De novo assembly, gene annotation, and marker development of mulberry (Morus atropurpurea) transcriptome

文献类型： 外文期刊

第一作者： Dai, Fanwei

作者： Dai, Fanwei;Tang, Cuiming;Wang, Zhenjiang;Luo, Guoqing;He, Li;Yao, Liuhui

作者机构：

关键词： Mulberry;Transcriptome;Paired-end sequencing;De novo assembly;SSR

期刊名称：TREE GENETICS & GENOMES （ 影响因子：2.297； 五年影响因子：2.547 ）

ISSN： 1614-2942

年卷期： 2015 年 11 卷 2 期

页码：

收录情况： SCI

摘要： Mulberry (Morus atropurpurea) is an economically important tree with a long history of extensive cultivation in Asia because it is the exclusive food source for the silkworm (Bombyx mori). Recently, mulberry has gained additional commercial value as a source of medicinal compounds, as animal fodder, and for landscaping. In the present work, the mulberry transcriptome was sequenced using the Illumina paired-end sequencing technology. A total of 105 million 90-bp paired-end reads were generated, and 60,069 unigenes were assembled with an N50 of 1219 bp. Based on a sequence similarity search with known proteins, 40,121 genes were identified. Among these genes, 31,548 were annotated with 55 gene ontology functional categories, 7790 had a Cluster of Orthologous Groups classification, and 23,188 mapped to 128 biological pathways in the Kyoto Encyclopedia of Genes and Genomes pathway database. In addition, 10,268 microsatellites were developed and characterized as potential molecular markers. These data will accelerate the understanding of mulberry growth and development mechanisms and facilitate gene discovery and functional genomic studies in mulberry.

分类号：

  • 相关文献

[1]DE NOVO TRANSCRIPTOME ANALYSIS OF MULBERRY (MORUS L.) UNDER DROUGHT STRESS USING RNA-SEQ TECHNOLOGY. Wang, Heng,Tong, Wei,Feng, Li,Jiao, Qian,Long, Li,Fang, Rongjun,Zhao, Weiguo,Long, Li,Zhao, Weiguo,Fang, Rongjun,Zhao, Weiguo.

[2]High-throughput development of simple sequence repeat markers for genetic diversity research in Crambe abyssinica. Qi, Weicong,Lin, Feng,Zhao, Han,Liu, Yuhe,Huang, Bangquan,Cheng, Jihua,Zhang, Wei. 2016

[3]De novo Transcriptome Assembly of Chinese Kale and Global Expression Analysis of Genes Involved in Glucosinolate Metabolism in Multiple Tissue. Wu, Shuanghua,Lei, Jianjun,Chen, Guoju,Cao, Bihao,Chen, Changming,Chen, Hancai. 2017

[4]De Novo Transcriptome Sequencing of Oryza officinalis Wall ex Watt to Identify Disease-Resistance Genes. He, Bin,Gu, Yinghong,Cheng, Xiaojie,Wei, Changhe,Zhang, Yizheng,Tao, Xiang,Fu, Jian,Cheng, Zaiquan. 2015

[5]De novo assembly and characterization of bark transcriptome using Illumina sequencing and development of EST-SSR markers in rubber tree (Hevea brasiliensis Muell. Arg.). Li, Dejun,Deng, Zhi,Qin, Bi,Liu, Xianghong,Men, Zhonghua. 2012

[6]De novo assembly and characterization of skin transcriptome using RNAseq in sheep (Ovis aries). Yue, Y. J.,Yang, B. H.,Yue, Y. J.,Liu, J. B.,Yang, M.,Han, J. L.,Guo, T. T.,Guo, J.,Feng, R. L.,Yang, B. H.. 2015

[7]De novo transcriptomic analysis of cowpea (Vigna unguiculata L. Walp.) for genic SSR marker development. Chen, Honglin,Wang, Lixia,Liu, Xiaoyan,Hu, Liangliang,Wang, Suhua,Cheng, Xuzhen. 2017

[8]De novo sequencing and characterization of the Bradysia odoriphaga (Diptera: Sciaridae) larval transcriptome. Chen, Haoliang,Lin, Lulu,Xie, Minghui,Zhang, Guangling,Su, Weihua.

[9]Development and characterization of simple sequence repeat (SSR) markers based on a full-length cDNA library of Napier Grass (Pennisetum purpureum Schum). Wang, Jia,Hu, Zhongli,Diao, Ying,Chen, Zhitong,Huang, Yibing,Jin, Surong.

[10]RNA-Seq analysis and de novo transcriptome assembly of Hevea brasiliensis. Xia, Zhihui,Xu, Huimin,Zhai, Jinling,Luo, Hongli,He, Chaozu,Huang, Xi,Li, Dejun.

[11]Phenotypic and Transcriptomic Analyses of Autotetraploid and Diploid Mulberry (Morus alba L.). Dai, Fanwei,Wang, Zhenjiang,Luo, Guoqing,Tang, Cuiming. 2015

[12]A Comparative Transcriptome Analysis Leads to New Insights into the Molecular Events Governing Root Formation in Mulberry Softwood Cuttings. Du, Wei,Ban, Yueyuan,Nie, Hao,Tang, Zhuang,Du, Xiaolong,Cheng, Jialing,Du, Wei.

[13]Characterization of the global transcriptome for cotton (Gossypium hirsutum L.) anther and development of SSR marker. Xianwen Zhang ,Zhenwei Ye,TiankangWang,Hairong Xiong,Xiaoling Yuan,Zhigang Zhang,Youlu Yuan,Zhi Liu.

[14]Transcriptome analysis and development of simple sequence repeat (SSR) markers in Zingiber striolatum Diels. Deng, Kuanping,Deng, Renju,Chen, Enfa,Fan, Jianxin. 2018

[15]Development of gene-based simple sequence repeat markers for association analysis in Cocos nucifera. Xia, Wei,Xiao, Yong,Liu, Zheng,Luo, Yi,Fan, Haikuo,Yang, Yaodong,Zhao, Songlin,Mason, Annaliese S.,Fan, Haikuo,Peng, Ming. 2014

[16]Characterization of the bay scallop (Argopecten irradians concentricus Say) transcriptome and identification of growth-related genes. Fan, Sigang,Guo, Yihui,Liu, Baosuo,Fan, Sigang,Guo, Yihui,Liu, Baosuo,Yu, Dahui,Zhang, Dongling.

[17]Gene identification using RNA-seq in two sweetpotato genotypes and the use of mining to analyze carotenoid biosynthesis. Qin, Z.,Li, A.,Hou, F.,Wang, Q.,Dong, S.,Zhang, L..

[18]Transcriptome analysis of colored calla lily (Zantedeschia rehmannii Engl.) by Illumina sequencing: de novo assembly, annotation and EST-SSR marker development. Wei, Zunzheng,Zhang, Qixiang,Wei, Zunzheng,Zhang, Qixiang,Wei, Zunzheng,Xiong, Min,Wang, Xian,Zhou, Di,Sun, Zhenzhen,Cui, Binbin. 2016

[19]Heterologous expression and transcript analysis of gibberellin biosynthetic genes of grasses reveals novel functionality in the GA3ox family. Pearce, Stephen,Dubcovsky, Jorge,Huttly, Alison K.,Prosser, Ian M.,Li, Yi-Dan,Vaughan, Simon P.,Gallova, Barbora,Patil, Archana,Hedden, Peter,Phillips, Andrew L.,Li, Yi-Dan,Coghill, Jane A.,Dubcovsky, Jorge. 2015

[20]Comparative genome and transcriptome analyses reveal adaptations to opportunistic infections in woody plant degrading pathogens of Botryosphaeriaceae. Yan, Ji Ye,Chen, Zhen,Xing, Qi Kai,Zhang, Wei,Chethana, K. W. Thilini,Liu, Jian Hua,Liu, Mei,Zhou, Ying,Jayawardena, Ruvishika S.,Manawasinghe, Ishara S.,Huang, Jin Bao,Qiao, Guang Hang,Fu, Chun Yuan,Guo, Fei Fei,Dissanayake, Asha J.,Li, Xing Hong,Zhao, Wen Sheng,Zhang, Wei,Peng, You Liang,Chethana, K. W. Thilini,Jayawardena, Ruvishika S.,Manawasinghe, Ishara S.,Dissanayake, Asha J.,Hyde, Kevin D.,Xue, Min Feng,Xu, Jian Ping,Phillips, Alan J. L.,Wang, Yong. 2018

作者其他论文 更多>>

微信小程序