Multilocus Sequence Typing Breathes Life into a Microbial Metagenome

PLoS ONE - Tập 1 Số 1 - Trang e17
Eshwar Mahenthiralingam1, Amy Baldwin2, Pavel Dřevı́nek1, Elke Vanlaere3, Peter Vandamme3, John J. LiPuma4, Christopher G. Dowson2
1Cardiff School of Biosciences, Cardiff University, Cardiff, United Kingdom
2Department of Biological Sciences, Warwick University, Coventry, United Kingdom
3Laboratorium voor Microbiologie, Universiteit Gent, Gent, Belgium
4Department of Pediatrics, University of Michigan, Ann Arbor, Michigan, United States of America

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J Handelsman, 2004, Metagenomics: application of genomics to uncultured microorganisms., Microbiol Mol Biol Rev, 68, 669, 10.1128/MMBR.68.4.669-685.2004

EF DeLong, 2005, Microbial community genomics in the ocean., Nat Rev Microbiol, 3, 459, 10.1038/nrmicro1158

JC Venter, 2004, Environmental genome shotgun sequencing of the Sargasso Sea., Science, 304, 66, 10.1126/science.1093857

T Coenye, 2003, Diversity and significance of <italic>Burkholderia</italic> species occupying diverse ecological niches., Environ Microbiol, 5, 719, 10.1046/j.1462-2920.2003.00471.x

LG Leff, 1995, Identification of aquatic <italic>Burkholderia</italic> (<italic>Pseudomonas</italic>) <italic>cepacia</italic> by hybridization with species-specific rRNA gene probes., Appl Environ Microbiol, 61, 1634, 10.1128/AEM.61.4.1634-1636.1995

A O'Sullivan L, 2005, Biotechnological potential within the genus <italic>Burkholderia</italic>., Lett Appl Microbiol, 41, 8, 10.1111/j.1472-765X.2005.01758.x

E Mahenthiralingam, 2005, The multifarious, multireplicon <italic>Burkholderia cepacia</italic> complex., Nat Rev Microbiol, 3, 144, 10.1038/nrmicro1085

MT Holden, 2004, Genomic plasticity of the causative agent of melioidosis, <italic>Burkholderia pseudomallei</italic>., Proc Natl Acad Sci U S A, 101, 14240, 10.1073/pnas.0403302101

T Coenye, 2001, Taxonomy and identification of the <italic>Burkholderia cepacia</italic> complex., J Clin Microbiol, 39, 3427, 10.1128/JCM.39.10.3427-3436.2001

E Mahenthiralingam, 1996, Epidemiology of Burkholderia cepacia infection in patients with cystic fibrosis: Analysis by randomly amplified polymorphic DNA fingerprinting., J Clin Microbiol, 34, 2914, 10.1128/JCM.34.12.2914-2920.1996

A Baldwin, 2005, Multilocus sequence typing scheme that provides both species and strain differentiation for the <italic>Burkholderia cepacia</italic> complex., J Clin Microbiol, 43, 4665, 10.1128/JCM.43.9.4665-4673.2005

MC Maiden, 1998, Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms., Proc Natl Acad Sci U S A, 95, 3140, 10.1073/pnas.95.6.3140

MC Enright, 1999, Multilocus sequence typing., Trends Microbiol, 7, 482, 10.1016/S0966-842X(99)01609-1

JJ LiPuma, 2001, Disproportionate distribution of <italic>Burkholderia cepacia</italic> complex species and transmissibility markers in cystic fibrosis., Am J Respir Crit Care Med, 164, 92, 10.1164/ajrccm.164.1.2011153

E Mahenthiralingam, 2000, DNA-Based diagnostic approaches for identification of <italic>Burkholderia cepacia</italic> complex, <italic>Burkholderia vietnamiensis, Burkholderia multivorans, Burkholderia stabilis</italic>, and <italic>Burkholderia cepacia</italic> genomovars I and III., J Clin Microbiol, 38, 3165, 10.1128/JCM.38.9.3165-3173.2000

GW Payne, 2005, Development of a <italic>recA</italic> Gene-Based Identification Approach for the Entire <italic>Burkholderia</italic> Genus., Appl Environ Microbiol, 71, 3917, 10.1128/AEM.71.7.3917-3927.2005

P Vandamme, 2000, Identification and population structure of <italic>Burkholderia stabilis</italic> sp nov (formerly <italic>Burkholderia cepacia</italic> genomovar IV)., J Clin Microbiol, 38, 1042, 10.1128/JCM.38.3.1042-1047.2000

K Vermis, 2002, Evaluation of species-specific <italic>recA</italic>-based PCR tests for genomovar level identification within the <italic>Burkholderia cepacia</italic> complex., J Med Microbiol, 51, 937, 10.1099/0022-1317-51-11-937

2004, Notice to readers: manufacturer&apos;s recall of nasal spray contaminated with <italic>Burkholderia cepacia</italic> complex.

AV Souza, 2004, Characterizing uncommon <italic>Burkholderia cepacia</italic> complex isolates from an outbreak in a haemodialysis unit., J Med Microbiol, 53, 999, 10.1099/jmm.0.45702-0

DA Lewis, 2005, Identification of DNA Markers for a Transmissible <italic>Pseudomonas aeruginosa</italic> Cystic Fibrosis Strain., Am J Respir Cell Mol Biol, 33, 56, 10.1165/rcmb.2004-0352OC

E Mahenthiralingam, 2000, Diagnostically and experimentally useful panel of strains from the <italic>Burkholderia cepacia</italic> complex., J Clin Microbiol, 38, 910, 10.1128/JCM.38.2.910-913.2000

RY Stanier, 1966, The aerobic pseudomonads: a taxonomic study., J Gen Microbiol, 43, 159, 10.1099/00221287-43-2-159

MC Wolfgang, 2003, Conservation of genome content and virulence determinants among clinical and environmental isolates of <italic>Pseudomonas aeruginosa</italic>., Proc Natl Acad Sci U S A, 100, 8484, 10.1073/pnas.0832438100

N Kimata, 2004, <italic>Pseudomonas aeruginosa</italic> isolated from marine environments in Tokyo Bay., Microb Ecol, 47, 41, 10.1007/s00248-003-1032-9

RL Anderson, 1991, Investigations of intrinsic <italic>Pseudomonas cepacia</italic> contamination in commercially manufactured povidone-iodine., Infect Control Hosp Epidemiol, 12, 297, 10.2307/30145196

B Perry, 2001, Cometic microbiology., Microbiology Today, 28, 185

M Shiraki, 1995, Purification and characterization of extracellular poly(3-hydroxybutyrate) depolymerases., J Polymers & Environ, 3, 13

CL Hicks, 2000, Pathology of melioidosis in captive marine mammals., Aust Vet J, 78, 193, 10.1111/j.1751-0813.2000.tb10593.x

A Baldwin, 2004, The <italic>Burkholderia cepacia</italic> Epidemic Strain Marker Is Part of a Novel Genomic Island Encoding Both Virulence and Metabolism-Associated Genes in <italic>Burkholderia cenocepacia</italic>., Infect Immun, 72, 1537, 10.1128/IAI.72.3.1537-1547.2004

J Sambrook, 1989, Molecular cloning: a laboratory manual,

TJ Carver, 2005, ACT: the Artemis Comparison Tool., Bioinformatics, 21, 3422, 10.1093/bioinformatics/bti553

WA Hareland, 1975, Metabolic function and properties of 4-hydroxyphenylacetic acid 1-hydroxylase from <italic>Pseudomonas acidovorans</italic>., J Bacteriol, 121, 272, 10.1128/JB.121.1.272-285.1975

E Berriatua, 2001, Outbreak of Subclinical Mastitis in a Flock of Dairy Sheep Associated with <italic>Burkholderia cepacia</italic> Complex Infection., J Clin Microbiol, 39, 990, 10.1128/JCM.39.3.990-994.2001

K De Boeck, 2004, Epidemiology of <italic>Burkholderia cepacia</italic> complex colonisation in cystic fibrosis patients., Eur Respir J, 23, 851, 10.1183/09031936.04.00118804

S Campana, 2005, Transmission of <italic>Burkholderia cepacia</italic> complex: evidence for new epidemic clones infecting cystic fibrosis patients in Italy., J Clin Microbiol, 43, 5136, 10.1128/JCM.43.10.5136-5142.2005