Latest Advances in Watermelon Genomics

文献类型: 外文期刊

第一作者: Guo, Shaogui

作者: Guo, Shaogui;Xu, Yong;Zhang, Haiying;Gong, Guoyi;Guo, Shaogui;Zheng, Yi;Fei, Zhangjun;Huang, Sanwen;Yi, Hongping;Wu, Mingzhu;Fei, Zhangjun;Zheng, Yi

作者机构:

关键词: whole genome sequencing;EST;fruit development;digital expression;SSR;SSH;genetic map

期刊名称:IV INTERNATIONAL SYMPOSIUM ON CUCURBITS

ISSN: 0567-7572

年卷期: 2010 年 871 卷

页码:

收录情况: SCI

摘要: Watermelon is an important vegetable crop throughout the world and its worldwide harvested area is 21.7% of that of all vegetables. The genetic diversity of cultivated watermelon is very narrow, which is a major limiting factor of its breeding. Therefore it is necessary to develop new resources that can be used to widen watermelon genetic basis. We have initiated the Watermelon Whole Genome Sequencing project and currently have generated Solexa sequences which represent more than 89.9X coverage of the genome of watermelon cv. '97103' and covered 95% of the whole genome and 98% of the genic region. Further genome sequencing of '97103' using the traditional Sanger technology, comparative genome sequencing of watermelon cv. '90-4304' (10X coverage Solexa sequences), genome annotation is currently underway. In addition, using Roche 454 GS-FLX massively parallel pyrosequencing technology, we have generated 715,059 ESTs with an average length of 250 bp from fruits of '97103' during different developmental stages. These sequences are being assembled and functionally annotated. SSR markers and pathway prediction have been analyzed preliminarily. A comprehensive digital expression map during watermelon fruit development is being created. Furthermore, we have constructed a SSH library from root tissues of watermelon cv. 'PI296341-FR' infected by Fusarium wilt race1 and randomly sequenced approximately 3,895 SSH clones. Sequence analysis indicated that 28.3% of the unique ESTs were related to defense response, signal transduction and interaction with the environment. GFP gene is used as the marker to detect the infection process of Fusarium wilt in root tissue. Three hundred twenty-four SSR and EST-SSR markers consist of the watermelon RIL SSR genetic map. The relationships between four Chromosomes and the genome are identified by FISH.

分类号:

  • 相关文献

[1]Identification of SSR markers using soybean (Glycine max) ESTs from globular stage embryos. Li, Ai Qin,Zhao, Chuan Zhi,Wang, Xing Jun,Liu, Zhan Ji,Song, Guo Qi,Yin, Juan,Li, Chang Sheng,Xia, Han,Bi, Yu Ping,Zhang, Li Feng. 2010

[2]IDENTIFICATION OF EXPRESSED RESISTANCE GENE ANALOGS (RGA) AND DEVELOPMENT OF RGA-SSR MARKERS IN TOBACCO. Yuan, Qinghua,Xie, Ruihong,Zhang, Zhenchen,Ma, Zhuwen,Li, Jiqin,Li, Shuling,Chen, Junbiao,Lu, Yonghua. 2015

[3]Homologous analysis of SSR-ESTs and transferability of wheat SSR-EST markers across barley, rice and maize. Tang, Jifeng,Gao, Lifeng,Cao, Yongsheng,Jia, Jizeng. 2006

[4]EST-SSR markers derived from and its Laminaria digitata transferable application in Saccharina japonica. Liu, Fuli,Wang, Feijiu,Liu, Fuli,Duan, Delin. 2012

[5]Construction of cDNA Library and Analysis of SSRs in ESTs of Litchi (Litchi chinensis Sonn.). Xiang, X.,Sun, Q. M.,Ou, L. X.,Zhao, J. S.,Chen, J. Z.,Cai, C. H.. 2012

[6]Comprehensive analysis of expressed sequence tags from cultivated and wild radish (Raphanus spp.). Shen, Di,Qiu, Yang,Li, Xixiang,Shen, Di,Sun, Honghe,Huang, Mingyun,Zheng, Yi,Fei, Zhangjun,Sun, Honghe,Fei, Zhangjun. 2013

[7]Development of a large number of SSR and InDel markers and construction of a high-density genetic map based on a RIL population of pepper (Capsicum annuum L.). Zhang, Xiao-fen,Wang, Qian,Zhang, Xiao-fen,Sun, Hong-he,Xu, Yong,Chen, Bin,Yu, Shuan-cang,Geng, San-sheng.

[8]Construction of a High-Density Simple Sequence Repeat Consensus Genetic Map for Pear (Pyrus spp.). Chen, Hui,Song, Yue,Li, Lei-Ting,Wu, Jun,Zhang, Shao-Ling,Khan, M. Awais,Korban, Schuyler S.,Li, Xiu-Gen,Korban, Schuyler S..

[9]Construction of a high-density genetic linkage map in pear (Pyrus communis x Pyrus pyrifolia nakai) using SSRs and SNPs developed by SLAF-seq. Wang, Long,Wu, Jun,Yin, Hao,Zhang, Shaoling,Wang, Long,Li, Xiugen,Wang, Lei,Xue, Huabai.

[10]Identification of the genes and pathways associated with pigment gland morphogenesis in cotton by transcriptome profiling of near-isogenic lines. Quan Sun,Shengwei Li,Min Chen,Yingfan Cai,Jianchuan Mo,Xiaohong He,Huaizhong Jiang,JinggaoLiu,Kairong Lei.

[11]Transcription profiles of boron-deficiency-responsive genes in citrus rootstock root by suppression subtractive hybridization and cDNA microarray. Zhou, Gao-Feng,Liu, Yong-Zhong,Sheng, Ou,Wei, Qing-Jiang,Yang, Cheng-Quan,Peng, Shu-Ang,Zhou, Gao-Feng,Sheng, Ou,Wei, Qing-Jiang. 2015

[12]Systematic Profiling of Short Tandem Repeats in the Cattle Genome. Xu, Lingyang,Li, Junya,Xu, Lingyang,Zhou, Yang,Bickhart, Derek M.,Sonstegard, Tad S.,Van Tassell, Curtis P.,Liu, George E.,Xu, Lingyang,Song, Jiuzhou,Haasl, Ryan J.,Sun, Jiajie,Zhou, Yang,Sonstegard, Tad S.,Lewin, Harris A.. 2017

[13]Genome-wide analysis of Dongxiang wild rice (Oryza rufipogon Griff.) to investigate lost/acquired genes during rice domestication. Zhang, Fantao,Luo, Xiangdong,Xie, Jiankun,Xu, Tao,Mao, Linyong,Yan, Shuangyong,Chen, Xiwen,Gao, Shan,Wu, Zhenfeng,Chen, Rui. 2016

[14]Genome characterization of a novel binary toxin-positive strain of Clostridium difficile and comparison with the epidemic 027 and 078 strains. Liu, Sidi,Meng, Xiujuan,Duan, Juping,Fu, Chenchao,Wu, Anhua,Li, Chunhui,Peng, Zhong,Xu, Zhuofei,Wu, Bin,Liang, Wan,Tang, Biao,Wang, Yuanguo,Duan, Juping. 2017

[15]Whole Genome Sequencing of Hulunbuir Short-Tailed Sheep for Identifying Candidate Genes Related to the Short-Tail Phenotype. Zhi, Dafu,Liu, Moning,Cheng, Chen,Wang, Xin,Li, Xiunan,Wei, Wei,Cao, Guifang,Zhang, Yukun,Tian, Zhipeng,Long, Xin,Da, Lai,Yang, Yanyan,He, Tingyi. 2018

[16]Construction and application of EST library from Setaria italica in response to dehydration stress. Zhang, Jinpeng,Liu, Tingsong,Fu, Junjie,Zhu, Yun,Jia, Jinping,Zheng, Jun,Zhao, Yinhe,Zhang, Ying,Wang, Guoying.

[17]Comparative genomic analysis of the IId subtype family of Cryptosporidium parvum. Feng, Yaoyu,Li, Na,Feng, Yaoyu,Liu, Guangyuan,Li, Na,Roellig, Dawn M.,Kelley, Alyssa,Amer, Said,Xiao, Lihua,Amer, Said,Xiao, Lihua,Zhang, Longxian.

[18]Draft genome of the reindeer (Rangifer tarandus). Li, Zhipeng,Ba, Hengxing,Li, Guangyu,Lin, Zeshan,Chen, Lei,Yang, Yongzhi,Wang, Kun,Qiu, Qiang,Wang, Wen. 2017

[19]Identification of Genomic Insertion and Flanking Sequence of G2-EPSPS and GAT Transgenes in Soybean Using Whole Genome Sequencing Method. Guo, Bingfu,Guo, Yong,Hong, Huilong,Qiu, Li-Juan,Guo, Bingfu,Guo, Yong,Hong, Huilong,Qiu, Li-Juan,Hong, Huilong. 2016

[20]Comparative transcript profiling of gene expression of fresh and frozen-thawed bull sperm. Chen, Xiaoli,Zhu, Huabin,Hao, Haisheng,Zhao, Xueming,Qin, Tong,Wang, Dong,Wang, Yonggui.

作者其他论文 更多>>
  • Genome-wide association studies dissect low-phosphorus stress response genes underling field and seedling traits in maize

    作者:Luo, Bowen;Gao, Shibin;Luo, Bowen;Zhang, Guidi;Yu, Ting;Zhang, Chong;Yang, Guohui;Luo, Xianfu;Zhang, Shuhao;Guo, Jianyong;Zhang, Haiying;Zhang, Xiao;Liu, Dan;Wu, Ling;Gao, Duojiang;Gao, Shiqiang;Gao, Shibin;Luo, Bowen;Zhang, Guidi;Yu, Ting;Zhang, Chong;Yang, Guohui;Luo, Xianfu;Zhang, Shuhao;Guo, Jianyong;Zhang, Haiying;Zhang, Xiao;Liu, Dan;Wu, Ling;Gao, Duojiang;Gao, Shiqiang;Gao, Shibin;Zheng, Hao;Tang, Zirui;Li, Qile;Lan, Yuzhou;Ma, Peng;Ma, Peng;Nie, Zhi;Su, Shunzong;Guo, Jia

    关键词:

  • A dynamic-leaf light use efficiency model for improving gross primary production estimation

    作者:Huang, Lingxiao;Li, Zhao-Liang;Tang, Ronglin;Huang, Lingxiao;Tang, Ronglin;Yuan, Wenping;Zheng, Yi;Zhou, Yanlian;Zhou, Yanlian;He, Mingzhu;Jin, Jiaxin;Huang, Xiaojuan;Chen, Siyuan;Chen, Siyuan;Liu, Meng;Li, Zhao-Liang;Guan, Xiaobin;Jiang, Shouzheng;Jiang, Shouzheng;Lin, Xiaofeng

    关键词:gross primary production; light use efficiency (LUE) models; dynamic-leaf LUE model; big-leaf and two-leaf LUE models; sunlit and shaded leaves

  • Assessment of mariculture-derived microplastic pollution in Dapeng Cove, China

    作者:Xu, Yong;Li, Shilin;Chen, Jianlei;Cui, Zhengguo;Xu, Yong;Li, Shilin;Chen, Jianlei;Cui, Zhengguo;Li, Shilin

    关键词:Microplastic; abundance; mariculture; Fourier Transform Infrared microscope (micro-FTIR); Dapeng Cove

  • The genomic route to tomato breeding: Past, present, and future

    作者:Wang, Yan;Lin, Tao;Sun, Chuanlong;Li, Chuanyou;Sun, Chuanlong;Ye, Zhibiao;Li, Chuanyou;Huang, Sanwen;Huang, Sanwen

    关键词:

  • Analysis of the genetic structure of the introduced clearhead icefish (Protosalanx chinensis) populations in northern China

    作者:Zheng, Yi;Tang, Fujiang;Zheng, Xianhu;Na, Rongbin;Li, Zhe;Lu, Wanqiao;Lu, Cuiyun;Zheng, Yi;Zheng, Xianhu;Lu, Cuiyun;Zheng, Yi;Tang, Fujiang;Li, Zhe;Lu, Wanqiao;Tang, Fujiang;Lu, Cuiyun

    关键词:diversity assessment; estuary; floodplain; molecular markers; Salangidae

  • Periodic Table of Food Initiative for generating biomolecular knowledge of edible biodiversity

    作者:Jarvis, Andy;Debouck, Daniel;Rajasekharan, Maya;Khoury, Colin;Tohme, Joe;Gallo-Franco, Jenny;Portilla, Julian;Octavio, Mariaelena;Weissgold, Lily;German, Bruce;Khoury, Colin;Herforth, Anna;Golden, Christopher D.;Ahmed, Selena;Arnaud, Elizabeth;Declerck, Fabrice;Hunter, Danny;Pawera, Lukas;Turdieva, Muhabbat;Dawid, Corinna;Hald, Christoph;Klade, Stefan;de Haan, Stef;Declerck, Fabrice;Feskens, Edith J. M.;Fogliano, Vincenzo;Hall, Robert;van Andel, Tinde;Fritz, Gayle;Hart, Robbie;Henry, Audrey;Lowe, Andrew;Huang, Sanwen;Jia, Gengjie;Yan, Jianbin;Imanbaeva, Bermet;Turner, Nancy J.;Johnson, Elizabeth;Kalaiah, Geetha;Prasad, Rajendra;Sreeman, Sheshshayee;Karboune, Salwa;La Cerva, Gina Rae;Lal, Vincent;Levy, Avraham A.;Longvah, Thingnganing;Maeda-Yamamoto, Mari;Minnis, Paul;Nuti, Marilia;Osorio, Coralia;Peter, Sonia;Quave, Cassandra;Shapiro, Howard-Yana;Srichamnong, Warangkana;Steiner, Roy;de la Parra, John;Ulian, Tiziana;Wang, Ren;de la Parra, John

    关键词:

  • A graph-based pan-genome of Brassica oleracea provides new insights into its domestication and morphotype diversification

    作者:Wang, Shenyun;Xu, Hongwei;Li, Jianbin;Liu, Fan;Wang, Shenyun;Wang, Tianyi;Jiao, Chengzhi;Chen, Liyang;Li, Jianbin;Jiao, Chengzhi;Chen, Liyang;Fei, Zhangjun;Fei, Zhangjun

    关键词:Brassica oleracea; graph-based pan-genome; structural variants; SV; domestication; morphotype diversification