Genomic analyses of wild argali, domestic sheep, and their hybrids provide insights into chromosome evolution, phenotypic variation, and germplasm innovation.

Journal

Genome research
ISSN: 1549-5469
Titre abrégé: Genome Res
Pays: United States
ID NLM: 9518021

Informations de publication

Date de publication:
10 Aug 2022
Historique:
received: 01 04 2022
accepted: 29 07 2022
pubmed: 11 8 2022
medline: 11 8 2022
entrez: 10 8 2022
Statut: aheadofprint

Résumé

Understanding the genetic mechanisms of phenotypic variation in hybrids between domestic animals and their wild relatives may aid germplasm innovation. Here, we report the high-quality genome assemblies of a male Pamir argali (

Identifiants

DOI: 10.1101/gr.276769.122 PMID: 35948368 PMC: PMC9528982
pubmed: 35948368
pii: gr.276769.122
doi: 10.1101/gr.276769.122
pmc: PMC9528982
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Informations de copyright

© 2022 Li et al.; Published by Cold Spring Harbor Laboratory Press.

Références

Nat Commun. 2018 Jul 17;9(1):2648
pubmed: 30018292
Mol Biol Evol. 2007 Aug;24(8):1586-91
pubmed: 17483113
Front Plant Sci. 2016 Sep 13;7:1350
pubmed: 27679641
Mol Ecol. 2004 May;13(5):997-1007
pubmed: 15078439
Anim Genet. 2019 Dec;50(6):772-777
pubmed: 31475743
Biol Reprod. 2017 Jun 1;96(6):1279-1287
pubmed: 28486644
DNA Res. 2017 Feb 1;24(1):51-58
pubmed: 28028039
Stem Cells. 2014 Nov;32(11):2983-97
pubmed: 25069414
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Sci Rep. 2016 Oct 04;6:34781
pubmed: 27698378
Genome Res. 2020 Aug;30(8):1097-1106
pubmed: 32759226
Mol Cytogenet. 2016 Jun 18;9:48
pubmed: 27330563
J Exp Biol. 2004 Jan;207(Pt 3):553-63
pubmed: 14691103
Congenit Anom (Kyoto). 2012 Mar;52(1):8-15
pubmed: 22348779
J Appl Genet. 2008;49(4):357-66
pubmed: 19029683
Nucleic Acids Res. 2012 Apr;40(7):e49
pubmed: 22217600
Natl Sci Rev. 2020 Mar;7(3):686-701
pubmed: 34692087
Cancer Res. 2020 Oct 15;80(20):4540-4551
pubmed: 32855205
Bioinformatics. 2008 Mar 1;24(5):637-44
pubmed: 18218656
Ann Genet Sel Anim. 1977;9(4):509-15
pubmed: 22896552
Cell. 2019 Aug 22;178(5):1132-1144.e10
pubmed: 31402175
Gigascience. 2017 Dec 1;6(12):1-7
pubmed: 29112761
Nucleic Acids Res. 2016 May 19;44(9):e89
pubmed: 26893356
J Hered. 2021 Mar 29;112(2):165-173
pubmed: 33305796
Genome Res. 2010 Sep;20(9):1297-303
pubmed: 20644199
Commun Biol. 2021 Nov 18;4(1):1307
pubmed: 34795381
Mol Biol Evol. 2007 Jan;24(1):26-53
pubmed: 17047029
Nucleic Acids Res. 1997 Mar 1;25(5):955-64
pubmed: 9023104
Ann Genet Sel Anim. 1978;10(3):343-51
pubmed: 22896106
Nat Rev Neurosci. 2016 May;17(5):282-92
pubmed: 27052383
Cytogenet Genome Res. 2011;132(1-2):124-8
pubmed: 20924163
Genome Res. 2009 Feb;19(2):327-35
pubmed: 19029536
J Hered. 1986 Mar-Apr;77(2):127
pubmed: 3711639
Nat Methods. 2016 Jul;13(7):587-90
pubmed: 27159086
Mol Biol Evol. 2022 Feb 3;39(2):
pubmed: 34893856
J Clin Lab Anal. 2022 Jan;36(1):e24150
pubmed: 34837714
Nat Ecol Evol. 2018 Jul;2(7):1139-1145
pubmed: 29784979
Mol Ecol. 2008 Jan;17(1):285-93
pubmed: 18173502
Nat Commun. 2020 Jul 6;11(1):3375
pubmed: 32632155
J Exp Zool A Ecol Genet Physiol. 2015 Oct;323(8):556-66
pubmed: 26173756
Nucleic Acids Res. 1999 Jan 15;27(2):573-80
pubmed: 9862982
Nat Genet. 2012 Jun 17;44(7):821-4
pubmed: 22706312
Behav Brain Res. 1998 Mar;91(1-2):41-7
pubmed: 9578438
Science. 2017 Nov 3;358(6363):668-672
pubmed: 29097549
Nat Genet. 2010 Apr;42(4):348-54
pubmed: 20208533
Am J Hum Genet. 2011 Jan 7;88(1):76-82
pubmed: 21167468
Genome Res. 2009 Sep;19(9):1639-45
pubmed: 19541911
Cell. 2021 Sep 16;184(19):4843-4844
pubmed: 34534461
Nat Rev Genet. 2013 Jul;14(7):471-82
pubmed: 23752794
Dev Cell. 2008 Jul;15(1):121-33
pubmed: 18606146
Curr Biol. 2020 Oct 19;30(20):4085-4095.e6
pubmed: 32822607
Elife. 2021 Aug 04;10:
pubmed: 34346866
Nat Genet. 2011 Jun;43(6):519-25
pubmed: 21552263
Hum Mol Genet. 1996 Sep;5(9):1279-88
pubmed: 8872467
Bioinformatics. 2020 Apr 1;36(7):2253-2255
pubmed: 31778144
BMC Genomics. 2018 May 25;19(1):397
pubmed: 29801435
Bioinformatics. 2000 Nov;16(11):1040-1
pubmed: 11159316
Mamm Genome. 2013 Oct;24(9-10):400-8
pubmed: 23949773
Bioinformatics. 2011 Aug 1;27(15):2156-8
pubmed: 21653522
Cell. 1991 Oct 4;67(1):79-87
pubmed: 1717160
Sci Rep. 2021 Jul 5;11(1):13797
pubmed: 34226617
Mol Biol Evol. 2021 Mar 9;38(3):838-855
pubmed: 32941615
BMC Bioinformatics. 2006 Feb 09;7:62
pubmed: 16469098
Genome Biol. 2019 Nov 14;20(1):238
pubmed: 31727128
Mol Biol Evol. 2020 May 1;37(5):1530-1534
pubmed: 32011700
Nat Methods. 2021 Feb;18(2):170-175
pubmed: 33526886
Curr Biol. 2013 Nov 18;23(22):2279-2282
pubmed: 24184108
Nat Rev Genet. 2001 Apr;2(4):280-91
pubmed: 11283700
Mamm Genome. 1997;8(11):799-800
pubmed: 9337389
J Hered. 2006 Jan-Feb;97(1):21-30
pubmed: 16267166
Cell Biochem Biophys. 2010 Dec;58(3):129-35
pubmed: 20809182
BMC Genomics. 2018 Aug 8;19(1):595
pubmed: 30086710
PLoS Comput Biol. 2018 Jan 26;14(1):e1005944
pubmed: 29373581
Mamm Genome. 2001 Mar;12(3):212-8
pubmed: 11252170
Trends Genet. 2021 Apr;37(4):302-305
pubmed: 33546926
Nat Commun. 2018 Mar 6;9(1):813
pubmed: 29511174
Am J Hum Genet. 2007 Sep;81(3):559-75
pubmed: 17701901
Gigascience. 2018 Apr 1;7(4):
pubmed: 29668959
Biol Lett. 2014 Jul;10(7):
pubmed: 24990111
J Orthop Res. 2021 May;39(5):971-988
pubmed: 32672867
Genome Biol. 2021 May 10;22(1):148
pubmed: 33971930
Nat Biotechnol. 2013 Dec;31(12):1119-25
pubmed: 24185095
Genome Res. 2009 Sep;19(9):1655-64
pubmed: 19648217
Genome Biol. 2008 Jan 11;9(1):R7
pubmed: 18190707
Mol Biol Evol. 2013 Aug;30(8):1987-97
pubmed: 23709260
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
Science. 1984 Nov 16;226(4676):792-801
pubmed: 15739260
Genome Biol. 2015 Dec 01;16:259
pubmed: 26619908
Evolution. 2009 Apr;63(4):884-97
pubmed: 19220450
Bioinformatics. 2018 Sep 15;34(18):3094-3100
pubmed: 29750242
Gigascience. 2020 Apr 1;9(4):
pubmed: 32242610
Brain. 2009 Apr;132(Pt 4):889-902
pubmed: 19293246
Mol Biol Evol. 2019 Feb 1;36(2):283-303
pubmed: 30445533
Nucleic Acids Res. 2005 Jan 1;33(Database issue):D121-4
pubmed: 15608160
BMC Biol. 2020 Feb 12;18(1):13
pubmed: 32050971
Bioinformatics. 2013 Nov 15;29(22):2933-5
pubmed: 24008419
Bioinformatics. 2016 Oct 1;32(19):3021-3
pubmed: 27318204
Philos Trans R Soc Lond B Biol Sci. 2020 Aug 31;375(1806):20190539
pubmed: 32654638
J Evol Biol. 2013 Feb;26(2):229-46
pubmed: 23323997
Mol Phylogenet Evol. 2010 Feb;54(2):315-26
pubmed: 19897045
Sci Rep. 2017 Aug 8;7(1):7623
pubmed: 28790322
Plant Physiol. 2017 Jan;173(1):65-78
pubmed: 27895205
Nucleic Acids Res. 2007;35(9):3100-8
pubmed: 17452365

Auteurs

Xin Li (X)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing 100101, China.
College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing 100049, China.

San-Gang He (SG)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.
ORCID: 0000-0001-8684-8878

Wen-Rong Li (WR)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.
ORCID: 0000-0003-1039-4886

Ling-Yun Luo (LY)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Ze Yan (Z)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Dong-Xin Mo (DX)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Xing Wan (X)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Feng-Hua Lv (FH)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Ji Yang (J)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Ya-Xi Xu (YX)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.

Juan Deng (J)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China.

Qiang-Hui Zhu (QH)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing 100101, China.
College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing 100049, China.

Xing-Long Xie (XL)

CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing 100101, China.
College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing 100049, China.

Song-Song Xu (SS)

CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences (CAS), Beijing 100101, China.
College of Life Sciences, University of Chinese Academy of Sciences (UCAS), Beijing 100049, China.

Chen-Xi Liu (CX)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.
ORCID: 0000-0001-5591-1125

Xin-Rong Peng (XR)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.

Bin Han (B)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.

Zhong-Hui Li (ZH)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.

Lei Chen (L)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.
ORCID: 0000-0002-9916-0009

Jian-Lin Han (JL)

CAAS-ILRI Joint Laboratory on Livestock and Forage Genetic Resources, Institute of Animal Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, 100193, China.
Livestock Genetics Program, International Livestock Research Institute (ILRI), Nairobi, 00100, Kenya.

Xue-Zhi Ding (XZ)

MOA Key Laboratory of Veterinary Pharmaceutical Development of Ministry of Agriculture (MOA), Lanzhou Institute of Husbandry and Pharmaceutical Sciences, Chinese Academy of Agricultural Sciences, Lanzhou, 730050, China.

Renqing Dingkao (R)

Institute of Animal Science and Veterinary Medicine, Gannan Tibetan Autonomous Prefecture, Hezuo, 747000, China.

Yue-Feng Chu (YF)

State Key Laboratory of Veterinary Etiological Biology, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, 730046, China.

Jin-Yan Wu (JY)

State Key Laboratory of Veterinary Etiological Biology, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou, 730046, China.

Li-Min Wang (LM)

Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, China.
State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, China.

Ping Zhou (P)

Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, China.
State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, China.

Ming-Jun Liu (MJ)

MOA Key Laboratory of Ruminant Genetics, Breeding and Reproduction, Ministry of Agriculture (MOA); Key Laboratory of Animal Technology of Xinjiang, Xinjiang Academy of Animal Science, Urumqi, 830000, China.

Meng-Hua Li (MH)

College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
ORCID: 0000-0001-5194-2506

Classifications MeSH