摘要
目的:获取广西莪术的全长转录组信息,了解其转录组的整体水平,挖掘姜黄素类生物合成通路基因。方法:利用Pacbio Sequel测序平台对广西莪术根、茎、叶、花4个部位的混合样品进行全长转录组测序,结合生物信息学等方法进行功能注释、代谢通路分析、简单序列重复(SSR)分析。结果:共获得原始数据14.47 Gb,经纠错、过滤、去冗余得到高质量一致性序列151218条。对所有转录本在非冗余蛋白(NR)、核苷酸序列(NT)、基因本体(GO)、真核生物相邻类的聚簇(KOG)、蛋白家族(Pfam)、京都基因与基因组百科全书(KEGG)和SwissProt七大功能数据库进行注释及分类,结果有128414个基因被注释,占比84.92%。共有325个基因参与姜黄素的生物合成,编码4-香豆酸-辅酶A连接酶、苯丙氨酸解氨酶、姜黄素合成酶、二酮-辅酶A合成酶、肉桂酸-4-羟化酶和咖啡酰辅酶A-O-甲基转移酶6个关键酶。MISA分析共发现32459个SSR位点,以单核苷酸重复数量最多,占全部重复类型的38.63%;1~3个核苷酸重复序列占主导位置,占总SSR位点的93.58%。结论:在高通量全长转录组水平对广西莪术进行研究,对姜黄素合成相关基因进行了挖掘,为后续阐明广西莪术姜黄素生物合成分子机制提供依据,为进一步研究广西莪术的分子标记和优良基因挖掘提供数据基础。
Objective:To obtain the full-length transcriptome information of Curcuma kwangsiensis S.G.Lee et C.F.Liang and mine the genes involved in curcumin biosynthesis.Methods:The mixed samples of the roots,stems,leaves and flowers of C.kwangsiensis were used for sequencing on the Pacbio Sequel platform.The bioinformatics tools were used for the functional annotation,metabolic pathway enrichment,and simple sequence repeat(SSR)analysis.Results:A total of 14.47 Gb of raw reads was obtained,and 151218 high-quality consistent sequences were finally obtained after error correction,filtering,and redundancy removal.All the transcripts were compared with the data in the Non-redundant protein(NR)database,Nucleotide(NT)database,Gene Ontology(GO),EuKaryotic Orthologous Group(KOG),Protien Family(Pfam),Kyoto Encyclopedia of Genes and Genomes(KEGG),and SwissProt,and a total of 128414 genes were annotated,accounting for 84.92%.A total of 325 genes were identified to be involved in curcumin biosynthesis,encoding 6 key enzymes,including phenylalanine ammonialyase,4-coumarate-CoA ligase,cinnamate-4-hydroxylase,caffeoyl-CoA-Omethyltransferase,diketide-CoA synthase,and curcumin synthase.The MIcro SAtellite identification tool(MISA)identified 32459 SSRs,among which the SSRs with 1 and 1-3 nucleotides accounted for 38.63%and 93.58%,respectively.Conclusion:The full-length transcriptome of C.kwangsiensis was studied for the first time,and the genes involved in curcumin synthesis were identified.The findings provide a scientific basis for deciphering the molecular mechanism of curcumin synthesis and further mining the molecular markers and elite genes of C.kwangsiensis.
作者
胡营
彭玉德
雷明
唐美琼
梁莹
韦筱媚
缪剑华
HU Ying;PENG Yu-de;LEI Ming;TANG Mei-qiong;LIANG Ying;WEI Xiao-mei;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)
出处
《中国现代中药》
CAS
2023年第7期1417-1427,共11页
Modern Chinese Medicine
基金
广西创新驱动发展专项(桂科AA18242040)
广西中医药管理局自筹经费科研课题(GXZYA20220006)
广西科技创新联项目(桂科202211)。
关键词
广西莪术
全长转录组
功能注释
简单序列重复
Curcuma kwangsiensis S.G.Lee et C.F.Liang
full-length transcriptome
functional annotation
simple sequence repeat
