基于RNA-seq的生孢噬纤维菌新转录本预测及生物信息学分析  

Prediction of novel transcripts and bioinformatics analysis based onRNA-seq of Sporocytophaga myxococcoides

作　　者：宋祥和 林旭 杨帆[1] 陈晓艺[1] 李宪臻[1] SONG Xianghe;LIN Xu;YANG Fan;CHEN Xiaoyi;LI Xianzhen(School of Biological Engineering,Dalian Polytechnic University,Dalian 116034,China)

机构地区：[1]大连工业大学生物工程学院,辽宁大连116034

出　　处：《大连工业大学学报》2024年第5期341-348,共8页Journal of Dalian Polytechnic University

基　　金：辽宁省自然科学基金项目(2020-MS-276).

摘　　要：利用RNA-seq技术,对不同碳源条件下培养的生孢噬纤维菌CX11进行新转录本预测,实时荧光定量PCR结果表明测序数据可信度较高。共发掘新转录本1298个,其中371个新转录本在不同碳源比较组合中差异表达(p<0.05),差异转录本数目与碳源的复杂度成正相关。共有19个新转录本在滤纸和葡萄糖比较组合中的差异倍数超过8倍,且在其他比较组合中差异倍数明显降低,推测这些新转录本与滤纸的前期降解密切相关。GO功能分析显示437个新转录本获得注释,有机物代谢过程、碳水化合物衍生物结合、氧化还原酶活性、水解酶活性等功能显著富集,原位酶活测定结果表明水解酶活性富集合理可信。KEGG通路分析表明,共有296个新转录本富集到氨基酸生物合成、次级代谢产物生物合成、碳代谢、氧化磷酸化、ABC转运蛋白、群体感应等30条代谢通路中。A new transcript prediction was performed on Sporocytophaga sp. CX11 cultured under different carbon source conditions using RNA-seq technology. Real time fluorescence quantitative PCR results showed that the sequencing data had high reliability. A total of 1 298 new transcripts were identified, among which 371 were differentially expressed in different combinations of carbon sources ( p <0.05). The amount of differential transcripts was positively correlated with the complexity of carbon source. There were 19 new transcripts with a fold change over 8 times in the comparison group of filter paper and glucose, while the fold change was significantly reduced in the other comparison group. It is speculated that these new transcripts are closely related to the early degradation of filter paper. GO functional analysis result showed that 437 new transcripts were annotated, with significant enrichment in organic metabolism processes, carbohydrate derivative binding, oxidoreductase activity, hydrolase activity, and other functions. In situ enzyme activity assays result showed that the enrichment of hydrolase activity was reasonable and reliable. KEGG pathway analysis result showed that a total of 296 new transcripts were enriched in 30 metabolic pathways, including amino acids biosynthesis, secondary metabolite biosynthesis, carbon metabolism, oxidative phosphorylation, ABC transporters and quorum sensing.

关 键 词：生孢噬纤维菌 转录组测序 新转录本 生物信息学 

分 类 号：Q816[生物学—生物工程]