Comparative gonadal transcriptome analysis reveals sex-biased genes in Siniperca scherzeri

IF 0.9 Q4 GENETICS & HEREDITY

Gene Reports Pub Date : 2025-09-12 DOI:10.1016/j.genrep.2025.102340

Shengyue Lin , Dingxian Chen , Weiqian Liang , Weijian Chen , Weibin Li , Ziyan Deng , Guojun Cai , Sixun Li , Binhua Deng , Kaifeng Wang , Chong Han , Qiang Li

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Abstract

Siniperca scherzeri is a valuable freshwater fish in China. The economic value of female S. scherzeri far exceeds that of males. Nevertheless, the lack of sex-related research has significantly impeded the development of single-sex breeding programs for this species.

In this investigation, Illumina Novaseq technology was employed to perform a comparative analysis of the gonadal transcriptomes of S. scherzeri in the first time. Assembly yielded 33,690 unigenes, of which 31,395 were successfully annotated. A comparative analysis identified 15,146 differentially expressed genes between the ovary and testis. Specifically, 9514 genes were downregulated and 5632 genes were upregulated in the ovaries. Moreover, multiple genes participating in gonadal differentiation and development, steroid synthetic pathway, and gametogenesis were screened out. Among these genes, sox 1, sox3, cyp26a1, gdf9, bmp15, zp3, foxh1, and nr0b1 showed ovary-biased expression; Amh, dmrt1b, sox 4, and nanos 2 showed testis-bias expression. Our real-time PCR also confirmed the RNA-seq results of these genes. These results are of great significance for elucidating the molecular mechanisms of sex differentiation and development in S. scherzeri.

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比较性腺转录组分析揭示了雪氏鳜的性别偏倚基因

雪氏鳜是中国一种珍贵的淡水鱼。雌雪氏蜱的经济价值远远超过雄雪氏蜱。然而，性别相关研究的缺乏严重阻碍了该物种单性繁殖计划的发展。本研究首次采用Illumina Novaseq技术对舍氏弧菌的性腺转录组进行比较分析。组装得到33,690个unigenes，其中31,395个被成功注释。一项比较分析发现，卵巢和睾丸之间存在15,146个差异表达基因。具体来说，卵巢中9514个基因下调，5632个基因上调。此外，还筛选出了参与性腺分化发育、类固醇合成途径和配子体发生的多个基因。其中，sox1、sox3、cyp26a1、gdf9、bmp15、zp3、foxh1、nr0b1呈卵巢偏向性表达；Amh、dmrt1b、sox 4和nanos 2表现出睾丸偏倚表达。我们的real-time PCR也证实了这些基因的RNA-seq结果。这些结果对阐明沙蚕性别分化和发育的分子机制具有重要意义。

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

Gene Reports Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.30

自引率

7.70%

发文量

246

审稿时长

49 days

期刊介绍： Gene Reports publishes papers that focus on the regulation, expression, function and evolution of genes in all biological contexts, including all prokaryotic and eukaryotic organisms, as well as viruses. Gene Reports strives to be a very diverse journal and topics in all fields will be considered for publication. Although not limited to the following, some general topics include: DNA Organization, Replication & Evolution -Focus on genomic DNA (chromosomal organization, comparative genomics, DNA replication, DNA repair, mobile DNA, mitochondrial DNA, chloroplast DNA). Expression & Function - Focus on functional RNAs (microRNAs, tRNAs, rRNAs, mRNA splicing, alternative polyadenylation) Regulation - Focus on processes that mediate gene-read out (epigenetics, chromatin, histone code, transcription, translation, protein degradation). Cell Signaling - Focus on mechanisms that control information flow into the nucleus to control gene expression (kinase and phosphatase pathways controlled by extra-cellular ligands, Wnt, Notch, TGFbeta/BMPs, FGFs, IGFs etc.) Profiling of gene expression and genetic variation - Focus on high throughput approaches (e.g., DeepSeq, ChIP-Seq, Affymetrix microarrays, proteomics) that define gene regulatory circuitry, molecular pathways and protein/protein networks. Genetics - Focus on development in model organisms (e.g., mouse, frog, fruit fly, worm), human genetic variation, population genetics, as well as agricultural and veterinary genetics. Molecular Pathology & Regenerative Medicine - Focus on the deregulation of molecular processes in human diseases and mechanisms supporting regeneration of tissues through pluripotent or multipotent stem cells.