Genome-wide identification, characterization, and evolutionary analysis of flowering genes in radish (Raphanus sativus L.)

文献类型： 外文期刊

第一作者： Wang, Jinglei

作者： Wang, Jinglei;Qiu, Yang;Cheng, Feng;Chen, Xiaohua;Zhang, Xiaohui;Wang, Haiping;Song, Jiangping;Duan, Mengmeng;Yang, Haohui;Li, Xixiang

作者机构：

关键词： Raphanus sativus L.;Genome-wide;Flowering genes;Regulatory pathway networks;Evolution

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2017 年 18 卷

页码：

收录情况： SCI

摘要： Background: Radish (Raphanus sativus L.) belongs to the family Brassicaceae, and is an economically important root crop grown worldwide. Flowering is necessary for plant propagation, but it is also an important agronomic trait influencing R. sativus fleshy taproot yield and quality in the case of an imbalance between vegetative and reproductive growth. There is currently a lack of detailed information regarding the pathways regulating the flowering genes or their evolution in R. sativus. The release of the R. sativus genome sequence provides an opportunity to identify and characterize the flowering genes using a comparative genomics approach. Results: We identified 254 R. sativus flowering genes based on sequence similarities and analyses of syntenic regions. The genes were unevenly distributed on the various chromosomes. Furthermore, we discovered the existence of R. sativus core function genes in the flowering regulatory network, which revealed that basic flowering pathways are relatively conserved between Arabidopsis thaliana and R. sativus. Additional comparisons with Brassica oleracea and Brassica rapa indicated that the retained flowering genes differed among species after genome triplication events. The R. sativus flowering genes were preferentially retained, especially those associated with gibberellin signaling and metabolism. Moreover, analyses of selection pressures suggested that the genes in vernalization and autonomous pathways were more variable than the genes in other R. sativus flowering pathways. Conclusions: Our results revealed that the core flowering genes are conserved between R. sativus and A. thaliana to a certain extent. Moreover, the copy number variation and functional differentiation of the homologous genes in R. sativus increased the complexity of the flowering regulatory networks after genome polyploidization. Our study provides an integrated framework for the R. sativus flowering pathways and insights into the evolutionary relationships between R. sativus flowering genes and the genes from A. thaliana and close relatives.

分类号：

  • 相关文献

[1]Genetic basis of the very short life cycle of 'Apogee' wheat. Li, Genqiao,Powers, Carol,Huang, Tianrong,Miao, Fang,Yan, Liuling,Boontung, Rungravee,Belamkar, Vikas,Baenziger, P. Stephen,Li, Genqiao,Huang, Tianrong,Miao, Fang. 2017

[2]Genome-wide characterization of differentially expressed genes provides insights into regulatory network of heat stress response in radish (Raphanus sativus L.). Wang, Ronghua,Xu, Liang,Wang, Yan,Liu, Liwang,Wang, Ronghua,Mei, Yi,Guo, Jun,Zhu, Xianwen. 2018

[3]Identification of anthocyanin biosynthesis related microRNAs in a distinctive Chinese radish (Raphanus sativus L.) by high-throughput sequencing. Sun, Yuyan,Qiu, Yang,Duan, Mengmeng,Wang, Jinglei,Zhang, Xiaohui,Wang, Haiping,Song, Jiangping,Li, Xixiang,Sun, Yuyan.

[4]Identification and Molecular Mapping of the RsDmR Locus Conferring Resistance to Downy Mildew at Seedling Stage in Radish (Raphanus sativus L.). Xu Liang,Jiang Qiu-wei,Wang Yan,Gong Yi-qin,Wang Xian-li,Limera Cecilia,Liu Li-wang,Wu Jian. 2014

[5]Transcriptome-based gene expression profiling identifies differentially expressed genes critical for salt stress response in radish (Raphanus sativus L.). Sun, Xiaochuan,Xu, Liang,Wang, Yan,Luo, Xiaobo,Kinuthia, Karanja Benard,Nie, Shanshan,Feng, Haiyang,Li, Chao,Liu, Liwang,Sun, Xiaochuan,Xu, Liang,Wang, Yan,Nie, Shanshan,Liu, Liwang,Zhu, Xianwen.

[6]Genome-wide analysis of the family 1 glycosyltransferases in cotton. Juan Huang,Chaoyou Pang,Shuli Fan,Meizhen Song,Jiwen Yu,Hengling Wei,Qifeng Ma,Libei Li,Chi Zhang,Shuxun Yu. 2015

[7]Development of chromosome-specific markers with high polymorphism for allotetraploid cotton based on genome-wide characterization of simple sequence repeats in diploid cottons (Gossypium arboreum L. and Gossypium raimondii Ulbrich). Cairui Lu,Changsong Zou,Youping Zhang,Daoqian Yu,Hailiang Cheng,Pengfei Jiang,Wencui Yang,Qiaolian Wang,Xiaoxu Feng,Mtawa Andrew Prosper,Xiaoping Guo,Guoli Song. 2015

[8]Genome-wide identification and characterization of GRAS transcription factors in sacred lotus (Nelumbo nucifera). Wang, Yu,Shi, Shenglu,Zhou, Ying,Zhou, Yu,Tang, Xiaoqing,Yang, Jie. 2016

[9]Genome-wide gene phylogeny of CIPK family in cassava and expression analysis of partial drought-induced genes. Hu, Wei,Xia, Zhiqiang,Yan, Yan,Ding, Zehong,Tie, Weiwei,Zou, Meiling,Wei, Yunxie,Lu, Cheng,Hou, Xiaowan,Wang, Wenquan,Peng, Ming,Wang, Lianzhe. 2015

[10]Identification and functional characterization of bidirectional gene pairs and their intergenic regions in maize. Liu, Xiaoqing,Zhou, Xiaojin,Li, Ye,Tian, Jian,Zhang, Qiuxue,Li, Suzhen,Wang, Lei,Zhao, Jun,Chen, Rumei,Fan, Yunliu,Liu, Xiaoqing,Zhou, Xiaojin,Tian, Jian,Zhang, Qiuxue,Wang, Lei,Zhao, Jun,Chen, Rumei,Fan, Yunliu,Li, Ye,Li, Suzhen. 2014

[11]Genome-Wide Identification, Phylogeny, and Expression Analyses of the 14-3-3 Family Reveal Their Involvement in the Development, Ripening, and Abiotic Stress Response in Banana. Li, Meiying,Xu, Biyu,Yang, Xiaoliang,Xia, Qiyu,He, Pingping,Xiao, Susheng,Guo, Anping,Hu, Wei,Jin, Zhiqiang,Ren, Licheng,Jin, Zhiqiang. 2016

[12]Gene loss in plants: Evidence from genome-wide phylogenetic analysis of thiamine pyrophosphate-dependent enzymes. Tian, Xin-Min,Wang, Peng,Hu, Wen-Bin,Li, Qiong,Gao, Da-Hai. 2015

[13]Genome-wide discovery of novel and conserved microRNAs in white shrimp (Litopenaeus vannamei). Xi, Qian-Yun,Wang, Yuan-Mei,Cheng, Xiao,Qi, Qi-En,Shu, Gang,Wang, Song-Bo,Wang, Li-Na,Gao, Ping,Zhu, Xiao-Tong,Jiang, Qing-Yan,Zhang, Yong-Liang,Liu, Li,Xiong, Yuan-Yan.

[14]Genome-wide identification and resistance expression analysis of the NBS gene family in Triticum urartu. Liu, Jing,Qiao, Linyi,Qiao, Linyi,Zhang, Xiaojun,Li, Xin,Zhan, Haixian,Guo, Huijuan,Zheng, Jun,Chang, Zhijian.

[15]Sequence variation of Bemisia tabaci Chemosensory Protein 2 in cryptic species B and Q: New DNA markers for whitefly recognition. Liu, Guo-xia,Ma, Hong-mei,Xie, Hong-yan,Xuan, Ning,Picimbon, Jean-Francois,Picimbon, Jean-Francois,Picimbon, Jean-Francois. 2016

[16]Identification and expression dynamics of three WUSCHEL related homeobox 13 (WOX13) genes in peanut. Wang, Pengfei,Li, Changsheng,Li, Cui,Zhao, Chuanzhi,Xia, Han,Zhao, Shuzhen,Hou, Lei,Gao, Chao,Wan, Shubo,Wang, Xingjun,Wang, Pengfei,Li, Changsheng,Li, Cui,Zhao, Chuanzhi,Xia, Han,Zhao, Shuzhen,Hou, Lei,Gao, Chao,Wan, Shubo,Wang, Xingjun.

[17]Evolution of MHC class I genes in two ancient fish, paddlefish (Polyodon spathula) and Chinese sturgeon (Acipenser sinensis). Wang, Dengqiang,Zhong, Lei,Gan, Xiaoni,He, Shunping,Wang, Dengqiang,Wei, Qiwei,Wang, Dengqiang. 2010

[18]More than just a coating: Ecological importance, taxonomic occurrence and phylogenetic relationships of seed coat mucilage. Yang, Xuejun,Huang, Zhenying,Yang, Xuejun,Baskin, Jerry M.,Baskin, Carol C.,Baskin, Carol C.. 2012

[19]Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family. Zheng, Fengya,Wong, Fuk-Ling,Zhao, Shancen,Lam, Hon-Ming,Zheng, Fengya,Wong, Fuk-Ling,Zhao, Shancen,Lam, Hon-Ming,Wu, Haiyang,Li, Shiming,He, Weiming,Zhao, Shancen,Wu, Haiyang,Wu, Haiyang,Zhang, Rongzhi,Li, Genying. 2016

[20]Paleo-evolutionary plasticity of plant disease resistance genes. Zhang, Rongzhi,Murat, Florent,Pont, Caroline,Langin, Thierry,Salse, Jerome,Zhang, Rongzhi. 2014

作者其他论文 更多>>

微信小程序