{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,21]],"date-time":"2026-01-21T18:44:11Z","timestamp":1769021051843,"version":"3.49.0"},"reference-count":86,"publisher":"Oxford University Press (OUP)","issue":"2","license":[{"start":{"date-parts":[[2024,4,2]],"date-time":"2024-04-02T00:00:00Z","timestamp":1712016000000},"content-version":"vor","delay-in-days":1,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,7,3]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Sheep were domesticated in the Fertile Crescent and then spread globally, where they have been encountering various environmental conditions. The Tibetan sheep has adapted to high altitudes on the Qinghai-Tibet Plateau over the past 3000 years. To explore genomic variants associated with high-altitude adaptation in Tibetan sheep, we analyzed Illumina short-reads of 994 whole genomes representing \u223c 60 sheep breeds\/populations at varied altitudes, PacBio High fidelity (HiFi) reads of 13 breeds, and 96 transcriptomes from 12 sheep organs. Association testing between the inhabited altitudes and 34,298,967 variants was conducted to investigate the genetic architecture of altitude adaptation. Highly accurate HiFi reads were used to complement the current ovine reference assembly at the most significantly associated \u03b2-globin locus and to validate the presence of two haplotypes A and B among 13 sheep breeds. The haplotype A carried two homologous gene clusters: (1) HBE1, HBE2, HBB-like, and HBBC, and (2) HBE1-like, HBE2-like, HBB-like, and HBB; while the haplotype B lacked the first cluster. The high-altitude sheep showed highly frequent or nearly fixed haplotype A, while the low-altitude sheep dominated by haplotype B. We further demonstrated that sheep with haplotype A had an increased hemoglobin\u2013O2 affinity compared with those carrying haplotype B. Another highly associated genomic region contained the EGLN1 gene which showed varied expression between high-altitude and low-altitude sheep. Our results provide evidence that the rapid adaptive evolution of advantageous alleles play an important role in facilitating the environmental adaptation of Tibetan sheep.<\/jats:p>","DOI":"10.1093\/gpbjnl\/qzae030","type":"journal-article","created":{"date-parts":[[2024,4,2]],"date-time":"2024-04-02T23:55:26Z","timestamp":1712102126000},"source":"Crossref","is-referenced-by-count":18,"title":["Multi-omic Analyses Shed Light on The Genetic Control of High-altitude Adaptation in Sheep"],"prefix":"10.1093","volume":"22","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2769-7616","authenticated-orcid":false,"given":"Chao","family":"Li","sequence":"first","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"},{"name":"Animal Genomics, ETH Z\u00fcrich , Z\u00fcrich 8092, Switzerland"}]},{"ORCID":"https:\/\/orcid.org\/0009-0008-0908-3056","authenticated-orcid":false,"given":"Bingchun","family":"Chen","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0008-9458-5906","authenticated-orcid":false,"given":"Suo","family":"Langda","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences , Lhasa 850009, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6960-3836","authenticated-orcid":false,"given":"Peng","family":"Pu","sequence":"additional","affiliation":[{"name":"School of Biological and Pharmaceutical Engineering, Lanzhou Jiaotong University , Lanzhou 730070, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5330-1278","authenticated-orcid":false,"given":"Xiaojia","family":"Zhu","sequence":"additional","affiliation":[{"name":"College of Life Sciences, Shaanxi Normal University , Xi\u2019an 710119, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0008-7732-9257","authenticated-orcid":false,"given":"Shiwei","family":"Zhou","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4276-483X","authenticated-orcid":false,"given":"Peter","family":"Kalds","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2392-1545","authenticated-orcid":false,"given":"Ke","family":"Zhang","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4955-2255","authenticated-orcid":false,"given":"Meenu","family":"Bhati","sequence":"additional","affiliation":[{"name":"Animal Genomics, ETH Z\u00fcrich , Z\u00fcrich 8092, Switzerland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8425-5630","authenticated-orcid":false,"given":"Alexander","family":"Leonard","sequence":"additional","affiliation":[{"name":"Animal Genomics, ETH Z\u00fcrich , Z\u00fcrich 8092, Switzerland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2302-4200","authenticated-orcid":false,"given":"Shuhong","family":"Huang","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8584-4100","authenticated-orcid":false,"given":"Ran","family":"Li","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-6736-1327","authenticated-orcid":false,"given":"Awang","family":"Cuoji","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences , Lhasa 850009, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0008-4973-6963","authenticated-orcid":false,"given":"Xiran","family":"Wang","sequence":"additional","affiliation":[{"name":"College of Life Sciences, Shaanxi Normal University , Xi\u2019an 710119, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-6210-9026","authenticated-orcid":false,"given":"Haolin","family":"Zhu","sequence":"additional","affiliation":[{"name":"College of Life Sciences, Shaanxi Normal University , Xi\u2019an 710119, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3915-4889","authenticated-orcid":false,"given":"Yujiang","family":"Wu","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences , Lhasa 850009, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0002-2848-7511","authenticated-orcid":false,"given":"Renqin","family":"Cuomu","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences , Lhasa 850009, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8127-4809","authenticated-orcid":false,"given":"Ba","family":"Gui","sequence":"additional","affiliation":[{"name":"Institute of Animal Science, Tibet Academy of Agricultural and Animal Husbandry Sciences , Lhasa 850009, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7049-8666","authenticated-orcid":false,"given":"Ming","family":"Li","sequence":"additional","affiliation":[{"name":"Zoology and Evolutionary Biology, Department of Biology, University of Konstanz , 78457 Konstanz, Germany"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1785-7778","authenticated-orcid":false,"given":"Yutao","family":"Wang","sequence":"additional","affiliation":[{"name":"College of Life and Geographic Sciences, Kashi University , Kashi 844000, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1446-7253","authenticated-orcid":false,"given":"Yan","family":"Li","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2016-2544","authenticated-orcid":false,"given":"Wenwen","family":"Fang","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0005-8872-2650","authenticated-orcid":false,"given":"Ting","family":"Jia","sequence":"additional","affiliation":[{"name":"Beijing Key Laboratory of Captive Wildlife Technologies , Beijing Zoo, Beijing 100044, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-2485-6792","authenticated-orcid":false,"given":"Tianchun","family":"Pu","sequence":"additional","affiliation":[{"name":"Beijing Key Laboratory of Captive Wildlife Technologies , Beijing Zoo, Beijing 100044, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6841-7652","authenticated-orcid":false,"given":"Xiangyu","family":"Pan","sequence":"additional","affiliation":[{"name":"Department of Medical Research, Guangdong Provincial People\u2019s Hospital, Guangdong Academy of Medical Sciences , Guangzhou 510080, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5902-0901","authenticated-orcid":false,"given":"Yudong","family":"Cai","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5977-6629","authenticated-orcid":false,"given":"Chong","family":"He","sequence":"additional","affiliation":[{"name":"Key Laboratory of Agricultural Internet of Things, Ministry of Agriculture and Rural Affairs\/Shaanxi Key Laboratory of Agricultural Information Perception and Intelligent Service, College of Information Engineering, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7088-3193","authenticated-orcid":false,"given":"Liming","family":"Wang","sequence":"additional","affiliation":[{"name":"Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences , Shihezi 832000, China"},{"name":"State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences , Shihezi 832000, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4821-3585","authenticated-orcid":false,"given":"Yu","family":"Jiang","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1527-3963","authenticated-orcid":false,"given":"Jian-Lin","family":"Han","sequence":"additional","affiliation":[{"name":"CAAS-ILRI Joint Laboratory on Livestock and Forage Genetic Resources, Institute of Animal Science, Chinese Academy of Agricultural Sciences , Beijing 100193, China"},{"name":"Livestock Genetics Program, International Livestock Research Institute , Nairobi 00100, Kenya"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5679-4055","authenticated-orcid":false,"given":"Yulin","family":"Chen","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-3442-1232","authenticated-orcid":false,"given":"Ping","family":"Zhou","sequence":"additional","affiliation":[{"name":"Institute of Animal Husbandry and Veterinary Medicine, Xinjiang Academy of Agricultural and Reclamation Sciences , Shihezi 832000, China"},{"name":"State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural and Reclamation Sciences , Shihezi 832000, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0501-6760","authenticated-orcid":false,"given":"Hubert","family":"Pausch","sequence":"additional","affiliation":[{"name":"Animal Genomics, ETH Z\u00fcrich , Z\u00fcrich 8092, Switzerland"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1620-1344","authenticated-orcid":false,"given":"Xiaolong","family":"Wang","sequence":"additional","affiliation":[{"name":"International Joint Agriculture Research Center for Animal Bio-Breeding, Ministry of Agriculture and Rural Affairs\/Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University , Yangling 712100, China"}]}],"member":"286","published-online":{"date-parts":[[2024,4,2]]},"reference":[{"key":"2024081500014531100_qzae030-B1","doi-asserted-by":"crossref","first-page":"248","DOI":"10.1126\/science.1259172","article-title":"Agriculture facilitated permanent human occupation of the Tibetan Plateau after 3600 BP","volume":"347","author":"Chen","year":"2015","journal-title":"Science"},{"key":"2024081500014531100_qzae030-B2","doi-asserted-by":"crossref","first-page":"64","DOI":"10.1126\/science.aag0357","article-title":"Permanent human occupation of the central Tibetan Plateau in the early Holocene","volume":"355","author":"Meyer","year":"2017","journal-title":"Science"},{"key":"2024081500014531100_qzae030-B3","doi-asserted-by":"crossref","first-page":"7485","DOI":"10.1073\/pnas.1520844113","article-title":"Long-term genetic stability and a high-altitude East Asian origin for the peoples of the high valleys of the Himalayan arc","volume":"113","author":"Jeong","year":"2016","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2024081500014531100_qzae030-B4","doi-asserted-by":"crossref","first-page":"283","DOI":"10.1093\/molbev\/msy208","article-title":"The genome landscape of Tibetan sheep reveals adaptive introgression from argali and the history of early human settlements on the Qinghai-Tibetan Plateau","volume":"36","author":"Hu","year":"2019","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B5","doi-asserted-by":"crossref","first-page":"105627","DOI":"10.1016\/j.jas.2022.105627","article-title":"Direct dating of the earliest domesticated cattle and caprines in northwestern China reveals the history of pastoralism in the Gansu-Qinghai region","volume":"144","author":"Ren","year":"2022","journal-title":"J Archaeol Sci"},{"key":"2024081500014531100_qzae030-B6","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1016\/j.gene.2006.03.009","article-title":"Origin, genetic diversity, and population structure of Chinese domestic sheep","volume":"376","author":"Chen","year":"2006","journal-title":"Gene"},{"key":"2024081500014531100_qzae030-B7","doi-asserted-by":"crossref","first-page":"e0159308","DOI":"10.1371\/journal.pone.0159308","article-title":"Genetic diversity and phylogenetic evolution of Tibetan sheep based on mtDNA D-loop sequences","volume":"11","author":"Liu","year":"2016","journal-title":"PLoS One"},{"key":"2024081500014531100_qzae030-B8","author":"Du","year":"2011"},{"key":"2024081500014531100_qzae030-B9","doi-asserted-by":"crossref","first-page":"2134","DOI":"10.3390\/ani12162134","article-title":"Physiology and proteomic basis of lung adaptation to high-altitude hypoxia in Tibetan sheep","volume":"12","author":"Zhao","year":"2022","journal-title":"Animals (Basel)"},{"key":"2024081500014531100_qzae030-B10","doi-asserted-by":"crossref","first-page":"20180235","DOI":"10.1098\/rstb.2018.0235","article-title":"Convergent evolution in human and domesticate adaptation to high-altitude environments","volume":"374","author":"Witt","year":"2019","journal-title":"Philos Trans R Soc Lond B Biol Sci"},{"key":"2024081500014531100_qzae030-B11","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1126\/science.1189406","article-title":"Genetic evidence for high-altitude adaptation in Tibet","volume":"329","author":"Simonson","year":"2010","journal-title":"Science"},{"key":"2024081500014531100_qzae030-B12","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1038\/nature13408","article-title":"Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA","volume":"512","author":"Huerta-Sanchez","year":"2014","journal-title":"Nature"},{"key":"2024081500014531100_qzae030-B13","doi-asserted-by":"crossref","first-page":"391","DOI":"10.1093\/nsr\/nwz160","article-title":"De novo\u00a0assembly of a Tibetan genome and identification of novel structural variants associated with high-altitude adaptation","volume":"7","author":"He","year":"2020","journal-title":"Natl Sci Rev"},{"key":"2024081500014531100_qzae030-B14","doi-asserted-by":"crossref","first-page":"159","DOI":"10.1186\/s13059-021-02382-3","article-title":"Characterization of structural variation in Tibetans reveals new evidence of high-altitude adaptation and introgression","volume":"22","author":"Quan","year":"2021","journal-title":"Genome Biol"},{"key":"2024081500014531100_qzae030-B15","doi-asserted-by":"crossref","first-page":"947","DOI":"10.1038\/ng.3615","article-title":"Genomic analysis of snub-nosed monkeys (Rhinopithecus) identifies genes and processes related to high-altitude adaptation","volume":"48","author":"Yu","year":"2016","journal-title":"Nat Genet"},{"key":"2024081500014531100_qzae030-B16","doi-asserted-by":"crossref","first-page":"630","DOI":"10.1038\/s41559-022-01703-4","article-title":"Genomic signatures of high-altitude adaptation and chromosomal polymorphism in geladas","volume":"6","author":"Chiou","year":"2022","journal-title":"Nat Ecol Evol"},{"key":"2024081500014531100_qzae030-B17","first-page":"734","article-title":"Genomic analysis reveals hypoxia adaptation in the Tibetan mastiff by introgression of the gray wolf from the Tibetan plateau","volume":"34","author":"Miao","year":"2017","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B18","doi-asserted-by":"crossref","first-page":"2616","DOI":"10.1093\/molbev\/msaa113","article-title":"Ancient hybridization with an unknown population facilitated high-altitude adaptation of canids","volume":"37","author":"Wang","year":"2020","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B19","doi-asserted-by":"crossref","first-page":"1308","DOI":"10.1101\/gr.171876.113","article-title":"Whole-genome sequencing of six dog breeds from continuous altitudes reveals adaptation to high-altitude hypoxia","volume":"24","author":"Gou","year":"2014","journal-title":"Genome Res"},{"key":"2024081500014531100_qzae030-B20","doi-asserted-by":"crossref","first-page":"1431","DOI":"10.1038\/ng.2811","article-title":"Genomic analyses identify distinct patterns of selection in domesticated pigs and Tibetan wild boars","volume":"45","author":"Li","year":"2013","journal-title":"Nat Genet"},{"key":"2024081500014531100_qzae030-B21","doi-asserted-by":"crossref","first-page":"6863","DOI":"10.1038\/ncomms7863","article-title":"Increased prevalence of\u00a0EPAS1\u00a0variant in cattle with high-altitude pulmonary hypertension","volume":"6","author":"Newman","year":"2015","journal-title":"Nat Commun"},{"key":"2024081500014531100_qzae030-B22","doi-asserted-by":"crossref","first-page":"1880","DOI":"10.1093\/molbev\/msv071","article-title":"Genomic analyses reveal potential independent adaptation to high altitude in Tibetan chickens","volume":"32","author":"Wang","year":"2015","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B23","doi-asserted-by":"crossref","first-page":"765","DOI":"10.1093\/gbe\/evw032","article-title":"Genome resequencing identifies unique adaptations of Tibetan chickens to hypoxia and high-dose ultraviolet radiation in high-altitude environments","volume":"8","author":"Zhang","year":"2016","journal-title":"Genome Biol Evol"},{"key":"2024081500014531100_qzae030-B24","doi-asserted-by":"crossref","first-page":"eabb5447","DOI":"10.1126\/sciadv.abb5447","article-title":"Biochemical pedomorphosis and genetic assimilation in the hypoxia adaptation of Tibetan antelope","volume":"6","author":"Signore","year":"2020","journal-title":"Sci Adv"},{"key":"2024081500014531100_qzae030-B25","doi-asserted-by":"crossref","first-page":"553","DOI":"10.3389\/fgene.2018.00553","article-title":"Sequence characterization of\u00a0DSG3\u00a0gene to know its role in high-altitude hypoxia adaptation in the Chinese cashmere goat","volume":"9","author":"Kumar","year":"2018","journal-title":"Front Genet"},{"key":"2024081500014531100_qzae030-B26","doi-asserted-by":"crossref","first-page":"122","DOI":"10.1186\/s12864-016-2449-0","article-title":"Exome sequencing reveals genetic differentiation due to high-altitude adaptation in the Tibetan cashmere goat (Capra hircus)","volume":"17","author":"Song","year":"2016","journal-title":"BMC Genomics"},{"key":"2024081500014531100_qzae030-B27","doi-asserted-by":"crossref","first-page":"38932","DOI":"10.1038\/srep38932","article-title":"Whole-genome sequencing of eight goat populations for the detection of selection signatures underlying production and adaptive traits","volume":"6","author":"Wang","year":"2016","journal-title":"Sci Rep"},{"key":"2024081500014531100_qzae030-B28","doi-asserted-by":"crossref","first-page":"msac253","DOI":"10.1093\/molbev\/msac253","article-title":"Markhor-derived introgression of a genomic region encompassing\u00a0PAPSS2\u00a0confers high-altitude adaptability in Tibetan goats","volume":"39","author":"Li","year":"2022","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B29","doi-asserted-by":"crossref","first-page":"msac120","DOI":"10.1093\/molbev\/msac120","article-title":"How placenta promotes the successful reproduction in high-altitude populations: a transcriptome comparison between adaptation and acclimatization","volume":"39","author":"Wu","year":"2022","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B30","doi-asserted-by":"crossref","first-page":"e2200421119","DOI":"10.1073\/pnas.2200421119","article-title":"Genetic adaptation of skin pigmentation in highland Tibetans","volume":"119","author":"Yang","year":"2022","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2024081500014531100_qzae030-B31","doi-asserted-by":"crossref","first-page":"946","DOI":"10.1038\/ng.2343","article-title":"The yak genome and adaptation to life at high altitude","volume":"44","author":"Qiu","year":"2012","journal-title":"Nat Genet"},{"key":"2024081500014531100_qzae030-B32","doi-asserted-by":"crossref","first-page":"msab353","DOI":"10.1093\/molbev\/msab353","article-title":"Whole-genome resequencing of worldwide wild and domestic sheep elucidates genetic diversity, introgression, and agronomically important loci","volume":"39","author":"Lv","year":"2022","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B33","doi-asserted-by":"crossref","first-page":"952","DOI":"10.1093\/nsr\/nwz213","article-title":"Convergent genomic signatures of high-altitude adaptation among domestic mammals","volume":"7","author":"Wu","year":"2020","journal-title":"Natl Sci Rev"},{"key":"2024081500014531100_qzae030-B34","doi-asserted-by":"crossref","first-page":"1307","DOI":"10.1038\/s42003-021-02817-4","article-title":"Whole-genome sequence analysis unveils different origins of European and Asiatic mouflon and domestication-related genes in sheep","volume":"4","author":"Chen","year":"2021","journal-title":"Commun Biol"},{"key":"2024081500014531100_qzae030-B35","doi-asserted-by":"crossref","first-page":"2815","DOI":"10.1038\/s41467-020-16485-1","article-title":"Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits","volume":"11","author":"Li","year":"2020","journal-title":"Nat Commun"},{"key":"2024081500014531100_qzae030-B36","doi-asserted-by":"crossref","first-page":"859","DOI":"10.1038\/s41467-017-02809-1","article-title":"Sheep genome functional annotation reveals proximal regulatory elements contributed to the evolution of modern breeds","volume":"9","author":"Naval-Sanchez","year":"2018","journal-title":"Nat Commun"},{"key":"2024081500014531100_qzae030-B37","doi-asserted-by":"crossref","first-page":"giy019","DOI":"10.1093\/gigascience\/giy019","article-title":"Whole-genome sequences of 89 Chinese sheep suggest role of\u00a0RXFP2\u00a0in the development of unique horn phenotype as response to semi-feralization","volume":"7","author":"Pan","year":"2018","journal-title":"Gigascience"},{"key":"2024081500014531100_qzae030-B38","doi-asserted-by":"crossref","first-page":"2576","DOI":"10.1093\/molbev\/msw129","article-title":"Whole-genome sequencing of native sheep provides insights into rapid adaptations to extreme environments","volume":"33","author":"Yang","year":"2016","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B39","doi-asserted-by":"crossref","first-page":"giab096","DOI":"10.1093\/gigascience\/giab096","article-title":"An improved ovine reference genome assembly to facilitate in-depth functional annotation of the sheep genome","volume":"11","author":"Davenport","year":"2022","journal-title":"Gigascience"},{"key":"2024081500014531100_qzae030-B40","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res"},{"key":"2024081500014531100_qzae030-B41","doi-asserted-by":"crossref","first-page":"506","DOI":"10.1111\/age.12318","article-title":"Beta-globin gene evolution in the ruminants: evidence for an ancient origin of sheep haplotype B","volume":"46","author":"Jiang","year":"2015","journal-title":"Anim Genet"},{"key":"2024081500014531100_qzae030-B42","doi-asserted-by":"crossref","first-page":"1889","DOI":"10.1093\/molbev\/mst090","article-title":"Identification of a Tibetan-specific mutation in the hypoxic gene\u00a0EGLN1\u00a0and its contribution to high-altitude adaptation","volume":"30","author":"Xiang","year":"2013","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B43","doi-asserted-by":"crossref","first-page":"803758","DOI":"10.3389\/fvets.2022.803758","article-title":"Characterization of the circRNA\u2013miRNA\u2013mRNA network to reveal the potential functional ceRNAs associated with dynamic changes in the meat quality of the longissimus thoracis muscle in Tibetan sheep at different growth stages","volume":"9","author":"Bao","year":"2022","journal-title":"Front Vet Sci"},{"key":"2024081500014531100_qzae030-B44","first-page":"12","article-title":"Study on the blood physiological properties of hypoxia adaptation in Tibetan sheep","volume":"01","author":"Li","year":"2016","journal-title":"Heilongjiang Anim Sci Vet Med"},{"key":"2024081500014531100_qzae030-B45","first-page":"65","article-title":"Assessment of blood biochemical indices in Northwest Tibetan cashmere goats","volume":"36","author":"Wu","year":"2016","journal-title":"China Herbiv Sci"},{"key":"2024081500014531100_qzae030-B46","doi-asserted-by":"crossref","first-page":"463","DOI":"10.1101\/gr.277372.122","article-title":"A sheep pangenome reveals the spectrum of structural variations and their effects on tail phenotypes","volume":"33","author":"Li","year":"2023","journal-title":"Genome Res"},{"key":"2024081500014531100_qzae030-B47","doi-asserted-by":"crossref","first-page":"628849","DOI":"10.3389\/fgene.2021.628849","article-title":"Characterizing genetic regulatory elements in ovine tissues","volume":"12","author":"Davenport","year":"2021","journal-title":"Front Genet"},{"key":"2024081500014531100_qzae030-B48","doi-asserted-by":"crossref","first-page":"msac066","DOI":"10.1093\/molbev\/msac066","article-title":"De novo\u00a0assembly of 20 chicken genomes reveals the undetectable phenomenon for thousands of core genes on microchromosomes and subtelomeric regions","volume":"39","author":"Li","year":"2022","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B49","doi-asserted-by":"crossref","first-page":"204","DOI":"10.1186\/s13059-022-02765-0","article-title":"False gene and chromosome losses in genome assemblies caused by GC content variation and repeats","volume":"23","author":"Kim","year":"2022","journal-title":"Genome Biol"},{"key":"2024081500014531100_qzae030-B50","doi-asserted-by":"crossref","first-page":"e3522","DOI":"10.7717\/peerj.3522","article-title":"EPAS1\u00a0variants in high altitude Tibetan wolves were selectively introgressed into highland dogs","volume":"5","author":"vonHoldt","year":"2017","journal-title":"PeerJ"},{"key":"2024081500014531100_qzae030-B51","doi-asserted-by":"crossref","first-page":"2227","DOI":"10.1093\/molbev\/msz097","article-title":"Adaptive changes in hemoglobin function in high-altitude Tibetan canids were derived via gene conversion and introgression","volume":"36","author":"Signore","year":"2019","journal-title":"Mol Biol Evol"},{"key":"2024081500014531100_qzae030-B52","doi-asserted-by":"crossref","first-page":"2337","DOI":"10.1038\/s41467-018-04737-0","article-title":"Whole-genome resequencing reveals world-wide ancestry and adaptive introgression events of domesticated cattle in East Asia","volume":"9","author":"Chen","year":"2018","journal-title":"Nat Commun"},{"key":"2024081500014531100_qzae030-B53","doi-asserted-by":"crossref","first-page":"1139","DOI":"10.1038\/s41559-018-0562-y","article-title":"Pervasive introgression facilitated domestication and adaptation in the\u00a0Bos\u00a0species complex","volume":"2","author":"Wu","year":"2018","journal-title":"Nat Ecol Evol"},{"key":"2024081500014531100_qzae030-B54","doi-asserted-by":"crossref","first-page":"1669","DOI":"10.1101\/gr.276769.122","article-title":"Genomic analyses of wild argali, domestic sheep, and their hybrids provide insights into chromosome evolution, phenotypic variation, and germplasm innovation","volume":"32","author":"Li","year":"2022","journal-title":"Genome Res"},{"key":"2024081500014531100_qzae030-B55","doi-asserted-by":"crossref","first-page":"805","DOI":"10.1056\/NEJMp1700101","article-title":"Sickle cell disease \u2014 a history of progress and peril","volume":"376","author":"Wailoo","year":"2017","journal-title":"N Engl J Med"},{"key":"2024081500014531100_qzae030-B56","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-642-66115-0","volume-title":"The blood of sheep: composition and function","author":"Blunt","year":"1975"},{"key":"2024081500014531100_qzae030-B57","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1016\/0003-9861(66)90288-8","article-title":"The structure of sheep hemoglobins: II. the amino acid composition of the tryptic peptides of the non-\u03b1 chains of hemoglobins","volume":"115","author":"Wilson","year":"1966","journal-title":"A, B, C, and F. Arch Biochem Biophys"},{"key":"2024081500014531100_qzae030-B58","doi-asserted-by":"crossref","first-page":"819","DOI":"10.1038\/s41437-018-0173-z","article-title":"Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes\u00a0EGLN1\u00a0and\u00a0EPAS1\u00a0in high-altitude ducks","volume":"122","author":"Graham","year":"2019","journal-title":"Heredity (Edinb)"},{"key":"2024081500014531100_qzae030-B59","doi-asserted-by":"crossref","first-page":"468","DOI":"10.1126\/science.1059796","article-title":"Targeting of HIF-\u03b1 to the von Hippel-Lindau ubiquitylation complex by O2-regulated prolyl hydroxylation","volume":"292","author":"Jaakkola","year":"2001","journal-title":"Science"},{"key":"2024081500014531100_qzae030-B60","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B61","author":"Li","year":"2013"},{"key":"2024081500014531100_qzae030-B62","doi-asserted-by":"crossref","first-page":"292","DOI":"10.1093\/bioinformatics\/btv566","article-title":"Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data","volume":"32","author":"Okonechnikov","year":"2016","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B63","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1086\/519795","article-title":"PLINK: a tool set for whole-genome association and population-based linkage analyses","volume":"81","author":"Purcell","year":"2007","journal-title":"Am J Hum Genet"},{"key":"2024081500014531100_qzae030-B64","doi-asserted-by":"crossref","first-page":"e190","DOI":"10.1371\/journal.pgen.0020190","article-title":"Population structure and eigenanalysis","volume":"2","author":"Patterson","year":"2006","journal-title":"PLoS Genet"},{"key":"2024081500014531100_qzae030-B65","doi-asserted-by":"crossref","first-page":"giab008","DOI":"10.1093\/gigascience\/giab008","article-title":"Twelve years of SAMtools and BCFtools","volume":"10","author":"Danecek","year":"2021","journal-title":"Gigascience"},{"key":"2024081500014531100_qzae030-B66","doi-asserted-by":"crossref","first-page":"821","DOI":"10.1038\/ng.2310","article-title":"Genome-wide efficient mixed-model analysis for association studies","volume":"44","author":"Zhou","year":"2012","journal-title":"Nat Genet"},{"key":"2024081500014531100_qzae030-B67","doi-asserted-by":"crossref","first-page":"913","DOI":"10.1038\/nature06250","article-title":"Genome-wide detection and characterization of positive selection in human populations","volume":"449","author":"Sabeti","year":"2007","journal-title":"Nature"},{"key":"2024081500014531100_qzae030-B68","doi-asserted-by":"crossref","first-page":"393","DOI":"10.1101\/gr.100545.109","article-title":"Population differentiation as a test for selective sweeps","volume":"20","author":"Chen","year":"2010","journal-title":"Genome Res"},{"key":"2024081500014531100_qzae030-B69","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1038\/nbt.3519","article-title":"Near-optimal probabilistic RNA-seq quantification","volume":"34","author":"Bray","year":"2016","journal-title":"Nat Biotechnol"},{"key":"2024081500014531100_qzae030-B70","doi-asserted-by":"crossref","first-page":"1521","DOI":"10.12688\/f1000research.7563.1","article-title":"Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences","volume":"4","author":"Soneson","year":"2015","journal-title":"F1000Res"},{"key":"2024081500014531100_qzae030-B71","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1093\/bioinformatics\/btp616","article-title":"edgeR: a Bioconductor package for differential expression analysis of digital gene expression data","volume":"26","author":"Robinson","year":"2010","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B72","doi-asserted-by":"crossref","first-page":"1523","DOI":"10.1038\/s41467-019-09234-6","article-title":"Metascape provides a biologist-oriented resource for the analysis of systems-level datasets","volume":"10","author":"Zhou","year":"2019","journal-title":"Nat Commun"},{"key":"2024081500014531100_qzae030-B73","doi-asserted-by":"crossref","first-page":"1895","DOI":"10.1093\/bioinformatics\/btx074","article-title":"MBV: a method to solve sample mislabeling and detect technical bias in large combined genotype and sequencing assay datasets","volume":"33","author":"Fort","year":"2017","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B74","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1038\/nbt.1754","article-title":"Integrative genomics viewer","volume":"29","author":"Robinson","year":"2011","journal-title":"Nat Biotechnol"},{"key":"2024081500014531100_qzae030-B75","doi-asserted-by":"crossref","first-page":"867","DOI":"10.1093\/bioinformatics\/btx699","article-title":"Mosdepth: quick coverage calculation for genomes and exomes","volume":"34","author":"Pedersen","year":"2018","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B76","doi-asserted-by":"crossref","first-page":"4572","DOI":"10.1093\/bioinformatics\/btab705","article-title":"New strategies to improve minimap2 alignment accuracy","volume":"37","author":"Li","year":"2021","journal-title":"Bioinformatics"},{"key":"2024081500014531100_qzae030-B77","doi-asserted-by":"crossref","first-page":"1168","DOI":"10.1126\/science.1252806","article-title":"The sheep genome illuminates biology of the rumen and lipid metabolism","volume":"344","author":"Jiang","year":"2014","journal-title":"Science"},{"key":"2024081500014531100_qzae030-B78","first-page":"1463","article-title":"Oxygen transport by hemoglobin","volume":"2","author":"Mairb\u00e4url","year":"2011","journal-title":"Compr Physiol"},{"key":"2024081500014531100_qzae030-B79","doi-asserted-by":"crossref","first-page":"R696","DOI":"10.1152\/ajpregu.00335.2018","article-title":"Oxygenation properties and underlying molecular mechanisms of hemoglobins in plateau zokor (Eospalax baileyi)","volume":"317","author":"Pu","year":"2019","journal-title":"Am J Physiol Regul Integr Comp Physiol"},{"key":"2024081500014531100_qzae030-B80","doi-asserted-by":"crossref","first-page":"1611","DOI":"10.1152\/jappl.1992.72.4.1611","article-title":"Use of ionic and zwitterionic (Tris\/BisTris and HEPES) buffers in studies on hemoglobin function","volume":"72","author":"Weber","year":"1992","journal-title":"J Appl Physiol"},{"key":"2024081500014531100_qzae030-B81","doi-asserted-by":"crossref","first-page":"386","DOI":"10.1038\/292386a0","article-title":"Cationic control of O2\u00a0affinity in lugworm erythrocruorin","volume":"292","author":"Weber","year":"1981","journal-title":"Nature"},{"key":"2024081500014531100_qzae030-B82","doi-asserted-by":"crossref","first-page":"1865","DOI":"10.1073\/pnas.1720487115","article-title":"Divergent and parallel routes of biochemical adaptation in high-altitude passerine birds from the Qinghai-Tibet Plateau","volume":"115","author":"Zhu","year":"2018","journal-title":"Proc Natl Acad Sci U S A"},{"key":"2024081500014531100_qzae030-B83","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1016\/j.cbpa.2016.01.018","article-title":"Bohr effect and temperature sensitivity of hemoglobins from highland and lowland deer mice","volume":"195","author":"Jensen","year":"2016","journal-title":"Comp Biochem Physiol A Mol Integr Physiol"},{"key":"2024081500014531100_qzae030-B84","first-page":"27","article-title":"Hemoglobin and myoglobin in their reactions with ligands","volume":"21","author":"Antonini","year":"1971","journal-title":"Front Biol"},{"key":"2024081500014531100_qzae030-B85","doi-asserted-by":"crossref","first-page":"578","DOI":"10.1016\/j.gpb.2021.08.001","article-title":"The Genome Sequence Archive Family: toward explosive data growth and diverse data types","volume":"19","author":"Chen","year":"2021","journal-title":"Genomics Proteomics Bioinformatics"},{"key":"2024081500014531100_qzae030-B86","doi-asserted-by":"crossref","first-page":"D27\u201338","DOI":"10.1093\/nar\/gkab951","article-title":"Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022","volume":"50","author":"CNCB-NGDC Members and Partners","year":"2022","journal-title":"Nucleic Acids Res"}],"container-title":["Genomics, Proteomics &amp; Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/gpb\/advance-article-pdf\/doi\/10.1093\/gpbjnl\/qzae030\/57141544\/qzae030.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/gpb\/article-pdf\/22\/2\/qzae030\/58821317\/qzae030.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/gpb\/article-pdf\/22\/2\/qzae030\/58821317\/qzae030.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,8,15]],"date-time":"2024-08-15T00:06:30Z","timestamp":1723680390000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/gpb\/article\/doi\/10.1093\/gpbjnl\/qzae030\/7639390"}},"subtitle":[],"editor":[{"given":"Kai","family":"Ye","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2024,4]]},"references-count":86,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2024,7,3]]}},"URL":"https:\/\/doi.org\/10.1093\/gpbjnl\/qzae030","relation":{},"ISSN":["1672-0229","2210-3244"],"issn-type":[{"value":"1672-0229","type":"print"},{"value":"2210-3244","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2024,4]]},"published":{"date-parts":[[2024,4]]},"article-number":"qzae030"}}