[1]张俊娥,邓华锋,郑文强,等.基于转录组高通量测序分析白光对杜仲愈伤组织中绿原酸含量的影响[J].江西师范大学学报(自然科学版),2015,(06):570-574.
　ZHANG June,DENG Huafeng,ZHENG Wenqiang,et al.The Effects of White Light on Chlorogenic Acid Contents in Eucommia Ulmoides Calli Based on Transcriptome High-Throughput Sequencing[J].Journal of Jiangxi Normal University:Natural Science Edition,2015,(06):570-574.
点击复制

基于转录组高通量测序分析白光对杜仲愈伤组织中绿原酸含量的影响()
分享到：

《江西师范大学学报》（自然科学版）[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2015年06期
页码:
570-574
栏目:
出版日期:
2015-12-31

文章信息/Info

Title:
The Effects of White Light on Chlorogenic Acid Contents in Eucommia Ulmoides Calli Based on Transcriptome High-Throughput Sequencing
作者:
张俊娥;邓华锋;郑文强;江京;金聪;赵夫凯
1.江西师范大学生命科学学院,江西省亚热带植物资源保护与利用重点实验室,江西 南昌 330022) 2.江西师范大学计算机信息工程学院,江西 南昌 330022
Author(s):
ZHANG June; DENG Huafeng; ZHENG Wenqiang; JIANG Jing; JIN Cong; ZHAO Fukai
1.College of Life Science,Key Laboratory of Protection and Utilization of Subtropical Plant Resources of Jiangxi Province, Jiangxi Normal University,Nanchang Jiangxi 330022,China; 2.School of Computer and Information Engineering,Jiangxi Normal University,Nanchang Jiangxi 330022,China
关键词:
杜仲;  愈伤组织;  白光;  绿原酸;  转录组高通量测序
Keywords:
Eucommia ulmoides oliv.;  callus;  white light;  chlorogenic acid;  transcriptome high-throughput sequencing
分类号:
S 567
文献标志码:
A
摘要:
利用Illumina HiSeq 2500平台对光暗培养的杜仲愈伤组织进行了转录组高通量测序,利用BLAST软件进行差异表达基因的功能注释和富集分析,就白光(光强为12 000 lux,16 h 光照,8 h 黑暗)对杜仲愈伤组织中绿原酸含量的影响进行了研究.结果表明:通过Trinity软件合并组装后共获得62 030个Unigenes,通过BLASTX比对,共获得25 417(40.98%)个有注释信息的Unigenes.通过对KEGG通路进行深入分析表明,白光(光强为12 000 lux,16 h 光照,8 h 黑暗)培养杜仲愈伤组织18 d,与绿原酸合成相关的3种酶基因上调表达,它们分别为苯丙氨酸解氨酶(EC 4.3.1.24,phenylalanine ammonia-lyase,PAL)、肉桂酸-4-羟基化酶(EC 1.14.13.11,trans-cinnamate 4-monooxygenase,C4H)、奎宁酸羟基肉桂酰转移酶(EC 2.3.1.133,Shikimate o-hydroxyl-cinnamoyltransferase,HCT).由此推断,白光能促进杜仲愈伤组织中绿原酸的积累.研究结果为获取高产绿原酸资源和杜仲遗传分析提供有价值的资料.
Abstract:
In this study,Eucommia ulmoides calli for 18d under white light(light intensity was 12 000 lux,16 h light and 8 h darkness)were cultured and 24 h darkness culture was as control.Then transcriptome high-throughput sequencing for the Eucommia ulmoides calli were performed using the Illumina HiSeq 2500 sequencing platform.Functional annotation and enrichment analysis of differentially expressed genes were also carried out.Effect of white light on the content of chlorogenic acid of Eucommia ulmoides calli was studied.The results showed de novo assembly generated 62 030 unigenes.25 417(40.98%)annotated unigenes were obtained by selecting BLAST parameter(E-value ≤10)and HMMER parameter(E-value ≤10).Metabolic pathway analysis revealed that 3 unigenes were predicted to be responsible for the chlorogenic acid,the 3 unigenes were up-regulated and in the calli under light culture,which was meaning that the production capacity of chlorogenic acid increased.The three enzymes dominated chlorogenic acid production in Eucommia ulmoides calli.The three enzymes were phenylalanine ammonia-lyase(EC 4.3.1.24,PAL),trans-cinnamate 4-monooxygenase(EC 1.14.13.11,C4H)and Shikimate o-hydroxyl-cinnamoyltransferase(EC 2.3.1.133,HCT).The study showed that the white light could improve the production capacity of chlorogenic acid components of Eucommia ulmoides calli and represents a valuable resource for future genomic studies on Eucommia ulmoides.

参考文献/References:

[1] 张康健,马希汉.杜仲次生代谢物与人类健康 [M].咸阳:西北农林科技大学出版社,2009.
[2] Yao Xiaohong,Deng Jianyun,Huang Hongwen.Genetic diversity in Eucommia ulmoides(Eucommiaceae),an endangered traditional Chinese medicinal plant [J].Conservation Genetics,2012,13(6):1499-1507.
[3] Grabherr M G,Haas B J,Yassour M,et al.Full-length transcriptome assembly from RNA-Seq data without a reference genome [J].Nat Biotechnol,2011,29(7):644-652.
[4] Leng Ning,Dawson J A,Thomson J A,et al.EBSeq:an empirical Bayes hierarchical model for inference in RNA-seq experiments [J].Bioinformatics,2013,29(8):1035-1043.
[5] Altschul S F,Madden T L,Schäffer A A,et al.Gapped BLAST and PSI-BLAST:a new generation of protein database search programs [J].Nucleic Acids Res,1997,25(17):3389-3402.
[6] Deng Yangyang,Li Jianqi,Wu Songfeng,et al.Integrated nr database in protein annotation annotation system and its localization [J].Computer Engineering,2006,32(5):71-74.
[7] Apweiler R,Amos Bairoch A,Wu Cathy H,et al.UniProt:the universal protein knowledgebase [J].Nucleic Acids Res,2004,32(Database issue):D115-D119.
[8] Ashburner M,Ball C A,Blake J A,et al.Gene ontology:tool for the unification of biology [J].Nat Genet,2000,25(1):25-29.
[9] Tatusov R L,Galperin M Y,Natale D A,et al.The COG database:a tool for genome-scale analysis of protein functions and evolution [J].Nucleic Acids Res,2000,28(1):33-36.
[10] Koonin E V,Fedorova N D,Jackson J D,et al.A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes [J].Genome Biol,2004,5(2):R7.
[11] Kanehisa M,Goto S,Kawashima S,et al.The KEGG resource for deciphering the genome [J].Nucleic Acids Res,2004,32(Database issue):D277-D280.
[12] Finn R D,Bateman A,Clements J,et al.Pfam:the protein families database [J].Nucleic Acids Res,2014,42(Database issue):D222-D230.
[13] Eddy S R.Profile hidden Markov models [J].Bioinformatics,1998,14(9):755-763.
[14] Wang Wei,Wang Yejun,Zhang Qing,et al.Global characterization of Artemisia annua glandular trichome transcriptome using 454 pyrosequencing [J].BMC Genomics,2009,10(1):465.
[15] Sun Chao,Li Ying,Wu Qing,et al.De novo sequencing and analysis of the American ginseng root transcriptome using a GS FLX Titanium platform to discover putative genes involved in ginsenoside biosynthesis [J].BMC Genomics,2010,11(1):262.
[16] Li Ying,Luo Hongmei,Sun Chao,et al.EST analysis reveals putative genes involved in glycyrrhizin biosynthesis [J].BMC Genomics,2010,11(1):268.
[17] 李滢,孙超,罗红梅,等.基于高通量测序 454 GS FLX 的丹参转录组学研究 [J].药学学报,2010,45(4):524-529.
[18] Chen Shilin,Luo Hongmei,Li Ying,et al.454 EST analysis detects genes putatively involved in ginsenoside biosynthesis in Panax ginseng [J].Plant Cell Reports,2011,30(9):1593-1601.
[19] Hao Dacheng,Ma Pei,Mu Jun,et al.De novo characterization of the root transcriptome of a traditional Chinese medicinal plant Polygonum cuspidatum [J].Science China Life Sciences,2012,55(5):452-466.
[20] Huang Lulin,Yang Xiao,Sun Pei,et al.The first Illumina-based de novo transcriptome sequencing and analysis of safflower flowers [J].Plos One,2012,7(6):e38653.
[21] Yuan Yuan,Song Lipu,Li Minhui,et al.Genetic variation and metabolic pathway intricacy govern the active compound content and quality of the Chinese medicinal plant Lonicera japonica thumb [J].BMC Genomics,2012,13(1):195.
[22] 李铁柱,杜红岩,刘慧敏,等.杜仲果实和叶片转录组数据组装及基因功能注释 [J].中南林业科技大学学报,2012,32(11):122-130.
[23] 李铁柱,杜红岩,刘慧敏,等.杜仲幼果和成熟果实转录组数据组装及基因功能注释 [J].中南林业科技大学学报,2012,32(10):9-17.
[24] 李铁柱,杜红岩,朱高浦.杜仲绿原酸生物合成途径相关基因的差异表达 [J].经济林研究,2013,31(4):32-38.
[25] 万倩,钟政荣,刘志刚.粉尘螨 Der f14基因克隆与分子特征的分析 [J].江西师范大学学报:自然科学版,2015,39(2):166-170.

备注/Memo

备注/Memo:
基金项目:国家自然科学基金(31100396)和江西省亚热带植物资源保护和利用重点实验室开放基金(YRD201404)资助项目.
更新日期/Last Update: 1900-01-01