大黄鱼生长速率差异个体肌肉组织的转录组比较分析

Comparative analysis of transcriptome of muscle tissue of individuals with different growth rate of Larimichthys crocea

  • 摘要: 为了探究大黄鱼生长性状的分子调控机制,实验从同一个网箱内养殖的大黄鱼中选取生长速率较快的体重均值为(527.1 ± 83.6) g的个体182尾、生长速率较慢的体重均值为(238.4 ± 52.3) g的个体230尾,共412尾进行研究。对其肌肉组织进行总RNA提取和转录组测序,并对2组进行基因差异表达分析。以Padj < 0.05、abslog2(FoldChange) > 1为标准,共筛选到227个差异表达基因,包括125个上调基因、102个下调基因。差异表达基因在NCBI-nr和Uniprot (Swiss-Prot)数据库的注释率分别为99.12 %、81.94 %。通过差异表达基因的功能注释结果,初步筛选出了可能与肌肉生长相关的候选功能基因,如gdf9、ckmtnni2和des等。GO和KEGG分析预测出部分与肌肉生长相关的信息,如GO term有肌动蛋白丝组织、肌动蛋白细胞骨架组织、肌动蛋白丝基过程、微管组织中心和发育生长等,KEGG通路有细胞和生长因子、脂肪酸生物合成、转化生长因子-β信号通路 (TGF-β信号通路)、胰岛素信号通路和肌动蛋白细胞骨架的调控等。加权基因共表达网络分析 (WGCNA) 分析发现,purple模块与体重性状相关性较强,其核心基因myoz1、tpm1和tnni2可能与肌肉生长相关。本研究结果可以为后续相关基因功能的深度挖掘验证以及大黄鱼生长性状的分子调控机制解析提供参考。

     

    Abstract: In order to explore the molecular regulation mechanism of growth traits of Larimichthys crocea, in this experiment, 182 individuals with fast growth rate average body weight (527.1 ± 83.6) g and 230 individuals with slow growth rate average body weight (238.4 ± 52.3) g were selected from L. crocea cultured in the same cage, a total of 412 individuals were studied. The muscle tissues were subject to total RNA extraction and sequenced by transcriptome, and the differential expression of genes between the two groups was analyzed. According to Padj < 0.05 and abslog2(FoldChange) > 1, 227 differentially expressed genes were screened, including 125 up-regulated genes and 102 down-regulated genes. The annotation rates of differentially expressed genes in NCBI-nr and Uniprot (Swiss-Prot) databases were 99.12 % and 81.94 %, respectively. Based on the functional annotation results of differentially expressed genes, candidate functional genes that may be related to muscle growth, such as gdf9, ckm, tnni2 and des, were screened. GO and KEGG analysis predicted some information related to muscle growth, such as actin filament organization, actin cytoskeleton organization, actin filament-based process, microtubule organizing center and developmental growth in GO term, and cytokines and growth factors, fatty acid biosynthesis, transforming growth factor-beta signaling pathway (TGF-β signaling pathway), insulin signaling pathway and regulation of actin cytoskeleton in KEGG pathway. WGCNA analysis showed that there was a strong correlation between purple module and body weight traits, and its core genes myoz1, tpm1 and tnni2 may be related to muscle growth. These results provide a reference for further verification of the functions of related genes and the analysis of the molecular regulation mechanism of growth traits of L.crocea.

     

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