基于转录组测序鉴定自噬在小鼠精子发生过程中的动态变化
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摘要
目的基于NCBI数据库中的小鼠精子发生3个时期(精原细胞、粗线期精母细胞、圆形精子)的转录组测序(RNA-Seq)数据,系统地揭示自噬通路及自噬相关基因在精子发生过程中的动态变化规律。方法从GEO数据库中下载精子发生3个时期的RNA-Seq数据(GSE100964),对相邻阶段的差异表达基因分别进行代谢通路富集分析。从Autophagy Database里面取出783个自噬相关基因,对其中在精子发生3个时期的平均表达值大于1的636个自噬相关基因的表达量进行热图展示。结果发现精原细胞和粗线期精母细胞之间的差异表达基因可以显著富集到自噬通路和自噬相关的通路,而粗线期精母细胞和圆形精子之间的差异表达基因不能富集到自噬相关通路。此外,还发现636个自噬相关基因在精子发生过程中有3种主要表达模式。结论自噬在精子发生减数分裂起始前后的RNA水平发生了显著的变化,且自噬相关基因在精子发生过程中呈阶段特异表达。
Objective To reveal the dynamic expression patterns of autophagy-related genes during spermatogenesis according to the RNA sequencing data sets of 3 population cells related to mouse spermatogenesis. Methods RNA-Seq data during spermatogenesis were downloaded from the GEO database, KEGG(Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis of differentially expressed genes were conducted to detect significantly altered pathways between adjacent stages. Totally 783 autophagy-related genes were obtained from the Autophagy Database, and the expression levels of 636 autophagy-related genes(the average FKPM>1) in spermatogenesis were displayed by heatmap. Results Autophagy and autophagy related pathways were significantly enriched between spermatogonia and pachytene but not significantly enriched between pachytene and round spermatid. In addition, 636 autophagy-related genes have three major expression patterns during spermatogenesis. Conclusions Autophagy undergoes significant changes in initiation of meiosis at the RNA level and autophagy-related genes are specifically expressed during spermatogenesis.
Objective To reveal the dynamic expression patterns of autophagy-related genes during spermatogenesis according to the RNA sequencing data sets of 3 population cells related to mouse spermatogenesis. Methods RNA-Seq data during spermatogenesis were downloaded from the GEO database, KEGG(Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis of differentially expressed genes were conducted to detect significantly altered pathways between adjacent stages. Totally 783 autophagy-related genes were obtained from the Autophagy Database, and the expression levels of 636 autophagy-related genes(the average FKPM>1) in spermatogenesis were displayed by heatmap. Results Autophagy and autophagy related pathways were significantly enriched between spermatogonia and pachytene but not significantly enriched between pachytene and round spermatid. In addition, 636 autophagy-related genes have three major expression patterns during spermatogenesis. Conclusions Autophagy undergoes significant changes in initiation of meiosis at the RNA level and autophagy-related genes are specifically expressed during spermatogenesis.
引文
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[4] Wichman L,Somasundaram S,Breindel C,et al.Dynamic expression of long noncoding RNAs reveals their potential roles in spermatogenesis and fertility[J].Biol Reprod,2017,97:313-323.
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[6] Homma K,Suzuki K,Sugawara H.The Autophagy Database:an all-inclusive information resource on autophagy that provides nourishment for research[J].Nucleic Acids Res,2011,39(Database issue):D986-990.
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[9] Shang Y,Wang H,Jia P,et al.Autophagy regulates spermatid differentiation via degradation of PDLIM1[J].Autophagy,2016,12:1575-1592.