LUC7L-201 is an important regulator of skeletal muscle growth and development in goats identified through integration of nanopore and Illumina sequencing

IF 3.4 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Genomics Pub Date : 2025-05-21 DOI:10.1016/j.ygeno.2025.111059

Aishao Shangguan, Juan Yang, Nian Zhang, Hu Tao, Feng Zhang, Tian Xu, Mingxin Chen, Qi Xiong

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引用次数: 0

Abstract

Alternative splicing (AS) plays a crucial role in the post-transcriptional regulation of gene expression, influencing skeletal muscle growth and development. However, research into transcriptomic landscape of AS and its key isoforms associated with skeletal muscle in goats is comparatively limited compared with other livestock species such as pigs. In this study, longissimus dorsi muscles from 4 Macheng black goats and 4 Boer goats were used to perform Oxford Nanopore Technologies full-length sequencing and Illumina RNA-seq. A total of 91,874 unique full-length non-chimeric sequences and 10,955 novel isoforms were identified. Subsequently, we detected 13,866 AS events and 1702 novel long non-coding RNAs (lncRNAs), with exon skipping (4024, 29.02 %) being the most prevalent AS event. In addition, a total of 2267 differentially expressed isoforms (DEIs) were identified between Macheng black and Boer goats. Among these DEIs, 1301 isoforms were up-regulated and 966 were down-regulated in Macheng black goats. Functional enrichment analyses revealed that these DEIs were predominantly associated with pathways related to skeletal muscle development, cellular metabolic processes, and genetic information processing. Notably, we identified LUC7L-201 as an important isoform that negatively regulates cell proliferation and differentiation in goat primary myoblasts, as demonstrated by overexpression experiments. Overall, this study enhances our understanding of the transcriptomic diversity underlying skeletal muscle growth and development in goats, providing valuable insights for future research and potential applications in livestock management.

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LUC7L-201是山羊骨骼肌生长发育的重要调控因子，通过纳米孔和Illumina测序鉴定。

选择性剪接（AS）在基因表达的转录后调控中起着至关重要的作用，影响骨骼肌的生长发育。然而，与猪等其他家畜物种相比，山羊AS及其与骨骼肌相关的关键亚型的转录组学研究相对有限。本研究采用4只麻城黑山羊和4只波尔山羊背最长肌进行Oxford Nanopore Technologies全长测序和Illumina RNA-seq。共鉴定出91874个独特的全长非嵌合序列和10955个新的同种异构体。随后，我们检测到13866个AS事件和1702个新的长非编码rna (lncRNAs)，其中外显子跳变（4024,29.02 %）是最常见的AS事件。此外，在麻城黑山羊和布尔山羊之间共鉴定出2267个差异表达异构体（DEIs）。其中，在麻城黑山羊中上调1301个，下调966个。功能富集分析显示，这些dei主要与骨骼肌发育、细胞代谢过程和遗传信息处理相关的途径相关。值得注意的是，我们发现LUC7L-201是山羊原代成肌细胞负调控细胞增殖和分化的重要异构体，这一点在过表达实验中得到了证实。总的来说，本研究增强了我们对山羊骨骼肌生长发育的转录组多样性的理解，为未来的研究和牲畜管理中的潜在应用提供了有价值的见解。

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

Genomics 生物-生物工程与应用微生物

CiteScore

9.60

自引率

2.30%

发文量

260

审稿时长

60 days

期刊介绍： Genomics is a forum for describing the development of genome-scale technologies and their application to all areas of biological investigation. As a journal that has evolved with the field that carries its name, Genomics focuses on the development and application of cutting-edge methods, addressing fundamental questions with potential interest to a wide audience. Our aim is to publish the highest quality research and to provide authors with rapid, fair and accurate review and publication of manuscripts falling within our scope.