福建农业学报2024，Vol.39Issue(10)：1162-1170,9.DOI:10.19303/j.issn.1008-0384.2024.10.007
畲药十二时辰基源植物重瓣铁线莲的全长转录组分析
Full-length Transcriptome of She Herbal Medicine Plant Clematis florida
摘要
Abstract
[Objective]Transcription of herbal plant Clematis florida Thunb.var.plena D.Don was used to identify the key genes involved in the metabolic pathways of the active compounds in the famed"Shiershichen"of She medicine.[Method]PacBio single-molecule real-time(SMRT)was employed to sequence the full-length transcriptome of the roots of the herbal plant that contains the active compounds of the She medicine.Functional annotation,gene structure,and mining of the terpenoid biosynthetic pathway were conducted using bioinformatics tools to secure the transcript data.[Result]From the 62.21 G polymerase read bases generated,20540 non-redundant high-quality transcript sequences were identified after data treatment.At least one of the 7 major databases including NR,NT,Pfam,COG/KOG,SwissProt,GO,and KEGG applied annotated the gene functions of 19909 transcripts,and 8888 were in NR,NT,COG/KOG,KEGG,and GO.The GO annotation showed 14911 transcripts enriched in 53 terms that included biological processes,cellular components,and molecular functions.The KEGG database annotated 19701 transcripts and classified them into 6 major pathways and 44 sub-pathways with the largest number of transcripts enriched in metabolic pathways.The COG/KOG annotation identified 13204 transcripts with the general function prediction being the most predominant.There were 978 transcription factors,224 LncRNAs,and 7167 SSRs predicted,and 48 transcripts with 16 key candidate genes involved in the terpenoid backbone biosynthesis identified.[Conclusion]The full-length transcriptome sequencing on the roots of C.florida was successfully obtained with the comprehensive gene function information.It provided a basis for further studies on the regulatory network,biological characteristics,related metabolic pathways,signaling pathways,and molecular mechanisms associated with the well-known She herbal medicine.关键词
重瓣铁线莲/全长转录组/转录因子/长非编码RNAKey words
Clematis florida/full-length transcriptome/transcription/LncRNA分类
农业科技引用本文复制引用
何舒澜,柯兰兰,陈观水..畲药十二时辰基源植物重瓣铁线莲的全长转录组分析[J].福建农业学报,2024,39(10):1162-1170,9.基金项目
福建省职业院校教师教学创新团队立项建设项目(STD202401) （STD202401）
福建省大学生创新创业项目(S202110389044) （S202110389044）
福建卫生职业技术学院教学创新团队专项(JG2021103) （JG2021103）
