title: Genome-wide identification, phylogenetic and co-expression analysis of OsSET gene family in rice.
abstract: BACKGROUND
  SET domain is responsible for the catalytic activity of histone lysine methyltransferases (HKMTs) during developmental process. Histone lysine methylation plays a crucial and diverse regulatory function in chromatin organization and genome function. Although several SET genes have been identified and characterized in plants, the understanding of OsSET gene family in rice is still very limited.
  
  
  RESULTS
  In this study, a systematic analysis was performed and revealed the presence of at least 43 SET genes in rice genome. Phylogenetic and structural analysis grouped SET proteins into five classes, and supposed that the domains out of SET domain were significant for the specific of histone lysine methylation, as well as the recognition of methylated histone lysine. Based on the global microarray, gene expression profile revealed that the transcripts of OsSET genes were accumulated differentially during vegetative and reproductive developmental stages and preferentially up or down-regulated in different tissues. Cis-elements identification, co-expression analysis and GO analysis of expression correlation of 12 OsSET genes suggested that OsSET genes might be involved in cell cycle regulation and feedback.
  
  
  CONCLUSIONS
  This study will facilitate further studies on OsSET family and provide useful clues for functional validation of OsSETs.
authors.affiliation: College of Horticulture and Forestry Science, Huazhong Agricultural University, Wuhan, PR China.
authors.forename: Zhanhua
authors.initials: Z
authors.lastname: Lu
authors.forename: Xiaolong
authors.initials: X
authors.lastname: Huang
authors.forename: Yidan
authors.initials: Y
authors.lastname: Ouyang
authors.forename: Jialing
authors.initials: J
authors.lastname: Yao
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D017360:Arabidopsis / Q000235:genetics; D001483:Base Sequence; D002453:Cell Cycle / Q000235:genetics; D032461:Chromosomes, Plant / Q000235:genetics; D017124:Conserved Sequence / Q000235:genetics; D020440:Gene Duplication; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D063990:Gene Ontology; D053263:Gene Regulatory Networks / Q000235:genetics; D017343:Genes, Plant / Q000235:genetics*; D006657:Histones / Q000378:metabolism; D008969:Molecular Sequence Data; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis; D012275:Oryza / Q000166:cytology / Q000235:genetics*; D010802:Phylogeny; D010940:Plant Proteins / Q000235:genetics / Q000378:metabolism; D011401:Promoter Regions, Genetic / Q000235:genetics; D011499:Protein Processing, Post-Translational / Q000235:genetics; D017434:Protein Structure, Tertiary; D012098:Reproduction / Q000235:genetics; D056916:Segmental Duplications, Genomic
chemical_list: D006657:Histones; D010940:Plant Proteins