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采用转录组测序技术分析酸枣仁(Ziziphi spinosae semen)不同发育时期基因表达差异,识别酸枣仁黄酮生物合成途径的相关基因,为进一步分析酸枣仁中黄酮类成分生物合成相关酶基因提供研究基础。以3个不同生长发育时期的酸枣仁样本为供试材料,采用Illumina Hiseq 4000进行转录组测序,并从头拼接,对转录本进行功能注释和差异性分析。经StringTie软件组装拼接得到74 472个转录本,其中有26.83%在NR、Swiss-Prot、Pfam、GO、KOG、KEGG数据库中得到注释;代谢通路分析结果发现,在酸枣仁转录组中与黄酮类合成途径相关的11条差异表达基因可能编码斯皮诺素合成途径的一些酶类。酸枣仁中黄酮类成分斯皮诺素相关转录本信息为阐明斯皮诺素在生长期的积累提供重要依据,为提高酸枣仁品质研究提供参考。
Abstract:The transcriptome sequencing technology was used to analyze the difference of gene expression in different developmental stages of Ziziphi spinosae semen, and the related genes of the biosynthesis pathway of flavonoids in Ziziphi spinosae semen were identified, which laid a foundation for further analysis of the enzymes related to biosynthesis of flavonoids. Three samples of Ziziphi spinosae semen at different growth and development stages were used as test materials. Illumina Hiseq 4000 was used for transcriptome sequencing, and the transcripts were functionally annotated and differentially analyzed. A total of 74 472 transcripts were obtained by StringTie software assembly, of which 26.83% were annotated in NR, Swiss-Prot, Pfam, GO, KOG, KEGG databases. Metabolic pathway analysis found that flavonoids in the transcriptome of Ziziphi spinosae semen the 11 differen tially expressed genes associated with the synthetic pathway may encode some of the enzymes of the spinosin synthesis pathway. The transcript information of flavonoids in Ziziphi spinosae semen provided an important basis for clarifying the accumulation of spinosin in the growth phase, and a reference for improving the quality of it.
Buchfink B.,Xie C.,and Huson D.H.,2015,Fast and sensitive protein alignment using DIAMOND,Nat.Methods,12(1):59-60.
Chen L.,Cui F.F.,Wang Y.F.,Cao Y.P.,Song Y.,and Qiao Y.G.,2019,Mining and analysis of WRKY transcription factors in transcriptome-based Lonicera japonica,Fenzi Zhiwu Yuzhong(Molecular Plant Breeding),17(6):1780-1787.(陈亮,崔芬芬,王勇飞,曹亚萍,宋芸,乔永刚,2019,基于转录组金银花WRKY转录因子的挖掘与分析,分子植物育种,17(6):1780-1787.)
Chinese Pharmacopoeia Commission,ed.,2015,Pharmacopoeia of the People's Republic of China,2015,Volume 1,China Medical Science Press,Beijing,China,pp.366-367.(国家药典委员会,主编,2015,中华人民共和国药典2015年版一部,中国医药科技出版社,中国,北京,pp.366-367.)
Finn R.D.,Clements J.,and Eddy S.R.,2011,HMMER web server:interactive sequence similarity searching,Nucleic Acids Res.,39(S2):29-37.
Heinsbroek R.,Van Brederodea J.,Van Nigtevecht G.,Maas J.,Kamsteeg J.,Besson E.,and Chopin J.,1980,The 2''-O-glucosylation of vitexin and isovitexin in petals of Silene alba is catalysed by two dfferent enzymes,Phytochemistry,19(9):1935-1937.
Knogge W.,and Weissenbock G.,1984,Purification,characterization,and kinetic mechanism of S-adenosyl-L-methionine:vitexin 2"-O-rhamnoside 7-O-methyltransferase of Avena sativa L,Eur.J.Biochem.,140(1):113-118.
Liu W.,Wang J.Y.,Li M.,Dong J.J.,He C.D.,Wang G.B.,Yu W.W.,and Wang Y.Q.,2018,Transcriptome sequencing analysis of gene expression of flavonoid biosynthesis in Ginkgo biloba,Zhongcaoyao(Chinese Traditional and Herbal Drugs),49(23):5633-5639.(刘伟,王俊燚,李萌,董金金,何崇单,汪贵斌,郁万文,王义强,2018,基于转录组测序的银杏类黄酮生物合成关键基因表达分析,中草药,49(23):5633-5639.)
Love M.I.,Huber W.,and Anders S.,2014,Moderated estimation of fold change and dispersion for RNA-seq data with DE-Seq2,Genome Biol.,15(12):550.
Pan Y.,Chen D.X.,Song X.H.,and Li L.Y.,2018,Transcriptome analysis reveals candidate genes involved in flavonols biosyhthesis in Sophora japonica,Zhongguo Zhongyao Zazhi(China Journal of Chinese Materia Medica),43(13):2682-2689.(潘媛,陈大霞,宋旭红,李隆云,2018,基于转录组测序挖掘国槐花蕾黄酮类物质生物合成相关基因,中国中药杂志,43(13):2682-2689.)
Pertea M.,Pertea G.M.,Antonescu C.M.,Chang T.,Mendell J.T.,and Salzberg S.L.,2015,StringTie enables improved reconstruction of a transcriptome from RNA-seq reads,Nat.Biotechnol.,33(3):290-295.
Robinson M.D.,McCarthy D.J.,and Smyth G.K.,2010,edgeR:a bioconductor package for differential expression analysis of digital gene expression data,Bioinformatics,26(1):139-140.
Wang L.K.,Feng Z.X.,Wang X.,Wang X.W.,and Zhang X.G.,2009,DEGseq:an R package for identifying differentially expressed genes from RNA-seq data,Bioinformatics,26(1):136-138.
Wen Z.S.,Yan Y.P.,Wang Q.,Li J.S.,Zheng Y.G.,and Ma D.L.,2018,Study on optimal germination conditions and microstructure of Ziziphus jujuba seeds by response surface method,Zhongzi(Seed),37(8):23-26,35.(温子帅,严玉平,王乾,李佳晌,郑玉光,马东来,2018,响应面法优选酸枣种子萌发条件及其显微结构研究,种子,37(8):23-26,35.)
Yan Y.,Zhang M.,Cui X.F.,Zhang F.S.,Gao X.X.,Guo X.D.,Du C.H.,and Qin X.M.,2019,Discussion on research ideas for process in vivo of chemical compositions from Ziziphi Spinosae Semen and its quality marker,Zhongcaoyao(Chinese Traditional and Herbal Drugs),50(2):299-309.(闫艳,张敏,崔小芳,张福生,高晓霞,郭旭东,杜晨晖,秦雪梅,2019,酸枣仁化学成分体内过程及其质量标志物研究思路探讨,中草药,50(2):299-309.)
Zhang G.,Li J.Y.,Li W.J.,Wang S.S.,Pang T.,and Gong M.,2017,Metabolism and regulation mechanisms of flavonoids in tobacco,Jiyinzuxue yu Yingyong Shengwuxue(Genomics and Applied Biology),36(4):1672-1681.(张刚,李军营,黎旺姐,王莎莎,逄涛,龚明,2017,烟草黄酮类化合物的代谢及其调控机制,基因组学与应用生物学,36(4):1672-1681.)
Zhang L.,Xu Z.L.,Wu C.F.,Yang J.Y.,Kano Y.,and Yuan D.,2012,Two new flavonoid glycosides from Semen Ziziphi Spinosae,J.Asian Nat.Prod.Rese.,14(2):121-128.
Zhang X.,Ding C.H.,and Li H.P.,2009,Research progress on the chemical compositions and pharmacological effects of Semen Ziziphi Spinosae,Shipin Gongye Keji(Science and Technology of Food Industry),30(3):348-350.(张雪,丁长河,李和平,2009,酸枣仁的化学成分和药理作用研究进展,食品工业科技,30(3):348-350.)
Zhang Z.B.,Hou L.,Pan Q.,Wang X.M.,Cui Q.H.,Tian J.Z.,and Ma L.Y.,2014,Advances in high-throughput transcriptome research of traditional Chinese medicines,Zhongguo Zhongyao Zazhi(China Journal of Chinese Materia Medica),39(9):1553-1558.(张召宝,侯林,潘晴,王绪敏,崔清华,田景振,马鲁豫,2014,中药高通量转录组研究进展,中国中药杂志,39(9):1553-1558.)
Zhao L.,Zhu Y.H.,Zhang L.,Ma L.G.,Feng W.S.,and Zheng X.K.,2017,Transcriptome analysis reveals candidate genes involved in esculentoside a biosynthesis in Phytolacca americana,Yaoxue Xuebao(Acta Pharmaceutica Sinica),52(9):1471-1480.(赵乐,朱畇昊,张莉,马利刚,冯卫生,郑晓珂,2017,基于转录组测序挖掘商陆皂苷甲生物合成相关基因,药学学报,52(9):1471-1480.)
基本信息:
DOI:10.13417/j.gab.040.001268
中图分类号:S665.1
引用信息:
[1]温子帅,孙会改,李新蕊,等.基于转录组分析酸枣仁斯皮诺素生物合成途径的相关基因[J].基因组学与应用生物学,2021,40(03):1268-1277.DOI:10.13417/j.gab.040.001268.
基金信息:
河北省重点研发计划项目(19276414D); 河北省属高校基本科研业务项目(YXZ2019018); 河北省高等学校科学技术研究项目(QN2018065); 河北省中医药管理局科研计划项目(2018105); 河北省二期现代农业产业技术体系创新团队项目(HBCT2018060205)共同资助
2019-12-11
2019-12-11
2019-12-11