title: Genome-wide analysis of Cyclophilin gene family in soybean (Glycine max).
abstract: BACKGROUND
  Cyclophilins (CYPs) belong to the immunophilin superfamily, and have peptidyl-prolyl cis-trans isomerase (PPIase) activity. PPIase catalyzes cis- and trans-rotamer interconversion of the peptidyl-prolyl amide bond of peptides, a rate-limiting step in protein folding. Studies have demonstrated the importance of many PPIases in plant biology, but no genome-wide analysis of the CYP gene family has been conducted for a legume species.
  
  
  RESULTS
  Here we performed a comprehensive database survey and identified a total of 62 CYP genes, located on 18 different chromosomes in the soybean genome (GmCYP1 to GmCYP62), of which 10 are multi- and 52 are single-domain proteins. Most of the predicted GmCYPs clustered together in pairs, reflecting the ancient genome duplication event. Analysis of gene structure revealed the presence of introns in protein-coding regions as well as in 5' and 3' untranslated regions, and that their size, abundance and distribution varied within the gene family. Expression analysis of GmCYP genes in soybean tissues displayed their differential tissue specific expression patterns.
  
  
  CONCLUSIONS
  Overall, we have identified 62 CYP genes in the soybean genome, the largest CYP gene family known to date. This is the first genome-wide study of the CYP gene family of a legume species. The expansion of GmCYP genes in soybean, and their distribution pattern on the chromosomes strongly suggest genome-wide segmental and tandem duplications.
authors.forename: Hemanta Raj
authors.initials: HR
authors.lastname: Mainali
authors.forename: Patrick
authors.initials: P
authors.lastname: Chapman
authors.forename: Sangeeta
authors.initials: S
authors.lastname: Dhaubhadel
mesh_terms: D021983:Cyclophilins / Q000235:genetics*; D030541:Databases, Genetic; D007887:Fabaceae / Q000235:genetics*; D018745:Genome, Plant / Q000235:genetics*; D055106:Genome-Wide Association Study; D007438:Introns / Q000235:genetics; D005810:Multigene Family; D016366:Open Reading Frames / Q000235:genetics; D009928:Organ Specificity; D019696:Peptidylprolyl Isomerase / Q000235:genetics*; D010940:Plant Proteins / Q000235:genetics; D017434:Protein Structure, Tertiary; D013025:Glycine max / Q000235:genetics*; D020506:Untranslated Regions / Q000235:genetics
chemical_list: D010940:Plant Proteins; D020506:Untranslated Regions; D021983:Cyclophilins; D019696:Peptidylprolyl Isomerase