the tomato rlk superfamily phylogeny and functional predictions about the role of the lrrii-rlk subfamily in antiviral defense番茄rlk总科系统学和功能预测的角色lrrii-rlk亚科在抗病毒防御.pdfVIP

Sakamoto et al. BMC Plant Biology 2012, 12:229 /1471-2229/12/229 RESEARCH ARTICLE Open Access The tomato RLK superfamily: phylogeny and functional predictions about the role of the LRRII-RLK subfamily in antiviral defense 1 1,2 1,2 1,2 3 Tetsu Sakamoto , Michihito Deguchi , Otávio JB Brustolini , Anésia A Santos , Fabyano F Silva and Elizabeth PB Fontes1,2* Abstract Background: Receptor-like kinases (RLKs) play key roles during development and in responses to the environment. Despite the relevance of the RLK family and the completion of the tomato genome sequencing, the tomato RLK family has not yet been characterized, and a framework for functional predictions of the members of the family is lacking. Results: To generate a complete list of all the members of the tomato RLK family, we performed a phylogenetic analysis using the Arabidopsis family as a template. A total of 647 RLKs were identified in the tomato genome, which were organized into the same subfamily clades as Arabidopsis RLKs. Only eight of 58 RLK subfamilies exhibited specific expansion/reduction compared to their Arabidopsis counterparts. We also characterized the LRRII-RLK family by phylogeny, genomic analysis, expression profile and interaction with the virulence factor from begomoviruses, the nuclear shuttle protein (NSP). The LRRII subfamily members from tomato and Arabidopsis were highly conserved in both sequence and structure. Nevertheless, the majority of the orthologous pairs did not display similar conservation in the gene expression profile, indicating that these orthologs may have diverged in function after speciation. Based on the fact that members of the Arabidopsis LRRII subfamily (AtNIK1,