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De novo genome assembly depicts the immune genomic characteristics of cattle.
Li, Ting-Ting; Xia, Tian; Wu, Jia-Qi; Hong, Hao; Sun, Zhao-Lin; Wang, Ming; Ding, Fang-Rong; Wang, Jing; Jiang, Shuai; Li, Jin; Pan, Jie; Yang, Guang; Feng, Jian-Nan; Dai, Yun-Ping; Zhang, Xue-Min; Zhou, Tao; Li, Tao.
Afiliación
  • Li TT; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Xia T; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Wu JQ; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Hong H; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Sun ZL; State Key Laboratory of Toxicology and Medical Countermeasures, Beijing Institute of Pharmacology and Toxicology, Beijing, 100850, China.
  • Wang M; State Key Laboratories for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No.2 Yuanmingyuan Xilu, Beijing, 100193, China.
  • Ding FR; College of Animal Science and Technology, China Agricultural University, No.2 Yuanmingyuan Xilu, Beijing, 100193, China.
  • Wang J; State Key Laboratories for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No.2 Yuanmingyuan Xilu, Beijing, 100193, China.
  • Jiang S; State Key Laboratory of Toxicology and Medical Countermeasures, Beijing Institute of Pharmacology and Toxicology, Beijing, 100850, China.
  • Li J; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Pan J; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Yang G; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Feng JN; State Key Laboratory of Toxicology and Medical Countermeasures, Beijing Institute of Pharmacology and Toxicology, Beijing, 100850, China.
  • Dai YP; State Key Laboratory of Toxicology and Medical Countermeasures, Beijing Institute of Pharmacology and Toxicology, Beijing, 100850, China.
  • Zhang XM; State Key Laboratories for Agrobiotechnology, College of Biological Sciences, China Agricultural University, No.2 Yuanmingyuan Xilu, Beijing, 100193, China.
  • Zhou T; Nanhu Laboratory, National Center of Biomedical Analysis, Beijing, 100850, China.
  • Li T; School of Basic Medical Sciences, Fudan University, Shanghai, 200032, China.
Nat Commun ; 14(1): 6601, 2023 10 19.
Article en En | MEDLINE | ID: mdl-37857610
ABSTRACT
Immunogenomic loci remain poorly understood because of their genetic complexity and size. Here, we report the de novo assembly of a cattle genome and provide a detailed annotation of the immunogenomic loci. The assembled genome contains 143 contigs (N50 ~ 74.0 Mb). In contrast to the current reference genome (ARS-UCD1.2), 156 gaps are closed and 467 scaffolds are located in our assembly. Importantly, the immunogenomic regions, including three immunoglobulin (IG) loci, four T-cell receptor (TR) loci, and the major histocompatibility complex (MHC) locus, are seamlessly assembled and precisely annotated. With the characterization of 258 IG genes and 657 TR genes distributed across seven genomic loci, we present a detailed depiction of immune gene diversity in cattle. Moreover, the MHC gene structures are integrally revealed with properly phased haplotypes. Together, our work describes a more complete cattle genome, and provides a comprehensive view of its complex immune-genome.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Genoma / Genómica Límite: Animals Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2023 Tipo del documento: Article País de afiliación: China
Texto completo
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Genoma / Genómica Límite: Animals Idioma: En Revista: Nat Commun Asunto de la revista: BIOLOGIA / CIENCIA Año: 2023 Tipo del documento: Article País de afiliación: China