Genome-wide analysis of putative peroxiredoxin in unicellular and filamentous cyanobacteria

BMC Evolutionary Biology

Song Qin¹  Yinchu Wang²  Yipeng Wang¹  Hongli Cui² 

[1] Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Chunhui Road, Yantai 264003, People’s Republic of China;University of Chinese Academy of Sciences, Yuquan Road, Beijing 100049, People’s Republic of China

关键词: Cyanobacteria;    Comparative genomics;    Phylogeny and evolution;    Structure;    Peroxiredoxin;   

Others  :  1140035
DOI  :  10.1186/1471-2148-12-220

 received in 2012-03-03, accepted in 2012-10-25,  发布年份 2012

【 摘 要 】

Background

Cyanobacteria are photoautotrophic prokaryotes with wide variations in genome sizes and ecological habitats. Peroxiredoxin (PRX) is an important protein that plays essential roles in protecting own cells against reactive oxygen species (ROS). PRXs have been identified from mammals, fungi and higher plants. However, knowledge on cyanobacterial PRXs still remains obscure. With the availability of 37 sequenced cyanobacterial genomes, we performed a comprehensive comparative analysis of PRXs and explored their diversity, distribution, domain structure and evolution.

Results

Overall 244 putative prx genes were identified, which were abundant in filamentous diazotrophic cyanobacteria, Acaryochloris marina MBIC 11017, and unicellular cyanobacteria inhabiting freshwater andhot-springs, while poor in all Prochlorococcus and marine Synechococcus strains. Among these putative genes,25 open reading frames (ORFs) encoding hypothetical proteins were identified as prx gene family members andthe others were already annotated as prx genes. All 244 putative PRXs were classified into five major subfamilies(1-Cys, 2-Cys, BCP, PRX5_like, and PRX-like) according to their domain structures. The catalytic motifs of the cyanobacterial PRXs were similar to those of eukaryotic PRXs and highly conserved in all but the PRX-like subfamily. Classical motif (CXXC) of thioredoxin was detected in protein sequences from the PRX-like subfamily. Phylogenetic tree constructed of catalytic domains coincided well with the domain structures of PRXs and the phylogenies based on 16s rRNA.

Conclusions

The distribution of genes encoding PRXs in different unicellular and filamentous cyanobacteria especially those sub-families like PRX-like or 1-Cys PRX correlate with the genome size, eco-physiology, and physiological properties of the organisms. Cyanobacterial and eukaryotic PRXs share similar conserved motifs, indicating that cyanobacteria adopt similar catalytic mechanisms as eukaryotes. All cyanobacterial PRX proteins share highly similar structures, implying that these genes may originate from a common ancestor. In this study, a general framework of the sequence-structure-function connections of the PRXs was revealed, which may facilitate functional investigations of PRXs in various organisms.

【 授权许可】

   
2012 Cui et al.; licensee BioMed Central Ltd.

【 图 表 】

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