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Outer membrane pore protein prediction in mycobacteria using genomic comparison

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Item Type:Article
Title:Outer membrane pore protein prediction in mycobacteria using genomic comparison
Creators Name:Mah, N., Perez-Iratxeta, C. and Andrade-Navarro, M.A.
Abstract:Proteins responsible for outer membrane transport across the unique membrane structure of Mycobacterium spp. are attractive drug targets in the treatment of human diseases caused by the mycobacterial pathogens, M. tuberculosis, M. bovis, M. leprae and M. ulcerans. In contrast to E. coli, relatively few outer membrane proteins (OMPs) have been identified in Mycobacterium spp., largely due to the difficulties in isolating mycobacterial membrane proteins and our incomplete understanding of secretion mechanisms and cell wall structure in these organisms. To further expand our knowledge of these elusive proteins in Mycobacterium, we have improved upon our previous method of OMP prediction in mycobacteria by taking advantage of genomic data from seven mycobacteria species. Our improved algorithm suggests 4333 sequences as putative OMPs in these seven species with varying degrees of confidence. The most virulent pathogenic mycobacterial species are slightly enriched in these selected sequences. We present examples of predicted OMPs involved in horizontal transfer and paralogy expansion. Analysis of local secondary structure content allowed identifying small domains predicted to perform as OMPs; some examples show their involvement in events of tandem duplication and domain rearrangements. We discuss the taxonomic distribution of these discovered families and architectures, often specific to mycobacteria or the wider taxonomic class of Actinobacteria. Our results suggest that OMP functionality in mycobacteria is richer than expected and provide a resource to guide future research of these understudied proteins.
Keywords:Algorithms, Bacterial Outer Membrane Proteins, Comparative Genomic Hybridization, Bacterial DNA, Bacterial Genome, Mycobacterium, Porins, DNA Sequence Analysis, Species Specificity
Publisher:Society for General Microbiology
Number:Pt 8
Page Range:2506-2515
Date:August 2010
Official Publication:https://doi.org/10.1099/mic.0.040089-0
PubMed:View item in PubMed

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