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A chromosome-level genome assembly for the Silkie chicken resolves complete sequences for key chicken metabolic, reproductive, and immunity genes.
Zhu, Feng; Yin, Zhong-Tao; Zhao, Qiang-Sen; Sun, Yun-Xiao; Jie, Yu-Chen; Smith, Jacqueline; Yang, Yu-Ze; Burt, David W; Hincke, Maxwell; Zhang, Zi-Ding; Yuan, Meng-Di; Kaufman, Jim; Sun, Cong-Jiao; Li, Jun-Ying; Shao, Li-Wa; Yang, Ning; Hou, Zhuo-Cheng.
Afiliação
  • Zhu F; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Yin ZT; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Zhao QS; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Sun YX; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Jie YC; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Smith J; The Roslin Institute & R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK.
  • Yang YZ; Beijing General Station of Animal Husbandry, 100101, Beijing, China.
  • Burt DW; The Roslin Institute & R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK.
  • Hincke M; The University of Queensland, St. Lucia, QLD, 4072, Australia.
  • Zhang ZD; Department of Cellular and Molecular Medicine, Department of Innovation in Medical Education, Faculty of Medicine, University of Ottawa, 451 Smyth Road, Ottawa, KIH 8M5, Canada.
  • Yuan MD; College of Biological Sciences, China Agricultural University, 100193, Beijing, China.
  • Kaufman J; College of Biological Sciences, China Agricultural University, 100193, Beijing, China.
  • Sun CJ; Institute for Immunology and Infection Research, University of Edinburgh, Edinburgh, EH9 3FL, UK.
  • Li JY; Department of Pathology, University of Cambridge, Cambridge, CB2 1QP, UK.
  • Shao LW; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Yang N; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China.
  • Hou ZC; National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, MARA; College of Animal Science and Technology, China Agricultural University, No. 2 Yuanmingyuan West Rd, 100193, Beijing, China. liwa@cau.edu.cn.
Commun Biol ; 6(1): 1233, 2023 12 06.
Article em En | MEDLINE | ID: mdl-38057566
A set of high-quality pan-genomes would help identify important genes that are still hidden/incomplete in bird reference genomes. In an attempt to address these issues, we have assembled a de novo chromosome-level reference genome of the Silkie (Gallus gallus domesticus), which is an important avian model for unique traits, like fibromelanosis, with unclear genetic foundation. This Silkie genome includes the complete genomic sequences of well-known, but unresolved, evolutionarily, endocrinologically, and immunologically important genes, including leptin, ovocleidin-17, and tumor-necrosis factor-α. The gap-less and manually annotated MHC (major histocompatibility complex) region possesses 38 recently identified genes, with differentially regulated genes recovered in response to pathogen challenges. We also provide whole-genome methylation and genetic variation maps, and resolve a complex genetic region that may contribute to fibromelanosis in these animals. Finally, we experimentally show leptin binding to the identified leptin receptor in chicken, confirming an active leptin ligand-receptor system. The Silkie genome assembly not only provides a rich data resource for avian genome studies, but also lays a foundation for further functional validation of resolved genes.
Assuntos

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Galinhas / Leptina Limite: Animals Idioma: En Revista: Commun Biol Ano de publicação: 2023 Tipo de documento: Article

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Galinhas / Leptina Limite: Animals Idioma: En Revista: Commun Biol Ano de publicação: 2023 Tipo de documento: Article