Analysis of global gene expression profiles to identify differentially expressed genes critical for embryo development in Brassica rapa

文献类型： 外文期刊

第一作者： Zhang, Yu

作者： Zhang, Yu;Peng, Lifang;Wu, Ya;Shen, Yanyue;Wang, Jianbo;Wu, Xiaoming

作者机构：

关键词： Brassica rapa L.;Embryo development;Transcriptome;Transcription factor;RNA-Seq

期刊名称：PLANT MOLECULAR BIOLOGY （ 影响因子：4.076； 五年影响因子：4.89 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： Embryo development represents a crucial developmental period in the life cycle of flowering plants. To gain insights into the genetic programs that control embryo development in Brassica rapa L., RNA sequencing technology was used to perform transcriptome profiling analysis of B. rapa developing embryos. The results generated 42,906,229 sequence reads aligned with 32,941 genes. In total, 27,760, 28,871, 28,384, and 25,653 genes were identified from embryos at globular, heart, early cotyledon, and mature developmental stages, respectively, and analysis between stages revealed a subset of stage-specific genes. We next investigated 9,884 differentially expressed genes with more than fivefold changes in expression and false discovery rate ≤0.001 from three adjacent-stage comparisons; 1,514, 3,831, and 6,633 genes were detected between globular and heart stage embryo libraries, heart stage and early cotyledon stage, and early cotyledon and mature stage, respectively. Large numbers of genes related to cellular process, metabolism process, response to stimulus, and biological process were expressed during the early and middle stages of embryo development. Fatty acid biosynthesis, biosynthesis of secondary metabolites, and photosynthesis-related genes were expressed predominantly in embryos at the middle stage. Genes for lipid metabolism and storage proteins were highly expressed in the middle and late stages of embryo development. We also identified 911 transcription factor genes that show differential expression across embryo developmental stages. These results increase our understanding of the complex molecular and cellular events during embryo development in B. rapa and provide a foundation for future studies on other oilseed crops.

分类号： Q946

  • 相关文献

[1]De Novo Transcriptome Sequencing and the Hypothetical Cold Response Mode of Saussurea involucrata in Extreme Cold Environments. Li, Jin,Liu, Hailiang,Xia, Wenwen,Mu, Jianqiang,Feng, Yujie,Liu, Ruina,Wang, Aiying,Lin, Zhongping,Zhu, Jianbo,Chen, Xianfeng,Liu, Hailiang,Yan, Panyao,Chen, Xianfeng,Lin, Zhongping,Guo, Yong. 2017

[2]Global analysis of canola genes targeted by SHORT HYPOCOTYL UNDER BLUE 1 during endosperm and embryo development. Zhang, Huanan,Kuang, Rui,Cheng, Feng,Wang, Xiaowu,Xiao, Yuguo,Kang, Xiaojun,Ni, Min. 2017

[3]Exogenous auxin regulates multi-metabolic network and embryo development, controlling seed secondary dormancy and germination in Nicotiana tabacum L.. Li, Zhenhua,Wang, Jianhua,Li, Zhenhua,Zhang, Jie,Zhao, Jiehong,Ren, Xueliang,Liu, Yiling,Fu, Junjie,Wang, Guoying. 2016

[4]RNA-seq analysis of unintended effects in transgenic wheat overexpressing the transcription factor GmDREB1. Jiang, Qiyan,Niu, Fengjuan,Sun, Xianjun,Hu, Zheng,Li, Xinhai,Ma, Youzhi,Zhang, Hui. 2017

[5]Global transcriptome and gene regulation network for secondary metabolite biosynthesis of tea plant (Camellia sinensis). Li, Chun-Fang,Wang, Xin-Chao,Yao, Ming-Zhe,Chen, Liang,Yang, Ya-Jun,Zhu, Yan,Yu, Yao,Zhao, Qiong-Yi,Li, Xuan,Wang, Sheng-Jun,Luo, Da. 2015

[6]Comparative Transcriptome Analysis of Primary Roots of Brassica napus Seedlings with Extremely Different Primary Root Lengths Using RNA Sequencing. Dun, Xiaoling,Tao, Zhangsheng,Wang, Jie,Wang, Xinfa,Liu, Guihua,Wang, Hanzhong. 2016

[7]Effect of salt-stress on gene expression in citrus roots revealed by RNA-seq. Xie, Rangjin,Pan, Xiaoting,Zhang, Jing,Ma, Yanyan,He, Shaolan,Zheng, Yongqiang,Ma, Yingtao. 2018

[8]De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development. Hu, Ruibo,Yu, Changjiang,Wang, Xiaoyu,Pei, Shengqiang,He, Kang,He, Guo,Zhou, Gongke,Jia, Chunlin,Kong, Yingzhen. 2017

[9]Identification of candidate thermotolerance genes during early seedling stage in upland cotton (Gossypium hirsutum L.) revealed by comparative transcriptome analysis. Peng, Zhen,Cao, Moju,Xu, Jie,Lu, Yanli,Peng, Zhen,He, Shoupu,Gong, Wenfang,Sun, Junling,Pan, Zhaoe,Du, Xiongming,Sun, Gaofei.

[10]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.

[11]Light-induced Variation in Phenolic Compounds in Cabernet Sauvignon Grapes (Vitis vinifera L.) Involves Extensive Transcriptome Reprogramming of Biosynthetic Enzymes, Transcription Factors, and Phytohormonal Regulators. Cheng, Guo,Li, Qiang,Wang, Yu,Lan, Yi-Bin,Li, Si-Yu,Zhu, Yan-Rong,Song, Wen-Feng,Zhang, Xue,Cui, Xiao-Di,Wang, Jun,Wang, Yu,Lan, Yi-Bin,Li, Si-Yu,Wang, Jun,He, Yan-Nan,Chen, Wu,Sun, Run-Ze,Sun, Run-Ze,Cheng, Guo,Li, Qiang. 2017

[12]Transcriptomic Analysis of Seed Coats in Yellow-Seeded Brassica napus Reveals Novel Genes That Influence Proanthocyanidin Biosynthesis. Hong, Meiyan,Hu, Kaining,Tian, Tiantian,Li, Xia,Chen, Li,Zhang, Yan,Yi, Bin,Wen, Jing,Ma, Chaozhi,Shen, Jinxiong,Fu, Tingdong,Tu, Jinxing,Li, Xia,Chen, Li,Zhang, Yan. 2017

[13]Identification of the Hevea brasiliensis AP2/ERF superfamily by RNA sequencing. Duan, Cuifang,Argout, Xavier,Gebelin, Virginie,Summo, Marilyne,Dufayard, Jean-Francois,Leclercq, Julie,Piyatrakul, Piyanuch,Pirrello, Julien,Rio, Maryannick,Montoro, Pascal,Duan, Cuifang,Kuswanhadi,Piyatrakul, Piyanuch,Champion, Antony. 2013

[14]Identification of Candidate Anthocyanin-Related Genes by Transcriptomic Analysis of `Furongli' Plum (Prunus salicina Lindl.) during Fruit Ripening Using RNA-Seq. Fang, Zhi-Zhen,Zhou, Dan-Rong,Ye, Xin-Fu,Jiang, Cui-Cui,Pan, Shao-Lin. 2016

[15]De novo assembly of pen shell (Atrina pectinata) transcriptome and screening of its genic microsatellites. Sun, Xiujun,Li, Dongming,Liu, Zhihong,Zhou, Liqing,Wu, Biao,Yang, Aiguo,Sun, Xiujun,Li, Dongming,Liu, Zhihong,Zhou, Liqing,Wu, Biao,Yang, Aiguo. 2017

[16]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

[17]Transcriptome sequencing and analysis of major genes involved in calcium signaling pathways in pear plants (Pyrus calleryana Decne.). Lin, Jing. 2015

[18]De Novo Assembly and Characterization of Pericarp Transcriptome and Identification of Candidate Genes Mediating Fruit Cracking in Litchi chinensis Sonn.. Li, Wei-Cai,Zhang, Hong-Na,Shi, Sheng-You,Liu, Li-Qin,Shu, Bo,Liang, Qing-Zhi,Xie, Jiang-Hui,Wei, Yong-Zan,Wu, Jian-Yang. 2014

[19]Comprehensive analysis of RNA-seq data reveals the complexity of the transcriptome in Brassica rapa. Tong, Chaobo,Yu, Jingyin,Huang, Junyan,Dong, Caihua,Hua, Wei,Liu, Shengyi,Wang, Xiaowu,Wu, Jian,Li, Wanshun. 2013

[20]Transcriptome analysis of Cucumis sativus infected by Cucurbit chlorotic yellows virus. Sun, Xinyan,Wang, Zhenyue,Li, Honglian,Han, Weili,Shi, Yan,Gu, Qinsheng. 2017

作者其他论文 更多>>

微信小程序