对经过基因筛选的 Clarias magur(Hamilton,1822 年)进行 DNA 甲基化分析,可深入了解其生长和发育的表观遗传调控。

IF 2.6 3区 生物学 Q3 BIOTECHNOLOGY & APPLIED MICROBIOLOGY
K. Shasti Risha, Kiran D. Rasal, Dhalongsaih Reang, Mir Asif Iquebal, Arvind Sonwane, Manoj Brahmane, Aparna Chaudhari, Naresh Nagpure
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引用次数: 0

摘要

DNA 甲基化是一种表观遗传学改变,它会在不改变 DNA 序列的情况下影响基因表达,从而影响生物的表型。本研究利用还原表征亚硫酸氢盐测序(RRBS)方法,研究了经过基因筛选的红鳉鱼种群的DNA甲基化模式。RRBS产生了2.4922亿个读数,在基因的不同部分,包括外显子、内含子和基因间区,平均检测到490 120个甲基化位点。共鉴定出 896 个差异甲基化区域(DMRs),其中高甲基化区域 356 个,低甲基化区域 540 个。利用 magur 的全基因组数据探讨了 DMRs 及其与重叠基因的关联,发现外显子区有 205 个基因,内含子区有 210 个基因,基因间区有 480 个基因。分析发现,在 RNA 生物合成过程、对生长因子的反应、神经系统发育、神经发生和解剖结构形态发生等生物过程中富集的基因数量最多。myrip、mylk3、mafb、egr3、ndnf、meis2a、foxn3、bmp1a、plxna3、fgf6、sipa1l1、mcu、not8、trim55b和myof等差异甲基化基因(DMGs)与生长发育有关。利用实时 PCR 对所选的 DMGs 进行了分析,结果显示 mRNA 表达水平发生了改变。这项工作有助于深入了解马革尔种群生长性能调控的表观遗传学机制。这项工作提供了宝贵的表观遗传学数据资源,可将其整合到育种计划中,以选育出表现优异的个体。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

DNA Methylation Profiling in Genetically Selected Clarias magur (Hamilton, 1822) Provides Insights into the Epigenetic Regulation of Growth and Development

DNA Methylation Profiling in Genetically Selected Clarias magur (Hamilton, 1822) Provides Insights into the Epigenetic Regulation of Growth and Development

DNA methylation is an epigenetic alteration that impacts gene expression without changing the DNA sequence affecting an organism’s phenotype. This study utilized a reduced representation bisulfite sequencing (RRBS) approach to investigate the patterns of DNA methylation in genetically selected Clarias magur stocks. RRBS generated 249.22 million reads, with an average of 490,120 methylation sites detected in various parts of genes, including exons, introns, and intergenic regions. A total of 896 differentially methylated regions (DMRs) were identified; 356 and 540 were detected as hyper-methylated and hypo-methylated regions, respectively. The DMRs and their association with overlapping genes were explored using whole genome data of magur, which revealed 205 genes in exonic, 210 in intronic, and 480 in intergenic regions. The analysis identified the maximum number of genes enriched in biological processes such as RNA biosynthetic process, response to growth factors, nervous system development, neurogenesis, and anatomical structure morphogenesis. Differentially methylated genes (DMGs) such as myrip, mylk3, mafb, egr3, ndnf, meis2a, foxn3, bmp1a, plxna3, fgf6, sipa1l1, mcu, cnot8, trim55b, and myof were associated with growth and development. The selected DMGs were analyzed using real-time PCR, which showed altered mRNA expression levels. This work offers insights into the epigenetic mechanisms governing growth performance regulation in magur stocks. This work provides a valuable resource of epigenetic data that could be integrated into breeding programs to select high-performing individuals.

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来源期刊
Marine Biotechnology
Marine Biotechnology 工程技术-海洋与淡水生物学
CiteScore
4.80
自引率
3.30%
发文量
95
审稿时长
2 months
期刊介绍: Marine Biotechnology welcomes high-quality research papers presenting novel data on the biotechnology of aquatic organisms. The journal publishes high quality papers in the areas of molecular biology, genomics, proteomics, cell biology, and biochemistry, and particularly encourages submissions of papers related to genome biology such as linkage mapping, large-scale gene discoveries, QTL analysis, physical mapping, and comparative and functional genome analysis. Papers on technological development and marine natural products should demonstrate innovation and novel applications.
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