| 番茄LBD基因家族的全基因组序列鉴定及其进化和表达分析 |
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| 引用本文： | 王小非,刘鑫,苏玲,孙永江,张世忠,郝玉金,由春香.番茄LBD基因家族的全基因组序列鉴定及其进化和表达分析[J].中国农业科学,2013,46(12):2501-2513. |
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| 作者姓名： | 王小非 刘鑫 苏玲 孙永江 张世忠 郝玉金 由春香 |
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| 作者单位： | 山东农业大学园艺科学与工程学院/作物生物学国家重点实验室/国家苹果工程技术研究中心,山东泰安,271018 |
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| 基金项目： | 国家自然科学基金项目（31171946） |
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| 摘 要： | 【目的】从番茄全基因组中鉴定LBD基因，并进行基因进化、基因结构、染色体定位以及组织表达和诱导表达分析，为番茄LBD基因的功能研究与利用奠定基础。【方法】利用番茄基因组数据库，通过生物信息学手段，鉴定番茄LBD家族成员；采用MEGA5软件进行系统进化树分析；通过perl程序、MapDRAW及GSDS工具进行基因结构及染色体定位分析；利用已有的番茄芯片数据进行组织表达谱和基因表达响应分析。【结果】系统分析鉴定了 46 个番茄LBD 家族基因，根据基因结构及系统进化分析将其分成class I与class II两类，细分为5个亚家族（Ia、Ib、Ic、Id与II）。基因定位表明，12 条染色体中的 10 条均有LBD 基因，该基因家族的分布具有广泛性。各个发育阶段表达谱的分析结果表明，LBD 家族基因具有不同的组织表达模式，在各个发育时期均有LBD 基因的表达。基因响应分析发现，不同LBD基因响应不同的外界信号。【结论】通过全基因组分析，番茄LBD家族基因包括 46 个成员，在进化上分为两大类，5 个亚家族，分布于 10 条染色体上，组织表达模式及基因响应具有多样性。这些信息为番茄LBD基因家族的功能分析奠定了基础。
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| 关 键 词： | 番茄 LBD基因家族 系统进化 基因表达 |
| 收稿时间： | 2012-12-25 |
Identification, Evolution and Expression Analysis of the LBD Gene Family in Tomato |
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| WANG Xiao-Fei,LIU Xin,SU Ling,SUN Yong-Jiang,ZHANG Shi-Zhong,HAO Yu-Jin,YOU Chun-Xiang.Identification, Evolution and Expression Analysis of the LBD Gene Family in Tomato[J].Scientia Agricultura Sinica,2013,46(12):2501-2513. |
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| Authors: | WANG Xiao-Fei LIU Xin SU Ling SUN Yong-Jiang ZHANG Shi-Zhong HAO Yu-Jin YOU Chun-Xiang |
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| Affiliation: | State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology , College of Horticultural Science and Engineering, Shandong Agricultural University, Taian 271018, Shandong |
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| Abstract: | 【Objective】Identification of LBD genes from tomato genome, and analysis of phylogeny，gene structure, chromosome location, phylogenetic and tissue expression pattern analysis of LBD family genes in tomato will be useful to the functions identification of plant LBD genes.【Method】Based on tomato genome database and bioinformatic method, tomato LBD family genes were identified and the genes were sequenced. A phylogenetic tree was created using the MEGA5 program. Gene structure and chromosomes location were done by Perl-based program, MapDraw and GSDS. Expression pattern of LBD genes at different development stages was analyzed based on the existing microarray database.【Result】A total of 46 LBD genes were systematically identified from tomato and classified into 2 classes (class I and class II), then was classified into 5 subfamilies (Ia, Ib, Ic, Id and II) according to the gene structure and conserved domain phylogeny relationship. They were distributed on 10 of tomato chromosomes, suggesting that they have an extensive distribution on the tomato chromosomes. Most of the LBD genes had differential expression pattern and response to external stimulation. 【Conclusion】Forty-six LBD family genes in tomato were identified by genome-wide screening. They were classified into 2 classes, 5 subfamilies and distributed on 10 chromosomes with different expression patterns in different tissues and developmental stages. They had special response to external stimulation. These results are helpful for the functional analysis of LBD genes in plants. |
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| Keywords: | tomato LBD gene family phylogeny analysis gene expression |
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