Genome-wide analysis of WRKY transcription factors in Solanum lycopersicum
Genome-wide analysis of WRKY transcription factors in Solanum lycopersicum
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DOI：
10.1007/s00438-012-0696-6
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发表时间：
2012-06-01
影响因子：
3.1
通讯作者：
Liu, Yongsheng
中科院分区：
文献类型：
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作者：
Huang, Shengxiong;Gao, Yongfeng;Liu, Yongsheng
WRKY转录因子参与植物的多种生物学过程，特别是在调节植物对生物和非生物胁迫的防御方面。然而，关于番茄（Solanum lycopersicum）中WRKYs的信息很少。最近公布的番茄全基因组序列使我们能够对番茄WRKY蛋白进行全基因组研究，并将这些阳性鉴定的蛋白与模式植物（如拟南芥和水稻）中的直系同源物进行比较。在本研究中，根据最近公布的番茄全基因组序列，我们确定了81个SlWRKY基因，分为三个主要组，与第二组进一步分为五个亚组。根据番茄、拟南芥和水稻的WRKY结构域序列构建的系统发育树表明，WRKY基因在3个物种中具有明显的聚类性和独特的基因扩展性。基因组定位分析表明，番茄WRKY基因在多条染色体上富集，尤其是在第5染色体上，16%的家族成员为串联重复基因。来自每组的番茄WRKY显示出共享相似的基序组成。此外，番茄WRKY基因在不同的发育过程中表现出不同的时空表达模式，并响应于各种生物和非生物胁迫。通过定量RT-PCR方法验证了18个番茄WRKY基因在干旱、盐胁迫和假单胞菌入侵下的表达。本研究为番茄WRKY基因的功能鉴定和分子育种研究提供了平台。
The WRKY transcription factors have been implicated in multiple biological processes in plants, especially in regulating defense against biotic and abiotic stresses. However, little information is available about the WRKYs in tomato (Solanum lycopersicum). The recent release of the whole-genome sequence of tomato allowed us to perform a genome-wide investigation for tomato WRKY proteins, and to compare these positively identified proteins with their orthologs in model plants, such as Arabidopsis and rice. In the present study, based on the recently released tomato whole-genome sequences, we identified 81 SlWRKY genes that were classified into three main groups, with the second group further divided into five subgroups. Depending on WRKY domains' sequences derived from tomato, Arabidopsis and rice, construction of a phylogenetic tree demonstrated distinct clustering and unique gene expansion of WRKY genes among the three species. Genome mapping analysis revealed that tomato WRKY genes were enriched on several chromosomes, especially on chromosome 5, and 16 % of the family members were tandemly duplicated genes. The tomato WRKYs from each group were shown to share similar motif compositions. Furthermore, tomato WRKY genes showed distinct temporal and spatial expression patterns in different developmental processes and in response to various biotic and abiotic stresses. The expression of 18 selected tomato WRKY genes in response to drought and salt stresses and Pseudomonas syringae invasion, respectively, was validated by quantitative RT-PCR. Our results will provide a platform for functional identification and molecular breeding study of WRKY genes in tomato and probably other Solanaceae plants.