deleon, F.A.P., Crittenden, L.B. :
Chicken genome mapping: A new era in avian genetics Trends in Genetics 11:190-194, 1995. Pubmed reference: 7785078 .
1994 Levin, I., Santangelo, L., Cheng, H., Crittenden, L.B., Dodgson, J.B. :
An Autosomal Genetic Linkage Map of the Chicken Journal of Heredity 85:79-85, 1994. Pubmed reference: 7910177 .
Beattie, C.W. :
Livestock genome maps Trends in Genetics 10:334-338, 1994. Pubmed reference: 7974748 .
1992 Bumstead, N., Palyga, J. :
A Preliminary Linkage Map of the Chicken Genome Genomics 13:690-697, 1992. Pubmed reference: 1353476 .
1990 Bitgood, J.J., Somes, R.G. Jr :
Linkage relationships and gene mapping. In "Poultry Breeding and Genetics" (ed. R.D. Crawford), Elsevier, Amsterdam; Chapter 21 :469-495, 1990.
1949 Warren, DC. :
Linkage relations of autosomal factors in the fowl. Genetics 34:333-50, 1949. Pubmed reference: 17247319 .
1933 Hutt, F.B. :
Genetics of the fowl. II. a four-gene autosomal linkage group. Genetics 18:82-94, 1933. Pubmed reference: 17246679 .
Warren, D.C. :
Nine independently inherited autosomal factors in the domestic fowl. Genetics 18:68-81, 1933. Pubmed reference: 17246678 .
1928 Serebrovsky, A.S., Petrov, S.G. :
A case of close autosomal linkage in the fowl Journal of Heredity 19:305-306, 1928.
1921 Haldane, J.B.S. :
Linkage in poultry. Science 54:663 only, 1921. Pubmed reference: 17816160 . DOI: 10.1126/science.54.1409.663.

Gavialis gangeticus (Gharial) :

2014 Green, R.E., Braun, E.L., Armstrong, J., Earl, D., Nguyen, N., Hickey, G., Vandewege, M.W., St John, J.A., Capella-Gutiérrez, S., Castoe, T.A., Kern, C., Fujita, M.K., Opazo, J.C., Jurka, J., Kojima, K.K., Caballero, J., Hubley, R.M., Smit, A.F., Platt, R.N., Lavoie, C.A., Ramakodi, M.P., Finger, J.W., Suh, A., Isberg, S.R., Miles, L., Chong, A.Y., Jaratlerdsiri, W., Gongora, J., Moran, C., Iriarte, A., McCormack, J., Burgess, S.C., Edwards, S.V., Lyons, E., Williams, C., Breen, M., Howard, J.T., Gresham, C.R., Peterson, D.G., Schmitz, J., Pollock, D.D., Haussler, D., Triplett, E.W., Zhang, G., Irie, N., Jarvis, E.D., Brochu, C.A., Schmidt, C.J., McCarthy, F.M., Faircloth, B.C., Hoffmann, F.G., Glenn, T.C., Gabaldón, T., Paten, B., Ray, D.A. :
Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science 346:1254449, 2014. Pubmed reference: 25504731 . DOI: 10.1126/science.1254449.

Giraffa camelopardalis tippelskirchi :

2019 Farré, M., Li, Q., Darolti, I., Zhou, Y., Damas, J., Proskuryakova, A.A., Kulemzina, A.I., Chemnick, L.G., Kim, J., Ryder, O.A., Ma, J., Graphodatsky, A.S., Zhang, G., Larkin, D.M., Lewin, H.A. :
An integrated chromosome-scale genome assembly of the Masai giraffe (Giraffa camelopardalis tippelskirchi). Gigascience 8:, 2019. Pubmed reference: 31367745 . DOI: 10.1093/gigascience/giz090.

Globicephala macrorhynchus (short-finned pilot whale) :

2023 Kang, H., Liu, Q., Seim, I., Zhang, W., Li, H., Gao, H., Lin, W., Lin, M., Zhang, P., Zhang, Y., Gao, H., Wang, Y., Qin, Y., Liu, M., Dong, L., Yang, Z., Zhang, Y., Han, L., Fan, G., Li, S. :
A genome and single-nucleus cerebral cortex transcriptome atlas of the short-finned pilot whale Globicephala macrorhynchus. Mol Ecol Resour :, 2023. Pubmed reference: 36826393 . DOI: 10.1111/1755-0998.13775.

Gopherus evgoodei (Goodes thornscrub tortoise) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Gouania willdenowi (blunt-snouted clingfish) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Hylobates moloch (silvery gibbon) :

2023 Escalona, M., VanCampen, J., Maurer, N.W., Haukness, M., Okhovat, M., Harris, R.S., Watwood, A., Hartley, G.A., O'Neill, R.J., Medvedev, P., Makova, K.D., Vollmers, C., Carbone, L., Green, R.E. :
Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch). J Hered 114:35-43, 2023. Pubmed reference: 36146896 . DOI: 10.1093/jhered/esac043.

Ictalurus punctatus (channel catfish) :

2019 Zhang, S., Zhang, X., Chen, X., Xu, T., Wang, M., Qin, Q., Zhong, L., Jiang, H., Zhu, X., Liu, H., Shao, J., Zhu, Z., Shi, Q., Bian, W., You, X. :
Construction of a High-Density Linkage Map and QTL Fine Mapping for Growth- and Sex-Related Traits in Channel Catfish (<i>Ictalurus punctatus</i>). Front Genet 10:251, 2019. Pubmed reference: 30984241 . DOI: 10.3389/fgene.2019.00251.

Labeo rohita (rohu) :

2020 Das, P., Sahoo, L., Das, S.P., Bit, A., Joshi, C.G., Kushwaha, B., Kumar, D., Shah, T.M., Hinsu, A.T., Patel, N., Patnaik, S., Agarwal, S., Pandey, M., Srivastava, S., Meher, P.K., Jayasankar, P., Koringa, P.G., Nagpure, N.S., Kumar, R., Singh, M., Iquebal, M.A., Jaiswal, S., Kumar, N., Raza, M., Das Mahapatra, K., Jena, J. :
De novo assembly and genome-wide SNP discovery in rohu carp, Labeo rohita. Front Genet 11:386, 2020. Pubmed reference: 32373166 . DOI: 10.3389/fgene.2020.00386.

Lamprotornis superbus (superb starling) :

2021 Rubenstein, D.R., Corvelo, A., MacManes, M.D., Maia, R., Narzisi, G., Rousaki, A., Vandenabeele, P., Shawkey, M.D., Solomon, J. :
Feather gene expression elucidates the developmental basis of plumage iridescence in African starlings. J Hered 112:417-429, 2021. Pubmed reference: 33885791 . DOI: 10.1093/jhered/esab014.

Lemur catta (Ring-tailed lemur) :

2022 Palmada-Flores, M., Orkin, J.D., Haase, B., Mountcastle, J., Bertelsen, M.F., Fedrigo, O., Kuderna, L.F.K., Jarvis, E.D., Marques-Bonet, T. :
A high-quality, long-read genome assembly of the endangered ring-tailed lemur (Lemur catta). Gigascience 11:, 2022. Pubmed reference: 35365833 . DOI: 10.1093/gigascience/giac026.

Lynx canadensis (Canada lynx) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Lynx rufus (bobcat) :

2022 Lin, M., Escalona, M., Sahasrabudhe, R., Nguyen, O., Beraut, E., Buchalski, M.R., Wayne, R.K. :
A reference genome assembly of the bobcat, Lynx rufus. J Hered 113:615-623, 2022. Pubmed reference: 35696092 . DOI: 10.1093/jhered/esac031.

Macaca mulatta (Rhesus monkey) :

2023 Song, B., Wang, X., Liang, Z., Ma, J., Huang, D., Wang, Y., de Magalhães, J.P., Rigden, D.J., Meng, J., Liu, G., Chen, K., Wei, Z. :
RMDisease V2.0: an updated database of genetic variants that affect RNA modifications with disease and trait implication. Nucleic Acids Res 51:D1388-D1396, 2023. Pubmed reference: 36062570 . DOI: 10.1093/nar/gkac750.
2022 Rogers, J. :
Genomic resources for rhesus macaques (Macaca mulatta). Mamm Genome :, 2022. Pubmed reference: 34999909 . DOI: 10.1007/s00335-021-09922-z.

Mandrillus sphinx (mandrill) :

2020 Yin, Y., Yang, T., Liu, H., Huang, Z., Zhang, Y., Song, Y., Wang, W., Guang, X., Sahu, S.K., Kristiansen, K. :
The draft genome of mandrill (Mandrillus sphinx): An Old World monkey. Sci Rep 10:2431, 2020. Pubmed reference: 32051450 . DOI: 10.1038/s41598-020-59110-3.

Mastacembelus armatus (zig-zag eel) :

2021 Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.

Megalobrama amblycephala (Wuchang bream) :

2021 Liu, H., Chen, C., Lv, M., Liu, N., Hu, Y., Zhang, H., Enbody, E.D., Gao, Z., Andersson, L., Wang, W. :
A Chromosome-Level Assembly of Blunt Snout Bream (Megalobrama amblycephala) Genome Reveals an Expansion of Olfactory Receptor Genes in Freshwater Fish. Mol Biol Evol 38:4238-4251, 2021. Pubmed reference: 34003267 . DOI: 10.1093/molbev/msab152.

Meleagris gallopavo (turkey) :

2010 Aslam, ML., Bastiaansen, JW., Crooijmans, RP., Vereijken, A., Megens, HJ., Groenen, MA. :
A SNP based linkage map of the turkey genome reveals multiple intrachromosomal rearrangements between the Turkey and Chicken genomes. BMC Genomics 11:647, 2010. Pubmed reference: 21092123 . DOI: 10.1186/1471-2164-11-647.
Dalloul, R.A., Long, J.A., Zimin, A.V., Aslam, L., Beal, K., Blomberg, L.e. .A.n.n., Bouffard, P., Burt, D.W., Crasta, O., Crooijmans, R.P., Cooper, K., Coulombe, R.A., De, S., Delany, M.E., Dodgson, J.B., Dong, J.J., Evans, C., Frederickson, K.M., Flicek, P., Florea, L., Folkerts, O., Groenen, M.A., Harkins, T.T., Herrero, J., Hoffmann, S., Megens, H.J., Jiang, A., de Jong, P., Kaiser, P., Kim, H., Kim, K.W., Kim, S., Langenberger, D., Lee, M.K., Lee, T., Mane, S., Marcais, G., Marz, M., McElroy, A.P., Modise, T., Nefedov, M., Notredame, C., Paton, I.R., Payne, W.S., Pertea, G., Prickett, D., Puiu, D., Qioa, D., Raineri, E., Ruffier, M., Salzberg, S.L., Schatz, M.C., Scheuring, C., Schmidt, C.J., Schroeder, S., Searle, S.M., Smith, E.J., Smith, J., Sonstegard, T.S., Stadler, P.F., Tafer, H., Tu, Z.J., Van Tassell, C.P., Vilella, A.J., Williams, K.P., Yorke, J.A., Zhang, L., Zhang, H.B., Zhang, X., Zhang, Y., Reed, K.M. :
Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo): genome assembly and analysis. PLoS Biol 8:, 2010. Pubmed reference: 20838655 . DOI: 10.1371/journal.pbio.1000475.
2007 Reed, KM., Chaves, LD., Mendoza, KM. :
An integrated and comparative genetic map of the turkey genome. Cytogenet Genome Res 119:113-26, 2007. Pubmed reference: 18160790 . DOI: 10.1159/000109627.
2005 Reed, KM., Chaves, LD., Hall, MK., Knutson, TP., Harry, DE. :
A comparative genetic map of the turkey genome. Cytogenet Genome Res 111:118-27, 2005. Pubmed reference: 16103652 . DOI: 10.1159/000086380.
2003 Harry, DE., Zaitlin, D., Marini, PJ., Reed, KM. :
A first-generation map of the turkey genome. Genome 46:914-24, 2003. Pubmed reference: 14608408 . DOI: 10.1139/g03-042.
1999 Huang, H.B., Song, Y.Q., Hsel, M., Zahorchak, R., Chiu, J., Teuscher, C., Smith, E.J. :
Development and characterization of genetic mapping resources for the turkey (Meleagris gallopavo) Journal of Heredity 90:240-242, 1999. Pubmed reference: 9987934 .
1990 Bitgood, J.J., Somes, R.G. Jr :
Linkage relationships and gene mapping. In "Poultry Breeding and Genetics" (ed. R.D. Crawford), Elsevier, Amsterdam; Chapter 21 :469-495, 1990.

Melopsittacus undulatus (budgerigar) :

2014 Ganapathy, G., Howard, J.T., Ward, J.M., Li, J., Li, B., Li, Y., Xiong, Y., Zhang, Y., Zhou, S., Schwartz, D.C., Schatz, M., Aboukhalil, R., Fedrigo, O., Bukovnik, L., Wang, T., Wray, G., Rasolonjatovo, I., Winer, R., Knight, J.R., Koren, S., Warren, W.C., Zhang, G., Phillippy, A.M., Jarvis, E.D. :
High-coverage sequencing and annotated assemblies of the budgerigar genome. Gigascience 3:11, 2014. Pubmed reference: 25061512 . DOI: 10.1186/2047-217X-3-11.

Mesocricetus auratus (golden hamster) :

2022 Lee, Y.Y., Cal-Kayitmazbatir, S., Francey, L.J., Bahiru, M.S., Hayer, K.E., Wu, G., Zeller, M.J., Roberts, R., Speers, J., Koshalek, J., Berres, M.E., Bittman, E.L., Hogenesch, J.B. :
duper is a null mutation of cryptochrome 1 in Syrian hamsters. Proc Natl Acad Sci U S A 119:e2123560119, 2022. Pubmed reference: 35471909 . DOI: 10.1073/pnas.2123560119.
1997 Okuizumi, H., Ohsumi, T., Sasaki, N., Imoto, H., Mizuno, Y., Hanami, T., Yamashita, H., Kamiya, M., Takada, S., Kitamura, A., Muramatsu, M., Nishimura, M., Mori, M., Matsuda, Y., Tagaya, O., Okazaki, Y., Hayashizaki, Y. :
Linkage map of syrian hamster with restriction landmark genomic scanning Mammalian Genome 8:121-128, 1997. Pubmed reference: 9060411 .

Monodelphis domestica (gray short-tailed opossum) :

2007 Mikkelsen, T.S., Wakefield, M.J., Aken, B., Amemiya, C.T., Chang, J.L., Duke, S., Garber, M., Gentles, A.J., Goodstadt, L., Heger, A., Jurka, J., Kamal, M., Mauceli, E., Searle, S.M., Sharpe, T., Baker, M.L., Batzer, M.A., Benos, P.V., Belov, K., Clamp, M., Cook, A., Cuff, J., Das, R., Davidow, L., Deakin, J.E., Fazzari, M.J., Glass, J.L., Grabherr, M., Greally, J.M., Gu, W., Hore, T.A., Huttley, G.A., Kleber, M., Jirtle, R.L., Koina, E., Lee, J.T., Mahony, S., Marra, M.A., Miller, R.D., Nicholls, R.D., Oda, M., Papenfuss, A.T., Parra, Z.E., Pollock, D.D., Ray, D.A., Schein, J.E., Speed, T.P., Thompson, K., VandeBerg, J.L., Wade, C.M., Walker, J.A., Waters, P.D., Webber, C., Weidman, J.R., Xie, X., Zody, M.C. :
Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature 447:167-77, 2007. Pubmed reference: 17495919 . DOI: 10.1038/nature05805.

Moschus moschiferus (Siberian musk deer) :

2020 Yi, L., Dalai, M., Su, R., Lin, W., Erdenedalai, M., Luvsantseren, B., Chimedtseren, C., Wang, Z., Hasi, S. :
Whole-genome sequencing of wild Siberian musk deer (Moschus moschiferus) provides insights into its genetic features. BMC Genomics 21:108, 2020. Pubmed reference: 32005147 . DOI: 10.1186/s12864-020-6495-2.

Mugil cephalus (flathead mullet) :

2022 Shekhar, M.S., Katneni, V.K., Jangam, A.K., Krishnan, K., Prabhudas, S.K., Jani Angel, J.R., Sukumaran, K., Kailasam, M., Jena, J. :
First report of chromosome-level genome assembly for flathead grey mullet, Mugil cephalus (Linnaeus, 1758). Front Genet 13:911446, 2022. Pubmed reference: 35783261 . DOI: 10.3389/fgene.2022.911446.

Myrmecobius fasciatus (numbat) :

2022 Peel, E., Silver, L., Brandies, P., Hayakawa, T., Belov, K., Hogg, C.J. :
Genome assembly of the numbat (Myrmecobius fasciatus), the only termitivorous marsupial. GigaByte 2022:gigabyte47, 2022. Pubmed reference: 36824518 . DOI: 10.46471/gigabyte.47.

Neovison vison (American mink) :

2017 Cai, Z., Petersen, B., Sahana, G., Madsen, L.B., Larsen, K., Thomsen, B., Bendixen, C., Lund, M.S., Guldbrandtsen, B., Panitz, F. :
The first draft reference genome of the American mink (Neovison vison). Sci Rep 7:14564, 2017. Pubmed reference: 29109430 . DOI: 10.1038/s41598-017-15169-z.
2012 Anistoroaei, R., Nielsen, V., Markakis, M.N., Karlskov-Mortensen, P., Jørgensen, C.B., Christensen, K., Fredholm, M. :
A re-assigned American mink (Neovison vison) map optimal for genome-wide studies. Gene 511:66-72, 2012. Pubmed reference: 22982743 . DOI: 10.1016/j.gene.2012.08.033.
2009 Anistoroaei, R., Ansari, S., Farid, A., Benkel, B., Karlskov-Mortensen, P., Christensen, K. :
An extended anchored linkage map and virtual mapping for the American mink genome based on homology to human and dog. Genomics 94:204-10, 2009. Pubmed reference: 19520153 . DOI: 10.1016/j.ygeno.2009.05.014.
2007 Anistoroaei, R., Menzorov, A., Serov, O., Farid, A., Christensen, K. :
The first linkage map of the American mink (Mustela vison). Anim Genet 38:384-8, 2007. Pubmed reference: 17596125 . DOI: 10.1111/j.1365-2052.2007.01621.x.
1987 Serov, O.L., Gradov, A.A., Rubtsov, N.B., Zhdanova, N.S., Pack, S.D., Sukoyan, M.A., Mullakandov, M.R., Zakijan, S.M. :
Genetic map of the American mink: gene conservation and organization of chromosomes. Isozymes Curr Top Biol Med Res 15:179-215, 1987. Pubmed reference: 3298154 .

Nestor notabilis (Kea) :

2014 Zhang, G., Li, C., Li, Q., Li, B., Larkin, D.M., Lee, C., Storz, J.F., Antunes, A., Greenwold, M.J., Meredith, R.W., Ödeen, A., Cui, J., Zhou, Q., Xu, L., Pan, H., Wang, Z., Jin, L., Zhang, P., Hu, H., Yang, W., Hu, J., Xiao, J., Yang, Z., Liu, Y., Xie, Q., Yu, H., Lian, J., Wen, P., Zhang, F., Li, H., Zeng, Y., Xiong, Z., Liu, S., Zhou, L., Huang, Z., An, N., Wang, J., Zheng, Q., Xiong, Y., Wang, G., Wang, B., Wang, J., Fan, Y., da Fonseca, R.R., Alfaro-Núñez, A., Schubert, M., Orlando, L., Mourier, T., Howard, J.T., Ganapathy, G., Pfenning, A., Whitney, O., Rivas, M.V., Hara, E., Smith, J., Farré, M., Narayan, J., Slavov, G., Romanov, M.N., Borges, R., Machado, J.P., Khan, I., Springer, M.S., Gatesy, J., Hoffmann, F.G., Opazo, J.C., Håstad, O., Sawyer, R.H., Kim, H., Kim, K.W., Kim, H.J., Cho, S., Li, N., Huang, Y., Bruford, M.W., Zhan, X., Dixon, A., Bertelsen, M.F., Derryberry, E., Warren, W., Wilson, R.K., Li, S., Ray, D.A., Green, R.E., O'Brien, S.J., Griffin, D., Johnson, W.E., Haussler, D., Ryder, O.A., Willerslev, E., Graves, G.R., Alström, P., Fjeldså, J., Mindell, D.P., Edwards, S.V., Braun, E.L., Rahbek, C., Burt, D.W., Houde, P., Zhang, Y., Yang, H., Wang, J. :
Comparative genomics reveals insights into avian genome evolution and adaptation. Science 346:1311-20, 2014. Pubmed reference: 25504712 . DOI: 10.1126/science.1251385.

Numida meleagris (helmeted guineafowl) :

2019 Vignal, A., Boitard, S., Thebault, N., Dayo, G.K., Yapi-Gnaore, V., Youssao, I., Berthouly-Salazar, C., Pálinkás-Bodzsár, N., Guémené, D., Thibaud-Nissen, F., Warren, W.C., Tixier-Boichard, M., Rognon, X. :
A guinea fowl genome assembly provides new evidence on evolution following domestication and selection in galliformes. Mol Ecol Resour :, 2019. Pubmed reference: 30945415 . DOI: 10.1111/1755-0998.13017.

Nyctereutes procyonoides (raccoon dog) :

2021 Chueca, L.J., Kochmann, J., Schell, T., Greve, C., Janke, A., Pfenninger, M., Klimpel, S. :
De novo genome assembly of the raccoon dog (Nyctereutes procyonoides). Front Genet 12:658256, 2021. Pubmed reference: 33995489 . DOI: 10.3389/fgene.2021.658256.

Ochotona princeps (American pika) :

2021 Sjodin, B.M.F., Galbreath, K.E., Lanier, H.C., Russello, M.A. :
Chromosome-level reference genome assembly for the American pika (Ochotona princeps). J Hered 112:549-557, 2021. Pubmed reference: 34036348 . DOI: 10.1093/jhered/esab031.
2016 Fontanesi, L., Di Palma, F., Flicek, P., Smith, A.T., Thulin, C.G., Alves, P.C. :
LaGomiCs-Lagomorph Genomics Consortium: An international collaborative effort for sequencing the genomes of an entire mammalian order. J Hered 107:295-308, 2016. Pubmed reference: 26921276 . DOI: 10.1093/jhered/esw010.

Odocoileus virginianus (white-tailed deer) :

2022 London, E.W., Roca, A.L., Novakofski, J.E., Mateus-Pinilla, N.E. :
A de novo chromosome-level genome assembly of the white-tailed deer, Odocoileus virginianus. J Hered 113:479-489, 2022. Pubmed reference: 35511871 . DOI: 10.1093/jhered/esac022.

Odontobutis potamophila :

2017 Zhang, H., Huang, L., Yin, S., Zhang, G., Ding, Y., Zang, X. :
High-density SNP-based genetic map for Odontobutis potamophila. Anim Genet 48:126-127, 2017. Pubmed reference: 27476504 . DOI: 10.1111/age.12471.

Okapia johnstoni (okapi) :

2022 Winter, S., Coimbra, R.T.F., Helsen, P., Janke, A. :
A Chromosome-Scale Genome Assembly of the Okapi (Okapia johnstoni). J Hered 113:568-576, 2022. Pubmed reference: 35788365 . DOI: 10.1093/jhered/esac033.

Oncorhynchus mykiss (rainbow trout) :

2022 Bernard, M., Dehaullon, A., Gao, G., Paul, K., Lagarde, H., Charles, M., Prchal, M., Danon, J., Jaffrelo, L., Poncet, C., Patrice, P., Haffray, P., Quillet, E., Dupont-Nivet, M., Palti, Y., Lallias, D., Phocas, F. :
Development of a high-density 665 K SNP array for rainbow trout genome-wide genotyping. Front Genet 13:941340, 2022. Pubmed reference: 35923696 . DOI: 10.3389/fgene.2022.941340.
2015 Palti, Y., Gao, G., Liu, S., Kent, M.P., Lien, S., Miller, M.R., Rexroad, C.E., Moen, T. :
The development and characterization of a 57K single nucleotide polymorphism array for rainbow trout. Mol Ecol Resour 15:662-72, 2015. Pubmed reference: 25294387 . DOI: 10.1111/1755-0998.12337.
2014 Berthelot, C., Brunet, F., Chalopin, D., Juanchich, A., Bernard, M., Noël, B., Bento, P., Da Silva, C., Labadie, K., Alberti, A., Aury, J.M., Louis, A., Dehais, P., Bardou, P., Montfort, J., Klopp, C., Cabau, C., Gaspin, C., Thorgaard, G.H., Boussaha, M., Quillet, E., Guyomard, R., Galiana, D., Bobe, J., Volff, J.N., Genêt, C., Wincker, P., Jaillon, O., Roest Crollius, H., Guiguen, Y. :
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates. Nat Commun 5:3657, 2014. Pubmed reference: 24755649 . DOI: 10.1038/ncomms4657.
2012 Guyomard, R., Boussaha, M., Krieg, F., Hervet, C., Quillet, E. :
A synthetic rainbow trout linkage map provides new insights into the salmonid whole genome duplication and the conservation of synteny among teleosts. BMC Genet 13:15, 2012. Pubmed reference: 22424132 . DOI: 10.1186/1471-2156-13-15.
2011 Palti, Y., Genet, C., Luo, M.C., Charlet, A., Gao, G., Hu, Y., Castaño-Sánchez, C., Tabet-Canale, K., Krieg, F., Yao, J., Vallejo, R.L., Rexroad, C.E. :
A first generation integrated map of the rainbow trout genome. BMC Genomics 12:180, 2011. Pubmed reference: 21473775 . DOI: 10.1186/1471-2164-12-180.
2009 Phillips, R.B., Keatley, K.A., Morasch, M.R., Ventura, A.B., Lubieniecki, K.P., Koop, B.F., Danzmann, R.G., Davidson, W.S. :
Assignment of Atlantic salmon (Salmo salar) linkage groups to specific chromosomes: conservation of large syntenic blocks corresponding to whole chromosome arms in rainbow trout (Oncorhynchus mykiss). BMC Genet 10:46, 2009. Pubmed reference: 19689812 . DOI: 10.1186/1471-2156-10-46.
2006 Guyomard, R., Mauger, S., Tabet-Canale, K., Martineau, S., Genet, C., Krieg, F., Quillet, E. :
A type I and type II microsatellite linkage map of rainbow trout (Oncorhynchus mykiss) with presumptive coverage of all chromosome arms. BMC Genomics 7:302, 2006. Pubmed reference: 17137492 . DOI: 10.1186/1471-2164-7-302.
2000 Sakamoto, T., Danzmann, R.G., Gharbi, K., Howard, P., Ozaki, A., Khoo, S.K., Woram, R.A., Okamoto, N., Ferguson, M.M., Holm, L.E., Guyomard, R., Hoyheim, B. :
A microsatellite linkage map of rainbow trout (Oncorhynchus mykiss) characterized by large sex-specific differences in recombination rates Genetics 155:1331-1345, 2000. Pubmed reference: 10880492 .
1998 Young, W.P., Wheeler, P.A., Coryell, V.H., Keim, P., Thorgaard, G.H. :
A detailed linkage map of rainbow trout produced using doubled haploids Genetics 148:839-850, 1998. Pubmed reference: 9504929 .

Oncorhynchus nerka (sockeye salmon) :

2012 Everett, M.V., Miller, M.R., Seeb, J.E. :
Meiotic maps of sockeye salmon derived from massively parallel DNA sequencing. BMC Genomics 13:521, 2012. Pubmed reference: 23031582 . DOI: 10.1186/1471-2164-13-521.

Oplegnathus fasciatus (barred knifejaw) :

2021 Bai, Y., Gong, J., Zhou, Z., Li, B., Zhao, J., Ke, Q., Zou, X., Pu, F., Wu, L., Zheng, W., Zhou, T., Xu, P. :
Chromosome-level assembly of the Southern Rock Bream (Oplegnathus fasciatus) genome using PacBio and Hi-C technologies. Front Genet 12:811798, 2021. Pubmed reference: 34992639 . DOI: 10.3389/fgene.2021.811798.

Oreochromis mossambicus (Mozambique tilapia) :

2021 Tao, W., Cao, J., Xiao, H., Zhu, X., Dong, J., Kocher, T.D., Lu, M., Wang, D. :
A chromosome-level genome assembly of Mozambique tilapia (Oreochromis mossambicus) reveals the structure of sex determining regions. Front Genet 12:796211, 2021. Pubmed reference: 34956335 . DOI: 10.3389/fgene.2021.796211.

Oreochromis mossambicus x Oreochromis niloticus :

2022 Etherington, G.J., Nash, W., Ciezarek, A., Mehta, T.K., Barria, A., Peñaloza, C., Khan, M.G.Q., Durrant, A., Forrester, N., Fraser, F., Irish, N., Kaithakottil, G.G., Lipscombe, J., Trong, T., Watkins, C., Swarbreck, D., Angiolini, E., Cnaani, A., Gharbi, K., Houston, R.D., Benzie, J.A.H., Haerty, W. :
Chromosome-level genome sequence of the Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) highlights regions of introgression with O. mossambicus. BMC Genomics 23:832, 2022. Pubmed reference: 36522771 . DOI: 10.1186/s12864-022-09065-8.

Oreochromis niloticus (Nile tilapia) :

2011 Lee, B.Y., Coutanceau, J.P., Ozouf-Costaz, C., D'Cotta, H., Baroiller, J.F., Kocher, T.D. :
Genetic and physical mapping of sex-linked AFLP markers in Nile tilapia (Oreochromis niloticus). Mar Biotechnol (NY) 13:557-62, 2011. Pubmed reference: 20953654 . DOI: 10.1007/s10126-010-9326-7.
2005 Lee, B.Y., Lee, W.J., Streelman, J.T., Carleton, K.L., Howe, A.E., Hulata, G., Slettan, A., Stern, J.E., Terai, Y., Kocher, T.D. :
A second-generation genetic linkage map of tilapia (Oreochromis spp.). Genetics 170:237-44, 2005. Pubmed reference: 15716505 . DOI: 10.1534/genetics.104.035022.
2004 Ezaz, M.T., Harvey, S.C., Boonphakdee, C., Teale, A.J., McAndrew, B.J., Penman, D.J. :
Isolation and physical mapping of sex-linked AFLP markers in nile tilapia (Oreochromis niloticus L.). Mar Biotechnol (NY) 6:435-45, 2004. Pubmed reference: 15791488 . DOI: 10.1007/s10126-004-3004-6.
2000 McConnell, S.K., Beynon, C., Leamon, J., Skibinski, D.O. :
Microsatellite marker based genetic linkage maps of Oreochromis aureus and O. niloticus (Cichlidae): extensive linkage group segment homologies revealed. Anim Genet 31:214-8, 2000. Pubmed reference: 10895314 .
1998 Kocher, T.D., Lee, W.J., Sobolewska, H., Penman, D., McAndrew, B. :
A genetic linkage map of a cichlid fish, the tilapia (Oreochromis niloticus). Genetics 148:1225-32, 1998. Pubmed reference: 9539437 .

Ornithorhynchus anatinus (platypus) :

2021 Zhou, Y., Shearwin-Whyatt, L., Li, J., Song, Z., Hayakawa, T., Stevens, D., Fenelon, J.C., Peel, E., Cheng, Y., Pajpach, F., Bradley, N., Suzuki, H., Nikaido, M., Damas, J., Daish, T., Perry, T., Zhu, Z., Geng, Y., Rhie, A., Sims, Y., Wood, J., Haase, B., Mountcastle, J., Fedrigo, O., Li, Q., Yang, H., Wang, J., Johnston, S.D., Phillippy, A.M., Howe, K., Jarvis, E.D., Ryder, O.A., Kaessmann, H., Donnelly, P., Korlach, J., Lewin, H.A., Graves, J., Belov, K., Renfree, M.B., Grutzner, F., Zhou, Q., Zhang, G. :
Platypus and echidna genomes reveal mammalian biology and evolution. Nature 592:756-762, 2021. Pubmed reference: 33408411 . DOI: 10.1038/s41586-020-03039-0.
Rhie, A., McCarthy, S.A., Fedrigo, O., Damas, J., Formenti, G., Koren, S., Uliano-Silva, M., Chow, W., Fungtammasan, A., Kim, J., Lee, C., Ko, B.J., Chaisson, M., Gedman, G.L., Cantin, L.J., Thibaud-Nissen, F., Haggerty, L., Bista, I., Smith, M., Haase, B., Mountcastle, J., Winkler, S., Paez, S., Howard, J., Vernes, S.C., Lama, T.M., Grutzner, F., Warren, W.C., Balakrishnan, C.N., Burt, D., George, J.M., Biegler, M.T., Iorns, D., Digby, A., Eason, D., Robertson, B., Edwards, T., Wilkinson, M., Turner, G., Meyer, A., Kautt, A.F., Franchini, P., Detrich, H.W., Svardal, H., Wagner, M., Naylor, G.J.P., Pippel, M., Malinsky, M., Mooney, M., Simbirsky, M., Hannigan, B.T., Pesout, T., Houck, M., Misuraca, A., Kingan, S.B., Hall, R., Kronenberg, Z., Sović, I., Dunn, C., Ning, Z., Hastie, A., Lee, J., Selvaraj, S., Green, R.E., Putnam, N.H., Gut, I., Ghurye, J., Garrison, E., Sims, Y., Collins, J., Pelan, S., Torrance, J., Tracey, A., Wood, J., Dagnew, R.E., Guan, D., London, S.E., Clayton, D.F., Mello, C.V., Friedrich, S.R., Lovell, P.V., Osipova, E., Al-Ajli, F.O., Secomandi, S., Kim, H., Theofanopoulou, C., Hiller, M., Zhou, Y., Harris, R.S., Makova, K.D., Medvedev, P., Hoffman, J., Masterson, P., Clark, K., Martin, F., Howe, K., Flicek, P., Walenz, B.P., Kwak, W., Clawson, H., Diekhans, M., Nassar, L., Paten, B., Kraus, R.H.S., Crawford, A.J., Gilbert, M.T.P., Zhang, G., Venkatesh, B., Murphy, R.W., Koepfli, K.P., Shapiro, B., Johnson, W.E., Di Palma, F., Marques-Bonet, T., Teeling, E.C., Warnow, T., Graves, J.M., Ryder, O.A., Haussler, D., O'Brien, S.J., Korlach, J., Lewin, H.A., Howe, K., Myers, E.W., Durbin, R., Phillippy, A.M., Jarvis, E.D. :
Towards complete and error-free genome assemblies of all vertebrate species. Nature 592:737-746, 2021. Pubmed reference: 33911273 . DOI: 10.1038/s41586-021-03451-0.
2018 Martin, H.C., Batty, E.M., Hussin, J., Westall, P., Daish, T., Kolomyjec, S., Piazza, P., Bowden, R., Hawkins, M., Grant, T., Moritz, C., Grutzner, F., Gongora, J., Donnelly, P. :
Insights into Platypus Population Structure and History from Whole-Genome Sequencing. Mol Biol Evol 35:1238-1252, 2018. Pubmed reference: 29688544 . DOI: 10.1093/molbev/msy041.

Orycteropus afer (aardvark) :

2003 Yang, F., Alkalaeva, E.Z., Perelman, P.L., Pardini, A.T., Harrison, W.R., O'Brien, P.C., Fu, B., Graphodatsky, A.S., Ferguson-Smith, M.A., Robinson, T.J. :
Reciprocal chromosome painting among human, aardvark, and elephant (superorder Afrotheria) reveals the likely eutherian ancestral karyotype. Proc Natl Acad Sci U S A 100:1062-6, 2003. Pubmed reference: 12552116 . DOI: 10.1073/pnas.0335540100.

Oryctolagus cuniculus (rabbit) :

2021 Yang, N., Zhao, B., Chen, Y., D'Alessandro, E., Chen, C., Ji, T., Wu, X., Song, C. :
Distinct retrotransposon evolution profile in the genome of rabbit (Oryctolagus cuniculus). Genome Biol Evol 13:, 2021. Pubmed reference: 34270728 . DOI: 10.1093/gbe/evab168.
2018 Zhou, L., Xiao, Q., Bi, J., Wang, Z., Li, Y. :
RabGTD: a comprehensive database of rabbit genome and transcriptome. Database (Oxford) 2018:, 2018. Pubmed reference: 30010730 . DOI: 10.1093/database/bay075.
2016 Fontanesi, L., Di Palma, F., Flicek, P., Smith, A.T., Thulin, C.G., Alves, P.C. :
LaGomiCs-Lagomorph Genomics Consortium: An international collaborative effort for sequencing the genomes of an entire mammalian order. J Hered 107:295-308, 2016. Pubmed reference: 26921276 . DOI: 10.1093/jhered/esw010.
2015 Sternstein, I., Reissmann, M., Maj, D., Bieniek, J., Brockmann, G.A. :
A comprehensive linkage map and QTL map for carcass traits in a cross between Giant Grey and New Zealand White rabbits. BMC Genet 16:16, 2015. Pubmed reference: 25887754 . DOI: 10.1186/s12863-015-0168-1.
2014 Carneiro, M., Rubin, C.J., Di Palma, F., Albert, F.W., Alföldi, J., Martinez Barrio, A., Pielberg, G., Rafati, N., Sayyab, S., Turner-Maier, J., Younis, S., Afonso, S., Aken, B., Alves, J.M., Barrell, D., Bolet, G., Boucher, S., Burbano, H.A., Campos, R., Chang, J.L., Duranthon, V., Fontanesi, L., Garreau, H., Heiman, D., Johnson, J., Mage, R.G., Peng, Z., Queney, G., Rogel-Gaillard, C., Ruffier, M., Searle, S., Villafuerte, R., Xiong, A., Young, S., Forsberg-Nilsson, K., Good, J.M., Lander, E.S., Ferrand, N., Lindblad-Toh, K., Andersson, L. :
Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication. Science 345:1074-1079, 2014. Pubmed reference: 25