title: Genome-wide identification of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families and their expression analyses in response to viral infection and abiotic stresses in Solanum lycopersicum.
abstract: Dicer, Argonaute and RNA-dependent RNA polymerase form the core components to trigger RNA silencing. Although tomato (Solanum lycopersicum) is a dicotyledon model plant, no systematic analysis and expression profiling of these genes in tomato has been undertaken previously. In this study, seven Dicer-like (SlDCLs), 15 Argonaute (SlAGOs) and six RNA-dependent RNA polymerase (SlRDRs) genes were identified in tomato. These genes were categorized into four subgroups based on phylogenetic analyses. Comprehensive analyses of gene structure, genomic localization and similarity among these genes were performed. Their expression patterns were investigated by means of expression models in different tissues and organs using online data and semi-quantitative RT-PCR. Many of the candidate genes were up-regulated in response to Tomato yellow leaf curl virus infection and abiotic stresses. The expression models of tandem gene duplications among SlDCL2s indicated the DCL2 family plays an important role in the evolution of tomato.
authors.affiliation: Key Laboratory for Crop Germplasm Innovation and Utilization of Hunan Province, Hunan Agricultural University, Changsha 410128, China.
authors.forename: Miao
authors.initials: M
authors.lastname: Bai
authors.forename: Guo-Shun
authors.initials: GS
authors.lastname: Yang
authors.forename: Wen-Ting
authors.initials: WT
authors.lastname: Chen
authors.forename: Zhen-Chuan
authors.initials: ZC
authors.lastname: Mao
authors.forename: Hou-Xiang
authors.initials: HX
authors.lastname: Kang
authors.forename: Guo-Hua
authors.initials: GH
authors.lastname: Chen
authors.forename: Yu-Hong
authors.initials: YH
authors.lastname: Yang
authors.forename: Bing-Yan
authors.initials: BY
authors.lastname: Xie
mesh_terms: D000595:Amino Acid Sequence; D060565:Argonaute Proteins / Q000737:chemistry / Q000235:genetics*; D002874:Chromosome Mapping; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant; D008969:Molecular Sequence Data; D010802:Phylogeny; D010935:Plant Diseases / Q000235:genetics / Q000821:virology*; D012324:RNA-Dependent RNA Polymerase / Q000235:genetics*; D043244:Ribonuclease III / Q000235:genetics*; D017386:Sequence Homology, Amino Acid; D032322:Solanum / Q000235:genetics* / Q000502:physiology / Q000821:virology; D013312:Stress, Physiological / Q000235:genetics*
chemical_list: D060565:Argonaute Proteins; D012324:RNA-Dependent RNA Polymerase; D043244:Ribonuclease III