title: Genome-wide identification, evolution and expression analysis of RING finger protein genes in Brassica rapa.
abstract: More and more RING finger genes were found to be implicated in various important biological processes. In the present study, a total of 731 RING domains in 715 predicted proteins were identified in Brassica rapa genome (AA, 2n = 20), which were further divided into eight types: RING-H2 (371), RING-HCa (215), RING-HCb (47), RING-v (44), RING-C2 (38), RING-D (10), RING-S/T (5) and RING-G (1). The 715 RING finger proteins were further classified into 51 groups according to the presence of additional domains. 700 RING finger protein genes were mapped to the 10 chromosomes of B. rapa with a range of 47 to 111 genes for each chromosome. 667 RING finger protein genes were expressed in at least one of the six tissues examined, indicating their involvement in various physiological and developmental processes in B. rapa. Hierarchical clustering analysis of RNA-seq data divided them into seven major groups, one of which includes 231 members preferentially expressed in leaf, and constitutes then a panel of gene candidates for studying the genetic and molecular mechanisms of leafy head traits in Brassica crops. Our results lay the foundation for further studies on the classification, evolution and putative functions of RING finger protein genes in Brassica species.
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Intikhab
authors.initials: I
authors.lastname: Alam
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Yan-Qing
authors.initials: YQ
authors.lastname: Yang
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Yong
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Mei-Lan
authors.initials: ML
authors.lastname: Zhu
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Heng-Bo
authors.initials: HB
authors.lastname: Wang
authors.affiliation: Unité de Recherche en Génomique Végétale (Institut National de la Recherche Agronomique, Centre National de la Recherche Scientifique, Université d'Evry Val d'Essonnes), Organization and Evolution of Plant Genomes, 91057 Evry cedex, France.
authors.forename: Boulos
authors.initials: B
authors.lastname: Chalhoub
authors.affiliation: Key Laboratory of Genetics, Breeding and Comprehensive Utilization of Crops, Ministry of Education, College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
authors.forename: Yun-Hai
authors.initials: YH
authors.lastname: Lu
mesh_terms: D020816:Amino Acid Motifs; D029741:Brassica rapa / Q000235:genetics*; D002874:Chromosome Mapping; D017124:Conserved Sequence; D019143:Evolution, Molecular; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D014644:Genetic Variation; D055106:Genome-Wide Association Study; D058977:Molecular Sequence Annotation; D010802:Phylogeny; D063150:Polycomb Repressive Complex 1 / Q000235:genetics*; D054829:RING Finger Domains / Q000235:genetics
chemical_list: D063150:Polycomb Repressive Complex 1