Distribution, classification, domain architectures and evolution of prolyl oligopeptidases in prokaryotic lineages

BMC Genomics

Research Article

Ramanathan Sowdhamini¹  Swati Kaushik² 

[1] National Centre for Biological Sciences, Tata Institute of Fundamental Research, GKVK Campus, Bellary Road, 560065, Bangalore, India;National Centre for Biological Sciences, Tata Institute of Fundamental Research, GKVK Campus, Bellary Road, 560065, Bangalore, India;Helen Diller Family Comprehensive Cancer Center, University of California, 94158, San Francisco, CA, USA;

关键词: Prolyl oligopeptidase;    Genome wide survey;    Phylogeny;    Bacterial prolyl oligopeptidase;   

DOI  :  10.1186/1471-2164-15-985

 received in 2014-07-22, accepted in 2014-10-09,  发布年份 2014

来源: Springer

【 摘 要 】

BackgroundProlyl oligopeptidases (POPs) are proteolytic enzymes, widely distributed in all the kingdoms of life. Bacterial POPs are pharmaceutically important enzymes, yet their functional and evolutionary details are not fully explored. Therefore, current analysis is aimed at understanding the distribution, domain architecture, probable biological functions and gene family expansion of POPs in bacterial and archaeal lineages.ResultsExhaustive sequence analysis of 1,202 bacterial and 91 archaeal genomes revealed ~3,000 POP homologs, with only 638 annotated POPs. We observed wide distribution of POPs in all the analysed bacterial lineages. Phylogenetic analysis and co-clustering of POPs of different phyla suggested their common functions in all the prokaryotic species. Further, on the basis of unique sequence motifs we could classify bacterial POPs into eight subtypes. Analysis of coexisting domains in POPs highlighted their involvement in protein-protein interactions and cellular signaling. We proposed significant extension of this gene family by characterizing 39 new POPs and 158 new α/β hydrolase members.ConclusionsOur study reflects diversity and functional importance of POPs in bacterial species. Many genomes with multiple POPs were identified with high sequence variations and different cellular localizations. Such anomalous distribution of POP genes in different bacterial genomes shows differential expansion of POP gene family primarily by multiple horizontal gene transfer events.

【 授权许可】

CC BY   
© Kaushik and Sowdhamini; licensee BioMed Central Ltd. 2014