Outer membrane pore protein prediction in mycobacteria using genomic comparison
- Publikationstyp:
- Zeitschriftenaufsatz
- Metadaten:
-
- Autoren
- Nancy Mah
- Carolina Perez-Iratxeta
- Miguel A Andrade-Navarro
- Autoren-URL
- https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000281239600023&DestLinkType=FullRecord&DestApp=WOS_CPL
- DOI
- 10.1099/mic.0.040089-0
- eISSN
- 1465-2080
- Externe Identifier
- Clarivate Analytics Document Solution ID: 642TA
- PubMed Identifier: 20466765
- ISSN
- 1350-0872
- Zeitschrift
- MICROBIOLOGY-SGM
- Paginierung
- 2506 - 2515
- Datum der Veröffentlichung
- 2010
- Status
- Published
- Titel
- Outer membrane pore protein prediction in mycobacteria using genomic comparison
- Sub types
- Article
- Ausgabe der Zeitschrift
- 156
Datenquelle: Web of Science (Lite)
- Andere Metadatenquellen:
-
- Abstract
- <jats:p>Proteins responsible for outer membrane transport across the unique membrane structure of <jats:italic>Mycobacterium</jats:italic> spp. are attractive drug targets in the treatment of human diseases caused by the mycobacterial pathogens, <jats:italic>Mycobacterium tuberculosis</jats:italic>, <jats:italic>M. bovis</jats:italic>, <jats:italic>M. leprae</jats:italic> and <jats:italic>M. ulcerans</jats:italic>. In contrast with <jats:italic>Escherichia coli</jats:italic>, relatively few outer-membrane proteins (OMPs) have been identified in <jats:italic>Mycobacterium</jats:italic> 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 mycobacteria, 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 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 identification of 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 <jats:italic>Actinobacteria</jats:italic>. Our results suggest that OMP functionality in mycobacteria is richer than expected and provide a resource to guide future research of these understudied proteins.</jats:p>
- Autoren
- Nancy Mah
- Carolina Perez-Iratxeta
- Miguel A Andrade-Navarro
- DOI
- 10.1099/mic.0.040089-0
- eISSN
- 1465-2080
- ISSN
- 1350-0872
- Ausgabe der Veröffentlichung
- 8
- Zeitschrift
- Microbiology
- Sprache
- en
- Paginierung
- 2506 - 2515
- Datum der Veröffentlichung
- 2010
- Status
- Published
- Herausgeber
- Microbiology Society
- Herausgeber URL
- http://dx.doi.org/10.1099/mic.0.040089-0
- Datum der Datenerfassung
- 2020
- Titel
- Outer membrane pore protein prediction in mycobacteria using genomic comparison
- Ausgabe der Zeitschrift
- 156
Datenquelle: Crossref
- 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, Mycobacterium tuberculosis, M. bovis, M. leprae and M. ulcerans. In contrast with Escherichia 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 mycobacteria, 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 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 identification of 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.
- Addresses
- Max Delbrück Center for Molecular Medicine, Robert-Rössle-Str. 10, 13125 Berlin, Germany.
- Autoren
- Nancy Mah
- Carolina Perez-Iratxeta
- Miguel A Andrade-Navarro
- DOI
- 10.1099/mic.0.040089-0
- eISSN
- 1465-2080
- Externe Identifier
- PubMed Identifier: 20466765
- Open access
- false
- ISSN
- 1350-0872
- Ausgabe der Veröffentlichung
- Pt 8
- Zeitschrift
- Microbiology (Reading, England)
- Schlüsselwörter
- Mycobacterium
- Bacterial Outer Membrane Proteins
- Porins
- DNA, Bacterial
- Sequence Analysis, DNA
- Species Specificity
- Genome, Bacterial
- Algorithms
- Comparative Genomic Hybridization
- Sprache
- eng
- Medium
- Print-Electronic
- Online publication date
- 2010
- Paginierung
- 2506 - 2515
- Datum der Veröffentlichung
- 2010
- Status
- Published
- Datum der Datenerfassung
- 2010
- Titel
- Outer membrane pore protein prediction in mycobacteria using genomic comparison.
- Sub types
- Research Support, Non-U.S. Gov't
- Journal Article
- Ausgabe der Zeitschrift
- 156
Datenquelle: Europe PubMed Central
- 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, Mycobacterium tuberculosis, M. bovis, M. leprae and M. ulcerans. In contrast with Escherichia 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 mycobacteria, 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 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 identification of 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.
- Autoren
- Nancy Mah
- Carolina Perez-Iratxeta
- Miguel A Andrade-Navarro
- Autoren-URL
- https://www.ncbi.nlm.nih.gov/pubmed/20466765
- DOI
- 10.1099/mic.0.040089-0
- eISSN
- 1465-2080
- Ausgabe der Veröffentlichung
- Pt 8
- Zeitschrift
- Microbiology (Reading)
- Schlüsselwörter
- Algorithms
- Bacterial Outer Membrane Proteins
- Comparative Genomic Hybridization
- DNA, Bacterial
- Genome, Bacterial
- Mycobacterium
- Porins
- Sequence Analysis, DNA
- Species Specificity
- Sprache
- eng
- Country
- England
- Paginierung
- 2506 - 2515
- Datum der Veröffentlichung
- 2010
- Status
- Published
- Datum, an dem der Datensatz öffentlich gemacht wurde
- 2010
- Titel
- Outer membrane pore protein prediction in mycobacteria using genomic comparison.
- Sub types
- Journal Article
- Research Support, Non-U.S. Gov't
- Ausgabe der Zeitschrift
- 156
Datenquelle: PubMed
- Beziehungen:
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