title: [Genome-wide identification, phylogenetic analysis and expression profiling of the WOX family genes in Solanum lycopersicum].
abstract: Members of the plant-specific WOX transcription factor family have been reported to play important roles in cell to cell communication as well as other physiological and developmental processes. In this study, ten members of the WOX transcription factor family were identified in Solanum lycopersicum with HMMER. Neighbor-joining phylogenetic tree, maximum-likelihood tree and Bayesian-inference tree were constructed and similar topologies were shown using the protein sequences of the homeodomain. Phylogenetic study revealed that the 25 WOX family members from Arabidopsis and tomato fall into three clades and nine subfamilies. The patterns of exon-intron structures and organization of conserved domains in Arabidopsis and tomato were consistent based on the phylogenetic results. Transcriptome analysis showed that the expression patterns of SlWOXs were different in different tissue types. Gene Ontology (GO) analysis suggested that, as transcription factors, the SlWOX family members could be involved in a number of biological processes including cell to cell communication and tissue development. Our results are useful for future studies on WOX family members in tomato and other plant species.
authors.affiliation: Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
authors.forename: Xiao-xu
authors.initials: XX
authors.lastname: Li
authors.affiliation: 1. Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China; 2. Qujing Tobacco Company of Yunnan, Qujing 655000, China;
authors.forename: Cheng
authors.initials: C
authors.lastname: Liu
authors.affiliation: Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
authors.forename: Wei
authors.initials: W
authors.lastname: Li
authors.affiliation: Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
authors.forename: Zeng-lin
authors.initials: ZL
authors.lastname: Zhang
authors.affiliation: Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
authors.forename: Xiao-ming
authors.initials: XM
authors.lastname: Gao
authors.affiliation: 1. Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China; 2. Etsong Qingdao Industrial Co., Ltd., Qingdao 266101, China;
authors.forename: Hui
authors.initials: H
authors.lastname: Zhou
authors.affiliation: Key Laboratory of Tobacco Gene Resources, Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao 266101, China.
authors.forename: Yong-feng
authors.initials: YF
authors.lastname: Guo
mesh_terms: D000595:Amino Acid Sequence; D002874:Chromosome Mapping; D020869:Gene Expression Profiling; D063990:Gene Ontology; D018398:Homeodomain Proteins / Q000737:chemistry / Q000235:genetics*; D018551:Solanum lycopersicum / Q000737:chemistry / Q000235:genetics*; D008969:Molecular Sequence Data; D010802:Phylogeny; D010940:Plant Proteins / Q000737:chemistry / Q000235:genetics*; D014157:Transcription Factors / Q000235:genetics*
chemical_list: D018398:Homeodomain Proteins; D010940:Plant Proteins; D014157:Transcription Factors