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Dynamic alternations of three-dimensional chromatin architecture contribute to phenotypic characteristics of breast muscle in chicken.

Authors :
Wang, Zhang
Tian, Weihua
Guo, Yulong
Wang, Dandan
Zhang, Yanyan
Zhi, Yihao
Li, Donghua
Li, Wenting
Li, Zhuanjian
Jiang, Ruirui
Han, Ruili
Sun, Guirong
Li, Guoxi
Tian, Yadong
Li, Hong
Kang, Xiangtao
Liu, Xiaojun
Source :
Communications Biology. 7/28/2024, Vol. 7 Issue 1, p1-16. 16p.
Publication Year :
2024

Abstract

Breast muscle growth rate and intramuscular fat (IMF) content show apparent differences between fast-growing broilers and slow-growing indigenous chickens. However, the underlying genetic basis of these phenotypic characteristics remains elusive. In this study, we investigate the dynamic alterations of three-dimensional genome architecture and chromatin accessibility in breast muscle across four key developmental stages from embryo to starter chick in Arbor Acres (AA) broilers and Yufen (YF) indigenous chickens. The limited breed-specifically up-regulated genes (Bup-DEGs) are embedded in breed-specific A compartment, while a majority of the Bup-DEGs involving myogenesis and adipogenesis are regulated by the breed-specific TAD reprogramming. Chromatin loops allow distal accessible regions to interact with myogenic genes, and those loops share an extremely low similarity between chicken with different growth rate. Moreover, AA-specific loop interactions promote the expression of 40 Bup-DEGs, such as IGF1, which contributes to myofiber hypertrophy. YF-specific loop interactions or distal accessible regions lead to increased expression of 5 Bup-DEGs, including PIGO, PEMT, DHCR7, TMEM38B, and DHDH, which contribute to IMF deposition. These results help elucidate the regulation of breast muscle growth and IMF deposition in chickens. A Hi-C study reveals the dynamic chromatin architecture of breast muscle and gene expression affected by breed-specific 3D genome architecture that may influence muscle growth and intramuscular fat deposition between fast-growing and slow-growing chickens. [ABSTRACT FROM AUTHOR]

Details

Language :
English
ISSN :
23993642
Volume :
7
Issue :
1
Database :
Academic Search Index
Journal :
Communications Biology
Publication Type :
Academic Journal
Accession number :
178656083
Full Text :
https://doi.org/10.1038/s42003-024-06599-3