摘要
目的:获得岗梅全长转录组数据库,为深入挖掘岗梅功能基因奠定基础。方法:采用基于PacBio Sequel平台的单分子实时测序技术获取岗梅的根、茎、叶样品的转录组数据,并利用非冗余蛋白(NR)、核苷酸序列(NT)、SwissProt蛋白序列数据库、京都基因与基因组百科全书(KEGG)、真核生物相邻类的聚簇(KOG)、蛋白家族(Pfam)、基因本体(GO)进行注释,分析并鉴定编码三萜皂苷生物合成的关键酶的转录本。结果:全长转录组共获得89629个转录本,其中81313个在公共数据库进行了注释。KEEG代谢通路富集分析表明,623个转录本参与岗梅中三萜皂苷合成相关的3条代谢通路,其中263个转录本编码了三萜皂苷生物合成途径的21个关键酶。此外,还预测了2471个转录因子、40421个简单重复序列位点、22119个长链非编码RNA(lncRNA)和29131个mRNA。结论:丰富了岗梅的转录组数据,并为鉴定参与三萜皂苷和其他次生代谢物生物合成的候选基因提供参考,促进其分子生物学和基因组学的研究。
Objective:To obtain the full-length transcriptome database of Ilex asprella(Hook.et Arn.)Champ.ex Benth.,laying the foundation for further exploration of functional genes in I.asprella.Methods:Single-molecule real-time sequencing based on the PacBio Sequel platform was applied to obtain the transcriptome data of mixed samples from the root,stem,and leaf of I.asprella.Annotations,analysis,and identification of key enzymes transcripts of triterpenoid saponin biosynthesis were made according to Non-Redundant Protein Sequence Database(NR),Nucleotide Sequence Database(NT),Swiss-Prot protein sequence Database,Kyoto Encyclopedia of Genes and Genomes(KEEG),euKaryotic Orthologous Groups(KOG),Protein Family(Pfam),and Gene Ontology(GO).Results:A total of 89629 transcripts were obtained from the fulllength transcriptome of I.asprella,of which 81313 were annotated in public databases.KEEG metabolic pathways enrichment analysis showed that 623 transcripts were involved in three metabolic pathways related to triterpenoid saponin biosynthesis in I.asprella,of which 263 transcripts encoded 21 key enzymes in the triterpenoid saponin biosynthesis pathway.Additionally,2471 transcription factors,40421 simple sequence repeat(SSR)sites,22119 lncRNAs,and 29131 mRNAs were predicted.Conclusion:Our results enrich the transcriptome data for I.asprella,provide a reference for the identification of candidate genes involved in the biosynthesis of triterpenoid saponins and other secondary metabolites,and promote relative research on molecular biology and genomics.
作者
韦筱媚
廖振锋
胡营
唐美琼
梁莹
韦坤华
缪剑华
WEI Xiao-mei;LIAO Zhen-feng;HU Ying;TANG Mei-qiong;LIANG Ying;WEI Kun-hua;MIAO Jian-hua(Guangxi Key Laboratory of Medicinal Resources Protection and Genetic Improvement/Guangxi Engineering Research Center of TCM Resource Intelligent Creation,Guangxi Botanical Garden of Medicinal Plants,Nanning 530023,China;School of Traditional Chinese Pharmacy,China Pharmaceutical University,Nanjing 211198,China)
出处
《中国现代中药》
CAS
2023年第7期1515-1528,共14页
Modern Chinese Medicine
基金
广西创新驱动发展专项(桂科AA18242040)
广西科技计划项目(桂科AD22080012)
科技基础资源调查专项(2018FY100700)
对发展中国家科技援助项目(KY201904001)
广西农业科技创新联盟项目(桂农科盟202211)
国家中医药管理局中医药创新团队及人才支持计划项目(ZYYCXTD-D-202005)。
关键词
岗梅
全长转录组
测序分析
功能注释
三萜皂苷生物合成
Ilex asprella(Hook.et Arn.)Champ.ex Benth.
full-length transcriptome
sequencing analysis
functional annotation
triterpenoid saponin biosynthesis
