I am a laboratory introduction2
Yu Jiang
  • Name:  Yu Jiang    Job title:  Professor    Mentor type:  doctoral supervisor

  • position:  Director of the Center for Ruminant Genetics and Evolution
                     Executive Dean of the College of Animal Science and Technology, Northwest A&F University

  • Mailing address:  Northwest A&F University, Yangling, China. Post code: 712100

  • Email:  yu.jiang@nwafu.edu.cn
Education and Work Experience

2002-2006  B.Sc. in Biotechnology, College of Life Science, Fudan University, China
2006-2011  Ph.D. in Genetics State Key Laboratory of Genetic Resources and Evolution,
                   Kunming Institute of Zoology, Chinese Academy of Sciences (CAS), China
2011-2013  Postdoctoral Fellow in Genome Sequence Analysis, Institute of Livestock,
                   Commonwealth Scientific and Industrial Research Organization (CSIRO), Australia
2013-2015  Associate Professor in College of Animal Science and Technology, Northwest A & F University, China
2015-now  Professor in College of Animal Science and Technology, Northwest A & F University, China

Research Interests

Through innovative bioinformatics analysis, Yu first reported the reference genome of sheep and goats, reported the use of optical mapping profiling for animal genome assembly and GWAS analysis using structural variations. He also contributed to the deciphering of the genetic heritage of worldwide cattle, sheep and goats from distinct pedigrees, and revealed a series of adaptive introgression events, such as the domestication gene MUC6 in goats. He managed to discover the key economic genotype-phenotype association in Peking duck with one mutation increased body size by 15% and feed efficiency by 6%. Yu have published more than 60 papers as first or senior authorship in journals such as Science, Nature Biotechnology, and Cell Research. His current major area of interest is focused on ruminant livestock and their foregut fermentation system, the rumen, which represents the world's extraordinarily efficient stomach using microbial flora to ferment the feed.

Lecture courses

At present, mainly teaching Bioinformatics, Animal Genomics, and Freshman Seminar.

Scientific Research Projects and Awards

Hosted and participated in more than 20 national, ministerial, and provincial research projects, including those of the National Natural Science Foundation of China, the National Science Fund for Outstanding Young Scholars, and international cooperation projects.

Achievements and Awards:

  1. 2014 "Excellent Doctoral Dissertation Award of Chinese Academy of Sciences"
  2. 2015 National Youth Talent Plan project
  3. 2018 "Outstanding Young Agricultural Scientist" title of ministry of Agriculture
  4. 2019 Yunnan Province "natural Science Award" first prize（1/7）
  5. 2019 "Ten advances in Life sciences in China"
  6. 2021 "Excellent Doctoral Dissertation Supervisor award of Shaanxi Province"
Representative Publications
Publications

Corresponding and first author papers (in reverse chronological order)

2022

68. Li M, Sun C, Xu N, …, Hu X*, Jiang Y*, Yang N* (2022) De Novo Assembly of 20 Chicken Genomes Reveals the Undetectable Phenomenon for Thousands of Core Genes on Microchromosomes and Subtelomeric Regions. Molecular Biology and Evolution, doi: 10.1093/molbev/msac066. (*Corresponding Author)

67. Billah M, Wang X, Jiantao Yu, Jiang Y* (2022) Real-time goat face recognition using convolutional neural network. Computers and Electronics in Agriculture, doi: 10.1016/j.compag.2022.106730. (*Corresponding Author)

66. Shang Z, Wang X, Jiang Y*, Li Z*, Ning J* (2022) Identifying rumen protozoa in microscopic images of ruminant with improved YOLACT instance segmentation. Biosystems Engineering, doi: 10.1016/j.biosystemseng.2022.01.005. (*Corresponding Author)

65. Shang Z, Wang X, Jiang Y*, Li Z*, Ning J* (2022) Identifying rumen protozoa in microscopic images of ruminant with improved YOLACT instance segmentation. Biosystems Engineering, doi: 10.1016/j.biosystemseng.2022.01.005. (*Corresponding Author)

64. Li A, Yang Q, Li R, Dai X, Cai K*, Lei Y*, Jia K*, Jiang Y*, Zan L* (2022) Chromosome-level Genome Assembly for Takin (Budorcas taxicolor) Provides Insights into Its Taxonomic Status and Genetic Diversity. ResearchGate, doi: 10.22541/au.164275202.25941291/v1. (*Corresponding Author)

63. Shen J#, Chen Q#, Zhang F#, …, Jiang Y*, Lei C*(2022) Genome-wide association study identifies quantitative trait loci affecting cattle temperament. Zoological Research, doi: 10.24272/j.issn.2095-8137.2021.176. (*Corresponding Author)

62. Fu W, Wang R, Asadollahpour Nanaei H, Wang J, Hu D, Jiang Y*(2022) RGD v2.0: a major update of the ruminant functional and evolutionary genomics database. Nucleic Acids Research, doi: 10.1093/nar/gkab887. (*Corresponding Author)

61. Gong M, Yang P, Fang W, Li R, Jiang Y* (2022) Building a cattle pan-genome using more de novo assemblies. J Genet Genomics, doi: 10.1016/j.jgg.2022.01.003.(*Corresponding Author)

60. Wang F, Shao J, He S, …, Jiang Y* (2022) Allele-specific expression and splicing provide insight into the phenotypic differences between thin- and fat-tailed sheep breeds. J Genet Genomics, doi: 10.1016/j.jgg.2021.12.008.(*Corresponding Author)

59. Li Z, Wang X, Zhang Y, …, Jiang Y* (2022) Genomic insights into the phylogeny and biomass-degrading enzymes of rumen ciliates. BioRxiv, doi: 10.1101/2022.01.05.474053.

2021

58. Li R, Yang P, Dai X, …, Wang X & Jiang Y* (2021) A near complete genome for goat genetic and genomic research. Genetics Selection Evolution, doi: 10.1186/s12711-021-00668-5.(*Corresponding Author)

57. Pan X, Li Z, Li B, Zhao C, Wang Y, Chen Y & Jiang Y* (2021) Dynamics of rumen gene expression, microbiome colonization, and their interplay in goats. BMC Genomics, doi: 10.1186/s12864-021-07595-1.

56. Pan X#，II Z#, Jiang Y* (2021) Dynamics of rumen gene expression, microbiome colonization, and their interplay in goats. BMC Genomics, doi: 0.1186/s12864-021-07595-1. (*Corresponding Author)

55. Fu W#, …, Jiang Y* (2021) GGVD: A goat genome variation database for tracking the dynamic evolutionary process of selective signatures and ancient introgressions. Journal of Genetics and Genomics, doi: 10.1016/j.jgg.2021.03.003. (*Corresponding Author)

54. Huang Y#, Li Y#, Wang X#, ..., Jiang Y* (2021) An atlas of CNV maps in cattle, goat and sheep. Science China Life Sciences, doi: 10.1007/s11427-020-1850-x. (*Corresponding Author)

53. Li R#, Yang P#, Li M#, ..., Jiang Y* (2021) A Hu sheep genome with the first ovine Y chromosome reveal introgression history after sheep domestication. Science China Life Sciences, doi: 10.1007/s11427-020-1807-0. (*Corresponding Author)

52. Wang M, Zhang J, Guo X, Jiang Y, …, Bosse M*, Wu D*, Han J & Zhang Y* (2021) Large-scale genomic analysis reveals the genetic cost of chicken domestication. BMC Biology, doi: 10.1186/s12915-021-01052-x.

51. Xu N, Si W, Li M, Gong M, Larivière J, Nanaei H, Bian P, Jiang Y*, Zhao X* (2021) Genome-wide scan for selective footprints and genes related to cold tolerance in Chantecler chickens. Zool Res，doi: 10.24272/j.issn.2095-8137.2021.189.  (*Corresponding Author)

50. Bian P, Zhang Y, Jiang Y* (2021) Pan-genome: setting a new standard for high-quality reference genomes. Yi Chuan, doi: 10.16288/j.yczz.21-214. (*Corresponding Author)

49. Li J, Zhang J, Liu J, Zhou Y, Cai C, Xu L, Dai X, Feng S, Guo C, Rao J, Wei K, Jarvis E, Jiang Y, Zhou Z, Zhang G, Zhou Q (2021) A new duck genome reveals conserved and convergently evolved chromosome architectures of birds and mammals. Gigascience, doi: 10.1093/gigascience/giaa142.

48. Pan X, Cai Y, Li Z, Chen X, Heller R, Wang N, Wang Y, Zhao C, Wang Y, Xu H, Li S, Li M, Li C, Hu S, Li H, Wang K, Chen L, Wei B, Zheng Z, Fu W, Yang Y, Zhang T, Hou Z, Yan Y, Lv X, Sun W, Li X, Huang S, Liu L, Mao S, Liu W, Hua J, Li Z, Zhang G, Chen Y, Wang X, Qiu Q, Dalrymple BP, Wang W, Jiang Y* (2021) Modes of genetic adaptations underlying functional innovations in the rumen. Sci China Life Sci, doi: 10.1007/s11427-020-1828-8. Epub 2020 Nov 5. (*Corresponding Author)

47. E G, Zhou D, Zheng Z, Yang B, Li X, Li L, Zhou R, Nai W, Jiang X, Zhang J, Hong Q, Ma Y, Chu M, Gao H, Zhao Y, Duan X, He Y, Na R, Han Y, Zeng Y, Jiang Y*, Huang Y (2021) Identification of a Goat Intersexuality-Associated Novel Variant Through Genome-Wide Resequencing and Hi-C. Front Genet, doi: 10.3389/fgene.2020.616743. (*Corresponding Author)

2020

46. Cai Y, Fu W, Cai D, …, Jiang Y*, Wang X*（2020）Ancient genomes reveal the evolutionary history and origin of cashmere producing goats in China. Molecular Biology and Evolution, doi: 10.1093/molbev/msaa103. (*Corresponding Author)

45. Zheng Z#, Wang X# , Li M#, …, Chen Y*, Jiang Y* (2020) The origin of domestication genes in goats. Science Advances, doi: 10.1126/sciadv.aaz5216. (*Corresponding Author)

44. Chen, N#, Fu W#, Zhao J#, ..., Jiang Y* (2020) The Bovine Genome Variation Database (BGVD): Integrated Web-database for Bovine Sequencing Variations and Selective Signatures. Genomics, Proteomics & Bioinformatics, doi: 10.1101/802223. (*Corresponding Author)

43. Jiao F#, Lou R#, Dai X#, Liu H#, …, Qian Y*, Zhao A*, Jiang Y*（2020） Chromosome-level reference genome and population genomic analysis provide insight into the evolution and improvement of domesticated mulberry (Morus alba L), Molecular Plant, doi: 10.1016/j.molp.2020.05.005. (*Corresponding Author)

42. Sun T, Shen S, Achilli A, …, Jiang Y*, Lei C* (2020) Genomic Analyses Reveal Distinct Genetic Architectures and Selective Pressures in Buffaloes. GigaScience, doi: 10.1093/gigascience/giz166.(*Corresponding Author)

41. Pan X#, Cai Y#, Li Z#, ..., Wang W*, Jiang Y* (2020) Modes of genetic adaptations underlying functional innovations in the rumen. Science China Life Sciences, doi: 10.1007/s11427-020-1828-8. (*Corresponding Author)

40. Wang J#, Fu W#, ..., Jiang Y*, Kang Z* (2020) WGVD: an integrated web-database for wheat genome variation and selective signatures. Database, doi: 10.1093/database/baaa090. (*Corresponding Author)

39. Wang M#, Mukesh Thakur#, Peng M#, Jiang Y*#, ..., Wu D & Zhang Y* (2020) 863 genomes reveal the origin and domestication of chicken. Cell Research, doi: 10.1038/s41422-020-0349-y. (*Corresponding Author)

38. Shen J, Chen Q, Zhang F, Hanif Q, Huang B, Chen N, Qu K, Zhan J, Chen H, Jiang Y*, Lei C* (2021) Genome-wide association study identifies quantitative trait loci affecting cattle temperament. Zool Res, doi: 10.24272/j.issn.2095-8137.2021.176. (*Corresponding Author)

37. Wang F, Shao J, He S, Guo Y, Pan X, Wang Y, Nanaei HA Chen L, Li R, Xu H, Yang Z, Liu M, Jiang Y* (2021) Allele-specific expression and splicing provide insight into the phenotypic differences between thin- and fat-tailed sheep breeds. J Genet Genomics, doi: 10.1016/j.jgg.2021.12.008. (*Corresponding Author)

36. Gao S, Nanaei H, Wei B, Wang Y, Wang X, Li Z, Dai X, Wang Z, Jiang Y, Shao J* (2020) Comparative Transcriptome Profiling Analysis Uncovers Novel Heterosis-Related Candidate Genes Associated with Muscular Endurance in Mules. Animals (Basel), doi: 10.3390/ani10060980.

35. Tian X, Li R, Fu W, Li Y, Wang X, Li M, Du D, Tang Q, Cai Y, Long Y, Zhao Y, Li M, Jiang Y* (2020) Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data. Science China Life Sciences, doi: 10.1007/s11427-019-9551-7.  (*Corresponding Author)

2019

34. Wang Y, Zhang C, Wang N, …, Jiang Y*,Wang W*, Qiang Q* (2019) Genetic basis of ruminant headgear and rapid antler regeneration. Science, doi: 10.1126/science.aav6335. (*Corresponding Author)

33. Tian X, Li R, Fu W, …, Li M*, Jiang Y* (2019) Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data. Science China Life Sciences, doi: 10.1007/s11427-019-9551-7. (*Corresponding Author)

32. Chen H, Liu J, Wen J, …, Song W*, Sun Q*, Jiang Y* (2019) Frequent intra- and inter-species introgression shape the landscape of genetic variation in bread wheat. Genome Biology, doi: 10.1186/s13059-019-1744-x. (*Corresponding Author)

31. Wang Y, Gao S, Zhao Y, …, Jiang Y* (2019) Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids. ZOOLOGICAL RESEARCH, doi: 10.24272/j.issn.2095-8137.2019.042. (*Corresponding Author)

30. Li C, Li M, Li X, …, Jiang Y*，Hu S* (2019) Whole-genome resequencing reveals loci associated with thoracic vertebrae number in sheep. Frontiers in Genetics, doi: 10.3389/fgene.2019.00674. (*Corresponding Author)

29. Cao Y, Xu H, Li R, …, Luo J*, Jiang Y* (2019) Genetic Basis of Phenotypic Differences Between Chinese Yunling Black Goats and Nubian Goats Revealed by Allele-Specific Expression in Their F1 Hybrids. Frontiers in Genetics, doi: 10.3389/fgene.2019.00145. (*Corresponding Author)

28. Li R#, Fu W#, Su R#, ..., Li J*, Jiang Y*（2019）Towards the Complete Goat Pan-Genome by Recovering Missing Genomic Segments From the Reference Genome. Frontiers in Genetics, doi: 10.3389/fgene.2019.01169. (*Corresponding Author)

27. Chen L#, Qiu Q#, Jiang Y#, …, Heller R*, Wang W* (2019) Large-scale ruminant genome sequencing provides insights into their evolution and distinct traits. Science, doi:eaav6202.

26. Li R, Tian X, Yang P, Fan Y, Li M, Zheng H, Wang X, Jiang Y* (2019) Recovery of non-reference sequences missing from the human reference genome. BMC Genomics, doi: 10.1186/s12864-019-6107-1. (*Corresponding Author)

25. Li G, Zhou S, Li C, Cai B, Yu H, Ma B, Huang Y, Ding Y, Liu Y, Ding Q, He C, Zhou J, Wang Y, Zhou G, Li Y, Yan Y, Hua J, Petersen B, Jiang Y, Sonstegard T, Huang X, Chen Y, Wang X (2019) Base pair editing in goat: nonsense codon introgression into FGF5 results in longer hair. FEBS J, doi: 10.1111/febs.14983.

2018

24. Chen N, Cai Y, Chen Q, ..., Jiang Y*, Lei C* (2018) Whole-genome resequencing reveals world-wide ancestry and multiple adaptive introgression events of domesticated cattle in East Asia. Nature communications, doi：10.1038/s41467-018-04737-0. (*Corresponding Author)

23. Zhou Z, Li M, Cheng H, ..., Hou S*, Jiang Y* (2018) An intercross population study reveals genes associated with body size and plumage color in ducks. Nature communications, doi: 10.1038/s41467-018-04868-4. (*Corresponding Author)

22. Wang X, Liu J, Niu Y, …, Huang X*, Jiang Y*, Chen Y* (2018) Low incidence of SNVs and indels in trio genomes of Cas9-mediated multiplex edited sheep. BMC Genomics, doi: 10.1186/s12864-018-4712-z. (*Corresponding Author)

2017

21. Wang X, Zheng Z, Cai Y, Chen T, Li C, Fu W, Jiang Y* (2017) CNVcaller: Highly Efficient and Widely Applicable Software for Detecting Copy Number Variations in Large Populations. GigaScience, doi: 10.1093/gigascience/gix115. (*Corresponding Author)

20. Li M#, Zhou H#, Pan X#, …, Zi X, Jiang Y*(2017) Cassava foliage affects the microbial diversity of Chinese indigenous geese caecum using 16S rRNA sequencing. Scientific Reports, doi: 10.1038/srep45697. (*Corresponding Author)

19. Yang Y, Wang Y, Zhao Y, Zhang X, Li R, Chen L, Zhang G, Jiang Y, Qiu Q, Wang W, Wei H, Wang K (2017) Draft genome of the Marco Polo Sheep (Ovis ammon polii). Gigascience, doi: 10.1093/gigascience/gix106.

18. Li X, Su R, Wan W, Zhang W, Jiang H, Qiao X, Fan Y, Zhang Y, Wang R, Liu Z, Wang Z, Liu B, Ma Y, Zhang H, Zhao Q, Zhong T, Di R, Jiang Y, Chen W, Wang W, Dong Y, Li J (2017) Identification of selection signals by large-scale whole-genome resequencing of cashmere goats. Scientific Reports, doi: 10.1038/s41598-017-15516-0. 

17. Kang D, Zhou G, Zhou S, Zeng J, Wang X, Jiang Y*, Yang Y, Chen Y (2017) Comparative transcriptome analysis reveals potentially novel roles of Homeobox genes in adipose deposition in fat-tailed sheep. Scientific Reports, doi: 10.1038/s41598-017-14967-9. (*Corresponding Author)

16. Xu Y, Jiang Y, Shi T, Cai H, Lan X, Zhao X, Plath M, Chen H (2017) Whole-genome sequencing reveals mutational landscape underlying phenotypic differences between two widespread Chinese cattle breeds. PLoS One, doi: 10.1371/journal.pone.0183921. 

15. Qiao X, Su R, Wang Y, Wang R, Yang T, Li X, Chen W, He S, Jiang Y, Xu Q, Wan W, Zhang Y, Zhang W, Chen J, Liu B, Liu X, Fan Y, Chen D, Jiang H, Fang D, Liu Z, Wang X, Zhang Y, Mao D, Wang Z, Di R, Zhao Q, Zhong T, Yang H, Wang J, Wang W, Dong Y, Chen X, Xu X, Li J (2017) Genome-wide Target Enrichment-aided Chip Design: a 66 K SNP Chip for Cashmere Goat. Scientific Reports, doi: 10.1038/s41598-017-09285-z. 

14. Li C, Zhang X, Cao Y, Wei J, You S, Jiang Y, Cai K, Wumaier W, Guo D, Qi J, Chen C, Ni W, Hu S (2017) Multi-vertebrae variation potentially contribute to carcass length and weight of Kazakh sheep. Small Ruminant Research, https://doi.org/10.1016/j.smallrumres.2017.02.021.

13. Li M, Zhou H, Pan X, Xu T, Zhang Z, Zi X, Jiang Y* (2017) Corrigendum: Cassava foliage affects the microbial diversity of Chinese indigenous geese caecum using 16S rRNA sequencing. Scientific Reports, doi: 10.1038/srep46837. Erratum for: Sci Rep. 2017 Apr 06;7:45697. (*Corresponding Author)

2016

12. Wang X, Liu J, Zhou G, Guo J, Yan H, Niu Y, Li Y, Yuan C, Geng R, Lan X, An X, Tian X, Zhou H, Song J, Jiang Y, Chen Y (2016) Whole-genome sequencing of eight goat populations for the detection of selection signatures underlying production and adaptive traits. Scientific Reports, doi: 10.1038/srep38932.

11. Wang X, Niu Y, Zhou J, Yu H, Kou Q, Lei A, Zhao X, Yan H, Cai B, Shen Q, Zhou S, Zhu H, Zhou G, Niu W, Hua J, Jiang Y, Huang X, Ma B, Chen Y (2016) Multiplex gene editing via CRISPR/Cas9 exhibits desirable muscle hypertrophy without detectable off-target effects in sheep. Scientific Reports, doi: 10.1038/srep32271.

10. Gao Y, Wang X, Yan H, Zeng J, Ma S, Niu Y, Zhou G, Jiang Y, Chen Y* (2016) Comparative Transcriptome Analysis of Fetal Skin Reveals Key Genes Related to Hair Follicle Morphogenesis in Cashmere Goats. PLoS One, doi: 10.1371/journal.pone.0151118.

2015

9. Dong Y, Zhang X, Xie M, …, Wang W*, Jiang Y* (2015) Reference genome of wild goat and sequencing of goat breeds provide insight into genic basis of goat domestication. BMC Genomics, doi: 10.1186/s12864-015-1606-1. (*Corresponding Author)

8. Chen H, Jiang Y*(2015) Progress and Prospects in Domestic Animals and Breeding: a Review of Genomic Copy Number Variations. Biotechnology Bulletin, doi: 10.13560/j.cnki.biotech.bull.1985.2015.11.006. (*Corresponding Author)

7. Jiang Y#, Wang X#, Kijas J#, Dalrymple B# (2015) Beta globin gene evolution in the ruminants: evidence for an ancient origin of sheep haplotype B. Animal Genetics, doi: 10.1111/age.12318.

6. Zhou Z#, Jiang Y#, Wang Z#, …, Wang W*, Tian Z* (2015) Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean. Nature biotechnology, doi: 10.1038/nbt.3096.

5. Wang Y, Wu J, Ma X, Liu B, Su R, Jiang Y, Wang W, Dong Y (2015) Single Base-Resolution Methylome of the Dizygotic Sheep. PLoS One, doi: 10.1371/journal.pone.0142034.

4. Wang X, Yu H, Lei A, Zhou J, Zeng W, Zhu H, Dong Z, Niu Y, Shi B, Cai B, Liu J, Huang S, Yan H, Zhao X, Zhou G, He X, Chen X, Yang Y, Jiang Y, Shi L, Tian X, Wang Y, Ma B, Huang X, Qu L, Chen Y (2015) Generation of gene-modified goats targeting MSTN and FGF5 via zygote injection of CRISPR/Cas9 system. Scientific Reports, doi: 10.1038/srep13878.

2014 and before

3. Jiang Y#, Xie M#, Chen W#, …, Wang W*, Dalrymple B* (2014) The sheep genome illuminates biology of the rumen and lipid metabolism. Science, doi: 10.1126/science.1252806.

2. Dong Y#, Xie M#, Jiang Y#, …, Wang J*, Wang W* (2013) Sequencing and automated whole-genome optical mapping of the genome of a domestic goat. Nature Biotechnology, doi: 10.1038/nbt.2478.

1. Jiang Y#, Li Y#, Lee W#, …, Zhang Y*, Wang W*（2011）Venom gland transcriptomes of two elapid snakes (Bungarus multicinctus and Naja atra) and evolution of toxin genes. BMC Genomics, doi: 10.1186/1471-2164-12-1.

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