Evidence map›Paper›PMID 40470718›Full record

ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2025

Structural Variations Associated with Adaptation and Coat Color in Qinghai-Tibetan Plateau Cattle.

Xiaoting Xia, Fuwen Wang, Xiaoyu Luo, Shuang Li, Yang Lyu, Yining Zheng, Zhijie Ma, Kaixing Qu, Rende Song, Jianyong Liu and 30 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

9 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Review
  6. The chromosome-level genome of Chinese indicine cattle breed provides insights into bovine adaptation and immunity.DNA research : an international journal for rapid publication of reports on genes and genomes · 2026
    Article
  7. Article
  8. Article
  9. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

40 authors.

Xiaoting XiaKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Fuwen WangKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Xiaoyu LuoKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Shuang LiKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Yang LyuKey Laboratory of Animal Production, Product Quality, and Security, Ministry of Education, College of Animal Science and Technology, Jilin Agricultural University, Changchun, 130118, China.
Yining ZhengKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Zhijie MaState Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Xining, 810016, China.
Kaixing QuAcademy of Science and Technology, Chuxiong Normal University, Chuxiong, 675099, China.
Rende SongAnimal Disease Prevention and Control Centre of Yushu Tibetan Autonomous Prefecture, Yushu, 810099, China.
Jianyong LiuYunnan Academy of Grassland and Animal Science, Kunming, 650500, China.
Jicai ZhangYunnan Academy of Grassland and Animal Science, Kunming, 650500, China.
Basang WangduiInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Basang ZhuzhaInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Suolang QujiInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Li ZhaoInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Silang WangmuInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Ciren LuobuInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Nima CangjueInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Danzeng LuosangInstitute of Animal Husbandry and Veterinary Science, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850030, China.
Suolang SizhuAnimal Science College, Tibet Agriculture and Animal Husbandry University, Nyingchi, 860000, China.
Haijian ChengInstitute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Shandong Key Lab of Animal Disease Control and Breeding, Jinan, 271018, China.
Ruizhe LiQinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining, 810016, China.
Zhipeng WuQinghai Academy of Animal Science and Veterinary Medicine, Qinghai University, Xining, 810016, China.
Ruihua DangKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Yongzhen HuangKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Xianyong LanKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Luohao XuKey Laboratory of Aquatic Science of Chongqing, College of Life Sciences, Southwest University, Chongqing, 400715, China.
Haifei HuRice Research Institute, Guangdong Key Laboratory of New Technology in Rice Breeding and Guangdong Rice Engineering Laboratory, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China.
WaiYee LowThe Davies Research Centre, School of Animal and Veterinary Sciences, University of Adelaide, Roseworthy, SA, 5371, Australia.
Zhuqing ZhengCollege of Food and Biology, Jingchu University of Technology, Jingmen, Hubei, 448000, China.
Yu WangKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Yuanpeng GaoCollege of Veterinary Medicine, Northwest A&F University, Yangling, 712100, China.
Lu DengKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Johannes A LenstraFaculty of Veterinary Medicine, Utrecht University, Utrecht, NL, 7758, The Netherlands.
Jianlin HanKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.
Xueyi YangLife Science College, Luoyang Normal University, Luoyang, 471934, China.
Wenfa LyuKey Laboratory of Animal Production, Product Quality, and Security, Ministry of Education, College of Animal Science and Technology, Jilin Agricultural University, Changchun, 130118, China.
Bizhi HuangYunnan Academy of Grassland and Animal Science, Kunming, 650500, China.
Chuzhao LeiKey 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/0000-0003-1647-1037
Ningbo ChenKey Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, 712100, China.

Funding

China Agriculture Research System of MOF and MARA CARS-37Chuxiong Science and Technology Leading Talents CXKJLJRC2023-07Construction of Yunling Cattle Technology Innovation Center and Industrialization of Achievements 2019ZG007Key Research and Development Program of Xizang Autonomous Region of China XZ202301ZY0008NNational Key Research and Development Program of China 2021YFD1200400National Key Research and Development Program of China 2021YFF1001000National Natural Science Foundation of China 32102523National Natural Science Foundation of China 32260823National Natural Science Foundation of China 32341054National Natural Science Foundation of China 32372854Open Project of State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University 2024-KF-02Postdoctoral Fellowship Program of CPSF GZC20232149Postdoctoral Research Project Funding of Shaanxi Province 2023BSHEDZZ132Program of Yunling Scholar and Yunling Cattle Special Program of Yunnan Joint Laboratory of Seeds and Seeding Industry 202205AR070001Yunnan Expert Workstations 202305AF150156
6 · The paper itself

Abstract

Structural variations (SVs) play crucial roles in the evolutionary adaptation of domesticated animals to natural and human-controlled environments, but SVs have not been explored in Tibetan cattle, which recently migrated and rapidly adapted to the high altitudes of the Qinghai-Tibetan Plateau (QTP). In this study, a de novo chromosome-level genome assembly for Tibetan cattle is constructed. It is found that using a lineage-specific reference genome significantly increased variant detection accuracy and completeness. Analysis of long-read sequencing data from 36 high-altitude QTP and 48 low-altitude cattle identified 222 528 SVs and 259 SV hotspot regions. Positively selected SVs in high-altitude cattle are related to energy metabolism erythropoiesis and angiogenesis, and peroxisomal metabolism. A 102-bp intronic deletion in GNPAT likely upregulated its expression. It is distinguished 7293 SVs that may be introgressed from yak, including variants upstream of the hypoxia-inducing gene EGLN1. Finally, a ≈2-Mb heterozygous inversion and two translocations on chromosome 6 are likely associated with the cattle gray coat via regulatory effects on the KIT gene. The results confirm the importance of SVs in evolutionary adaptation and the contribution yak-introgressed SVs to the rapid acclimatization of QTP cattle.

Indexed as

AcclimatizationAdaptation, PhysiologicalAltitudeAnimalsCattleTibetcattlecoat colorgenome assemblyhigh‐altitude adaptationstructural variation

Identifiers

PMID40470718
PMCPMC12376619

What Socratic holds

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LicenceCC BY
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.