Integrative 3D genomics with multi-omics analysis and functional validation of genetic regulatory mechanisms of abdominal fat deposition in chickens.
Animals
Abdominal Fat
/ metabolism
Chickens
/ genetics
Male
Genomics
/ methods
Interferon Regulatory Factors
/ genetics
Polymorphism, Single Nucleotide
Gene Regulatory Networks
Insulin-Like Growth Factor Binding Protein 2
/ genetics
Adipocytes
/ metabolism
Genome-Wide Association Study
Alleles
Gene Expression Regulation
Chromatin
/ metabolism
Multiomics
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
28 Oct 2024
28 Oct 2024
Historique:
received:
23
05
2024
accepted:
18
10
2024
medline:
29
10
2024
pubmed:
29
10
2024
entrez:
29
10
2024
Statut:
epublish
Résumé
Chickens are the most abundant agricultural animals globally, with controlling abdominal fat deposition being a key objective in poultry breeding. While GWAS can identify genetic variants associated with abdominal fat deposition, the precise roles and mechanisms of these variants remain largely unclear. Here, we use male chickens from two lines divergently selected for abdominal fat deposition as experimental models. Through the integration of genomic, epigenomic, 3D genomic, and transcriptomic data, we build a comprehensive chromatin 3D regulatory network map to identify the genetic regulatory mechanisms that influence abdominal fat deposition in chickens. Notably, we find that the rs734209466 variant functions as an allele-specific enhancer, remotely enhancing the transcription of IGFBP2 and IGFBP5 by the binding transcription factor IRF4. This interaction influences the differentiation and proliferation of preadipocytes, which ultimately affects phenotype. This work presents a detailed genetic regulatory map for chicken abdominal fat deposition, offering molecular targets for selective breeding.
Identifiants
pubmed: 39468045
doi: 10.1038/s41467-024-53692-6
pii: 10.1038/s41467-024-53692-6
doi:
Substances chimiques
Interferon Regulatory Factors
0
interferon regulatory factor-4
0
Insulin-Like Growth Factor Binding Protein 2
0
Chromatin
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
9274Subventions
Organisme : National Natural Science Foundation of China (National Science Foundation of China)
ID : No. 32372868
Informations de copyright
© 2024. The Author(s).
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