Integrated GWAS and transcriptome analysis reveals key genes associated with muscle fibre and fat traits in Gushi chicken.

IF 1.6 3区农林科学 Q2 AGRICULTURE, DAIRY & ANIMAL SCIENCE British Poultry Science Pub Date : 2024-10-04 DOI:10.1080/00071668.2024.2400685

H Li, S Li, H Zhang, J Gu, Y Dai, R Wu, Y Wang, R Han, G Sun, Y Zhang, H Li, Y Zhao, G Li

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Abstract

1. In the following experiment meat quality traits of a Gushi-Anka F2 resource population were measured, and their heritability estimated. Intramuscular fat (IMF) had medium heritability (0.35) but leg muscle fibre density (LMD), leg muscle fibre diameter (LMF), breast muscle fibre density (BMD), fresh fat content (FFA), and absolute dry fat content (AFC) had low heritability (0-0.2). The IMF presented the most important genetic additive effect among the poultry meat quality-related traits studied.2. The phenotypic data of meat quality traits in the Gushi-Anka F2 resource population were combined with genotyping by sequencing (GBS) data to obtain genotype data. Six meat quality traits in 734 birds were analysed by GWAS. Based on these variants, 83 significant (-log₁₀(p) > 4.42) single nucleotide polymorphisms and four quantitative trait loci (QTL) regions corresponding to 175 genes were identified. Further linkage disequilibrium (LD) analysis was conducted on chromosome 13 (Chr13) and chromosome 27 (Chr27) QTL regions.3. Based on the transcriptome data and GWAS results, 12 shared genes - ITGB3, DNAJC27, ETV4, C7orf50, FKBP1B, G3BP1, IGF2BP1, KCNH6, LOC416263, SCARA5, SMIM5 and TBL1XR1 were identified as candidate genes influencing muscle fibre and fat traits.

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综合 GWAS 和转录组分析揭示了与固始鸡肌肉纤维和脂肪特征相关的关键基因。

1.在接下来的实验中，对 Gushi-Anka F2 资源群体的肉质性状进行了测定，并估算了其遗传率。肌内脂肪（IMF）的遗传率为中等（0.35），但腿部肌纤维密度（LMD）、腿部肌纤维直径（LMF）、胸部肌纤维密度（BMD）、新鲜脂肪含量（FFA）和绝对干脂肪含量（AFC）的遗传率较低（0-0.2）。在所研究的家禽肉质相关性状中，IMF 具有最重要的遗传叠加效应。 2.将 Gushi-Anka F2 资源群体肉质性状的表型数据与基因分型测序（GBS）数据相结合，获得基因型数据。通过 GWAS 分析了 734 只家禽的六个肉质性状。根据这些变异，确定了 83 个显著的（-log10(p) > 4.42）单核苷酸多态性和 4 个数量性状位点（QTL）区域，对应 175 个基因。对 13 号染色体（Chr13）和 27 号染色体（Chr27）QTL 区域进行了进一步的连锁不平衡（LD）分析。根据转录组数据和 GWAS 结果，确定了 12 个共有基因--ITGB3、DNAJC27、ETV4、C7orf50、FKBP1B、G3BP1、IGF2BP1、KCNH6、LOC416263、SCARA5、SMIM5 和 TBL1XR1--作为影响肌肉纤维和脂肪性状的候选基因。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

British Poultry Science 农林科学-奶制品与动物科学

CiteScore

3.90

自引率

5.00%

发文量

审稿时长

4.5 months

期刊介绍： From its first volume in 1960, British Poultry Science has been a leading international journal for poultry scientists and advisers to the poultry industry throughout the world. Over 60% of the independently refereed papers published originate outside the UK. Most typically they report the results of biological studies with an experimental approach which either make an original contribution to fundamental science or are of obvious application to the industry. Subjects which are covered include: anatomy, embryology, biochemistry, biophysics, physiology, reproduction and genetics, behaviour, microbiology, endocrinology, nutrition, environmental science, food science, feeding stuffs and feeding, management and housing welfare, breeding, hatching, poultry meat and egg yields and quality.Papers that adopt a modelling approach or describe the scientific background to new equipment or apparatus directly relevant to the industry are also published. The journal also features rapid publication of Short Communications. Summaries of papers presented at the Spring Meeting of the UK Branch of the WPSA are published in British Poultry Abstracts .