Integrated analysis of whole genome and transcriptome sequencing uncovers genetic differences between Zi goose and Xianghai flying goose

IF 1.8 3区生物学 Q2 AGRICULTURE, DAIRY & ANIMAL SCIENCE

Animal genetics Pub Date : 2023-12-12 DOI:10.1111/age.13388

Hongyu Ni, Yonghong Zhang, Yuwei Yang, Yijing Yin, Jing Ren, Qingxing Xiao, Puze Zhao, Xiaoqing Hong, Ziyi Zhang, Benhai Cui, Hao Sun, Xueqi Sun, Yumei Li

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引用次数: 0

Abstract

Zi goose is a famous indigenous breed originating from northeast China with high annual egg production. Xianghai flying goose is a composite breed and is bred by crosses of the wild swan goose and the Zi goose. Our previous study revealed significant differences in muscle fiber characteristics between the two populations. Here, we aimed to reveal the underlying genetic basis of the above phenotype differences through whole-genome and transcriptome analysis. A total of 20 blood samples (10 Zi geese and 10 Xianghai flying geese) were used for whole genome sequencing, and eight breast muscle tissue samples (four Zi geese and four Xianghai flying geese) were used for RNA sequencing. Using the F_ST and XP-EHH analysis, some highly differentiated genome regions annotated with egg production (RORB, WNT4, BMPR1B) and breast muscle development (WNT7B) between the two populations were detected. RNA-sequencing analysis revealed differentially expressed genes related to muscle development (IGF1, PAX7). Moreover, several genes were detected by both genome and transcriptome analysis, and some of them were reported to be associated with muscle growth (SLIT2, PREX1) and intramuscular fat (COL6A1). These findings will help researchers better understand the genetic basis related to egg production and muscle development in geese.

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全基因组和转录组测序的综合分析揭示了紫鹅和香海飞鹅的遗传差异

子鹅是原产于中国东北的著名土生品种，年产蛋量高。香海飞鹅是一个综合品种，由大天鹅和紫鹅杂交培育而成。我们之前的研究发现，两个种群的肌肉纤维特征存在显著差异。在此，我们旨在通过全基因组和转录组分析揭示上述表型差异的遗传基础。我们共采集了20份血液样本（10只紫雁群和10只湘海飞雁群）进行全基因组测序，采集了8份胸肌组织样本（4只紫雁群和4只湘海飞雁群）进行RNA测序。通过FST和XP-EHH分析，发现了两个种群之间一些与产蛋（RORB、WNT4、BMPR1B）和胸肌发育（WNT7B）相关的高度分化基因组区域。RNA 序列分析发现了与肌肉发育有关的差异表达基因（IGF1、PAX7）。此外，通过基因组和转录组分析还检测到一些基因，其中一些基因与肌肉生长（SLIT2、PREX1）和肌内脂肪（COL6A1）有关。这些发现将有助于研究人员更好地了解与鹅产蛋量和肌肉发育相关的遗传基础。

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

Animal genetics 生物-奶制品与动物科学

CiteScore

4.60

自引率

4.20%

发文量

115

审稿时长

5 months

期刊介绍： Animal Genetics reports frontline research on immunogenetics, molecular genetics and functional genomics of economically important and domesticated animals. Publications include the study of variability at gene and protein levels, mapping of genes, traits and QTLs, associations between genes and traits, genetic diversity, and characterization of gene or protein expression and control related to phenotypic or genetic variation. The journal publishes full-length articles, short communications and brief notes, as well as commissioned and submitted mini-reviews on issues of interest to Animal Genetics readers.