软腐病菌侵染下菜心叶片的转录组分析

Transcriptome Analysis of Flowering Chinese Cabbage(Brassica campestris L.ssp.Chinensis(L.)var.utilis Tsen et Lee)Infected by Soft Rot Disease

为探讨软腐病菌侵染下菜心转录组功能基因信息,采用BGISEQ-500高通量测序技术对软腐病菌侵染下菜心叶片进行转录组测序,平均每个样获得47.27 M clean reads,Q20值均大于95%,共检测到表达的Unigene为36760个,其中已知的有35327个,预测新Unigene有1433个;共检测出19549个新转录本,其长度主要集中在300~2000 nt。功能注释结果显示,有32047个Unigene在Nr数据库获得注释,其中注释到芸薹属白菜上的Unigene最多;GO功能共注释到12588个Unigene;KEGG数据库注释到18583个Unigene,涉及到137个代谢通路。共获得21776个组间差异表达基因(differential expression genes,DEGs),其中对照与发病前期组间的DEGs有15007个,6137个上调表达,8870个下调表达;发病前期与发病中期组间DEGs有13118个,10278个上调表达,2840个下调表达;发病中期与发病后期组间DEGs有11293个,1790个上调表达,9503个下调表达。DEGs的Ven图分析显示5110个基因在每组间均存在差异,DEGs功能分析显示DEGs参与泛素蛋白降解途径、过氧化物酶体途径、光合碳固定途径、糖酵解途径等多种生命活动。本研究结果为深入开展菜心抗软腐病基因组学和分子生物学研究奠定基础。

To explore the functional gene information in flowering Chinese cabbage(Brassica campestris L.ssp.Chinensis(L.)var.utilis Tsen et Lee)inoculated by soft rot disease,the transcriptome of flowering Chinese cabbage was sequenced by BGISEQ-500 high-throughput sequencing technology.The results showed that average obtained 47.27 M clean reads and the Q20 base was more than 95%.A total of 36760 Unigene transcripts were detected,of which 35327 were known and 1433 were predicted.A total of 19549 new transcripts were detected,the length of which was mainly between 300 and 2000 nt.Functional annotation results showed that 32047 Unigene were annotated in NR database,among which Unigenes were annotated most on Brassica rapa ssp.Pekinensis.GO function was annotated with 12588 Unigene.Kegg database was annotated with 18583 Unigene,involving 137 metabolic pathways.A total of 21776 differential expression genes(DEGs)were obtained,including 15007 DEGs,6137 up-regulated genes and 8870 downregulated genes between the control and premorbid groups.There were 13118 DEGs,10278 up-regulated genes and 2840 down-regulated genes between pre-onset and mid-onset.There were 11293 DEGs,1790 up-regulated genes and 9503 down-regulated genes.Analysis of the DEGs Ven map showed that 5110 genes were different in each group.Functional analysis of DEGs showed that the differentially expressed genes were involved in various life activities,such as ubiquitin degradation pathway,peroxisome pathway,photosynthetic carbon fixation pathway,glycolytic process pathway and so on.The results of this study would lay a foundation for further studies on the genome and molecular biology of resistance to soft rot of flowering Chinese cabbage.