您好，欢迎访问四川省农业科学院 机构知识库！

De novo transcriptome assembly of Ipomoea nil using Illumina sequencing for gene discovery and SSR marker identification

文献类型： 外文期刊

作者： Wei, Changhe 1 ; Tao, Xiang 2 ; Li, Ming 3 ; He, Bin 1 ; Yan, Lang 1 ; Tan, Xuemei 1 ; Zhang, Yizheng 1 ;

作者机构： 1.Sichuan Univ, Coll Life Sci, Sichuan Key Lab Mol Biol & Biotechnol, Key Lab Bioresources & Ecoenvironm,Minist Educ, Chengdu 610064, Peoples R China

2.Chinese Acad Sci, Chengdu Inst Biol, Chengdu 610041, Peoples R China

3.Sichuan Acad Agr Sci, Inst Biotechnol & Nucl Technol, Chengdu 610061, Peoples R China

关键词： Ipomoea nil;Transcriptome;Flowering;Anthocyanins;Microsatellites

期刊名称：MOLECULAR GENETICS AND GENOMICS （ 影响因子：3.291； 五年影响因子：3.257 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： Ipomoea nil is widely used as an ornamental plant due to its abundance of flower color, but the limited transcriptome and genomic data hinder research on it. Using illumina platform, transcriptome profiling of I. nil was performed through high-throughput sequencing, which was proven to be a rapid and cost-effective means to characterize gene content. Our goal is to use the resulting information to facilitate the relevant research on flowering and flower color formation in I. nil. In total, 268 million unique illumina RNA-Seq reads were produced and used in the transcriptome assembly. These reads were assembled into 220,117 contigs, of which 137,307 contigs were annotated using the GO and KEGG database. Based on the result of functional annotations, a total of 89,781 contigs were assigned 455,335 GO term annotations. Meanwhile, 17,418 contigs were identified with pathway annotation and they were functionally assigned to 144 KEGG pathways. Our transcriptome revealed at least 55 contigs as probably flowering-related genes in I. nil, and we also identified 25 contigs that encode key enzymes in the phenylpropanoid biosynthesis pathway. Based on the analysis relating to gene expression profiles, in the phenylpropanoid biosynthesis pathway of I. nil, the repression of lignin biosynthesis might lead to the redirection of the metabolic flux into anthocyanin biosynthesis. This may be the most likely reason that I. nil has high anthocyanins content, especially in its flowers. Additionally, 15,537 simple sequence repeats (SSRs) were detected using the MISA software, and these SSRs will undoubtedly benefit future breeding work. Moreover, the information uncovered in this study will also serve as a valuable resource for understanding the flowering and flower color formation mechanisms in I. nil.

  • 相关文献

[1]QTL Mapping for Adult-Plant Resistance to Stripe Rust in a Common Wheat RIL Population Derived from Chuanmai 32/Chuanyu 12. Xia Xian-chun,He Zhong-hu,Wu Ling,Yang En-nian,Li Shi-zhao,Wu Ling,Zheng You-liang,He Zhong-hu,Zhang Zheng-yu,Zheng You-liang,Liu Yong-jian. 2012

[2]Genome-specific differential gene expressions in resynthesized Brassica allotetraploids from pair-wise crosses of three cultivated diploids revealed by RNA-seq. Pan, Qi,Tan, Chen,Ge, Xianhong,Li, Zaiyun,Cui, Cheng,Shao, Yujiao. 2015

[3]Comparative Transcriptomic Analysis Reveals a Series of Single Nucleotide Polymorphism between Redand White-fleshed Loquats (Eriobotrya japonica). Li, Jing,Chen, Dong,Xie, Hongjiang,Tu, Meiyan,Jia, Liu,Jiang, Guoliang,Sun, Shuxia,Li, Jing,Chen, Dong,Xie, Hongjiang,Tu, Meiyan,Jia, Liu,Jiang, Guoliang. 2017

[4]Comparative transcriptome and proteome profiling of two Citrus sinensis cultivars during fruit development and ripening. Liu, Jian-jun,Chen, Ke-ling,Li, Hong-wen,He, Jian,Guan, Bin,He, Li,Wang, Jian-hui,Liu, Jian-jun,Chen, Ke-ling,Li, Hong-wen,He, Jian,Guan, Bin,He, Li,Wang, Jian-hui,Liu, Jian-jun,Chen, Ke-ling,Li, Hong-wen,He, Jian,Guan, Bin,He, Li. 2017

[5]Transcriptome analysis of the spleen of the darkbarbel catfish Pelteobagrus vachellii in response to Aeromonas hydrophila infection. Wen, Zhengyong,Yuan, Dengyue,Shao, Ting,Wang, Jun,Li, Huatao,Gong, Quan. 2017

[6]Comparative Transcriptome Analysis to Reveal Genes Involved in Wheat Hybrid Necrosis. Cheng, Yan,Guo, Jiahui,Zheng, Xuelian,Deng, Kejun,Zhou, Jianping,Yang, Ennian,Liu, Cheng. 2014

[7]Development and characterisation of EST-SSR markers by transcriptome sequencing in taro (Colocasia esculenta (L.) Schoot). Zheng, Xingfei,Diao, Ying,Hu, Zhongli,Liu, Duchen,Liu, Huabo,Huang, Xinfang.

作者其他论文 更多>>
置顶
购物车
反馈

© 京ICP备09089781号-29 主办单位：四川省农业科学院

学术资源： 中国农业科学院 农业专业知识服务系统 农科联盟资源共建共享平台 中国农业科技文献与信息服务平台 中国农业期刊集成服务平台