{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,21]],"date-time":"2026-03-21T18:04:33Z","timestamp":1774116273066,"version":"3.50.1"},"reference-count":56,"publisher":"Public Library of Science (PLoS)","issue":"12","license":[{"start":{"date-parts":[[2013,12,13]],"date-time":"2013-12-13T00:00:00Z","timestamp":1386892800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0083065","type":"journal-article","created":{"date-parts":[[2013,12,13]],"date-time":"2013-12-13T21:28:37Z","timestamp":1386970117000},"page":"e83065","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":23,"title":["Proteomic Profiling of Burkholderia cenocepacia Clonal Isolates with Different Virulence Potential Retrieved from a Cystic Fibrosis Patient during Chronic Lung Infection"],"prefix":"10.1371","volume":"8","author":[{"given":"Andreia","family":"Madeira","sequence":"first","affiliation":[]},{"given":"Sandra C.","family":"dos Santos","sequence":"additional","affiliation":[]},{"given":"Pedro M.","family":"Santos","sequence":"additional","affiliation":[]},{"given":"Carla P.","family":"Coutinho","sequence":"additional","affiliation":[]},{"given":"Jean","family":"Tyrrell","sequence":"additional","affiliation":[]},{"given":"Siobh\u00e1n","family":"McClean","sequence":"additional","affiliation":[]},{"given":"M\u00e1ire","family":"Callaghan","sequence":"additional","affiliation":[]},{"given":"Isabel","family":"S\u00e1-Correia","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2013,12,13]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"821","DOI":"10.1111\/j.1469-0691.2010.03237.x","article-title":"<italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> in cystic fibrosis: epidemiology and molecular mechanisms of virulence","volume":"16","author":"P Drevinek","year":"2010","journal-title":"Clin Microbiol Infect"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1099\/0022-1317-51-7-533","article-title":"<italic>Burkholderia<\/italic> <italic>cepacia<\/italic> complex infection in patients with cystic fibrosis","volume":"51","author":"E Mahenthiralingam","year":"2002","journal-title":"J Med Microbiol"},{"key":"ref3","article-title":"Antibiotic resistance of <italic>Burkholderia<\/italic> spp","year":"2007"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1038\/nrmicro1085","article-title":"The multifarious, multireplicon <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> complex","volume":"3","author":"E Mahenthiralingam","year":"2005","journal-title":"Nat Rev Microbiol"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1111\/j.1574-6976.2010.00237.x","article-title":"Differential adaptation of microbial pathogens to airways of patients with cystic fibrosis and chronic obstructive pulmonary disease","volume":"35","author":"G D\u00f6ring","year":"2011","journal-title":"FEMS Microbiol Rev"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"917","DOI":"10.1099\/mic.0.2006\/004077-0","article-title":"Microbial ecology of the cystic fibrosis lung","volume":"153","author":"F Harrison","year":"2007","journal-title":"Microbiology (Reading, Engl)"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fcimb.2011.00012","article-title":"Long-term colonization of the cystic fibrosis lung by Burkholderia cepacia complex bacteria: epidemiology, clonal variation, and genome-wide expression alterations","volume":"1","author":"CP Coutinho","year":"2011","journal-title":"Front Cell Inf Microbio"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"2950","DOI":"10.1128\/IAI.01366-10","article-title":"<italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> phenotypic clonal variation during a 3.5-year colonization in the lungs of a cystic fibrosis patient","volume":"79","author":"CP Coutinho","year":"2011","journal-title":"Infect Immun"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"1275","DOI":"10.1038\/ng.997","article-title":"Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes","volume":"43","author":"TD Lieberman","year":"2011","journal-title":"Nat Genet"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"3052","DOI":"10.1128\/JCM.42.7.3052-3058.2004","article-title":"Studies on the involvement of the exopolysaccharide produced by cystic fibrosis-associated isolates of the <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> complex in biofilm formation and in persistence of respiratory infections","volume":"42","author":"MV Cunha","year":"2004","journal-title":"J Clin Microbiol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"4088","DOI":"10.1128\/IAI.00212-10","article-title":"A decade of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> virulence determinant research","volume":"78","author":"SA Loutet","year":"2010","journal-title":"Infect Immun"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"e28831","DOI":"10.1371\/journal.pone.0028831","article-title":"Genomic expression analysis reveals strategies of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> to adapt to cystic fibrosis patients&apos; airways and antimicrobial therapy","volume":"6","author":"NP Mira","year":"2011","journal-title":"PLOS ONE"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"1313","DOI":"10.1002\/pmic.201000457","article-title":"Quantitative proteomics (2-D DIGE) reveals molecular strategies employed by <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> to adapt to the airways of cystic fibrosis patients under antimicrobial therapy","volume":"11","author":"A Madeira","year":"2011","journal-title":"Proteomics"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"4113","DOI":"10.1128\/JCM.41.9.4113-4120.2003","article-title":"Molecular analysis of <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> complex isolates from a Portuguese cystic fibrosis center: a 7-year study","volume":"41","author":"MV Cunha","year":"2003","journal-title":"J Clin Microbiol"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"1651","DOI":"10.1128\/JCM.38.4.1651-1655.2000","article-title":"Molecular typing and exopolysaccharide biosynthesis of <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> isolates from a Portuguese cystic fibrosis center","volume":"38","author":"JA Richau","year":"2000","journal-title":"J Clin Microbiol"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"1318","DOI":"10.1016\/j.vaccine.2009.11.027","article-title":"Identification of immunogenic proteins from <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> secretome using proteomic analysis","volume":"28","author":"V Mariappan","year":"2010","journal-title":"Vaccine"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1016\/j.mcp.2006.08.006","article-title":"Comparative proteomic profiles and the potential markers between <italic>Burkholderia<\/italic> <italic>pseudomallei<\/italic> and <italic>Burkholderia<\/italic> <italic>thailandensis<\/italic>","volume":"21","author":"P Wongtrakoongate","year":"2007","journal-title":"Mol Cell Probes"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"E250","DOI":"10.1073\/pnas.1207025110","article-title":"Tangled bank of experimentally evolved <italic>Burkholderia<\/italic> biofilms reflects selection during chronic infections","volume":"110","author":"CC Traverse","year":"2013","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1165\/ajrcmb.10.1.7507342","article-title":"CFTR expression and chloride secretion in polarized immortal human bronchial epithelial cells","volume":"10","author":"AL Cozens","year":"1994","journal-title":"Am J Respir Cell Mol Biol"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"405","DOI":"10.1007\/s00441-005-0062-7","article-title":"Towards an in vitro model of cystic fibrosis small airway epithelium: characterisation of the human bronchial epithelial cell line CFBE41o","volume":"323","author":"C Ehrhardt","year":"2006","journal-title":"Cell Tissue Res"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1165\/ajrcmb\/4.4.313","article-title":"A cystic fibrosis bronchial epithelial cell line: immortalization by adeno-12-SV40 infection","volume":"4","author":"PL Zeitlin","year":"1991","journal-title":"Am J Respir Cell Mol Biol"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"2803","DOI":"10.1093\/bioinformatics\/btn524","article-title":"The <italic>Burkholderia<\/italic> Genome Database: facilitating flexible queries and comparative analyses","volume":"24","author":"GL Winsor","year":"2008","journal-title":"Bioinformatics"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/0003-2697(87)90612-9","article-title":"Universal chemical assay for the detection and determination of siderophores","volume":"160","author":"B Schwyn","year":"1987","journal-title":"Anal Biochem"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"4113","DOI":"10.1128\/JCM.41.9.4113-4120.2003","article-title":"Molecular analysis of <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> complex isolates from a Portuguese cystic fibrosis center: a 7-year study","volume":"41","author":"MV Cunha","year":"2003","journal-title":"J Clin Microbiol"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"105","DOI":"10.1016\/0022-2836(82)90515-0","article-title":"A simple method for displaying the hydropathic character of a protein","volume":"157","author":"J Kyte","year":"1982","journal-title":"J Mol Biol"},{"key":"ref26","first-page":"531","article-title":"Protein identification and analysis tools in the ExPASy server","volume":"112","author":"MR Wilkins","year":"1999","journal-title":"Methods Mol Biol"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"3797","DOI":"10.1002\/1522-2683(200011)21:17<3797::AID-ELPS3797>3.0.CO;2-P","article-title":"Complementing genomics with proteomics: the membrane subproteome of <italic>Pseudomonas<\/italic> <italic>aeruginosa<\/italic> PAO1","volume":"21","author":"AS Nouwens","year":"2000","journal-title":"Electrophoresis"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"1501","DOI":"10.1002\/elps.1150190847","article-title":"Two-dimensional gel electrophoresis for proteome projects: the effects of protein hydrophobicity and copy number","volume":"19","author":"MR Wilkins","year":"1998","journal-title":"Electrophoresis"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1006\/abio.2000.4514","article-title":"Two-dimensional electrophoresis of membrane proteins using immobilized pH gradients","volume":"280","author":"MP Molloy","year":"2000","journal-title":"Anal Biochem"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1186\/1471-2334-8-121","article-title":"Gene expression changes linked to antimicrobial resistance, oxidative stress, iron depletion and retained motility are observed when <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> grows in cystic fibrosis sputum","volume":"8","author":"P Drevinek","year":"2008","journal-title":"BMC Infect Dis"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"4134","DOI":"10.1073\/pnas.81.13.4134","article-title":"DNA sequence of the <italic>carA<\/italic> gene and the control region of <italic>carAB<\/italic>: tandem promoters, respectively controlled by arginine and the pyrimidines, regulate the synthesis of carbamoyl-phosphate synthetase in <italic>Escherichia<\/italic> <italic>coli<\/italic> K-12","volume":"81","author":"J Piette","year":"1984","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"1631","DOI":"10.1128\/IAI.70.3.1631-1634.2002","article-title":"Induction of dnaK through its native heat shock promoter is necessary for intramacrophagic replication of <italic>Brucella<\/italic> <italic>suis<\/italic>","volume":"70","author":"S K\u00f6hler","year":"2002","journal-title":"Infect Immun"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"593","DOI":"10.1128\/MMBR.67.4.593-656.2003","article-title":"Molecular basis of bacterial outer membrane permeability revisited","volume":"67","author":"H Nikaido","year":"2003","journal-title":"Microbiol Mol Biol Rev"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1111\/j.1365-2958.2006.05211.x","article-title":"YfiO stabilizes the YaeT complex and is essential for outer membrane protein assembly in <italic>Escherichia<\/italic> <italic>coli<\/italic>","volume":"61","author":"JC Malinverni","year":"2006","journal-title":"Mol Microbiol"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"3631","DOI":"10.1128\/JB.188.10.3631-3644.2006","article-title":"The ornibactin biosynthesis and transport genes of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> are regulated by an extracytoplasmic function s Factor which is a part of the Fur regulon","volume":"188","author":"K Agnoli","year":"2006","journal-title":"J Bacteriol"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"1325","DOI":"10.1099\/mic.0.056986-0","article-title":"Interaction of environmental <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> strains with cystic fibrosis and non-cystic fibrosis bronchial epithelial cells <italic>in<\/italic> <italic>vitro<\/italic>","volume":"158","author":"A Bevivino","year":"2012","journal-title":"Microbiology"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"12088","DOI":"10.1073\/pnas.94.22.12088","article-title":"Cystic fibrosis transmembrane conductance regulator is an epithelial cell receptor for clearance of <italic>Pseudomonas<\/italic> <italic>aeruginosa<\/italic> from the lung","volume":"94","author":"GB Pier","year":"1997","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"1081","DOI":"10.1128\/IAI.70.3.1081-1086.2002","article-title":"Correlation between an <italic>in<\/italic> <italic>vitro<\/italic> invasion assay and a murine model of <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> lung infection","volume":"70","author":"MV Cieri","year":"2002","journal-title":"Infect Immun"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"4437","DOI":"10.1073\/pnas.93.9.4437","article-title":"<italic>Escherichia<\/italic> <italic>coli<\/italic> trigger factor is a prolyl isomerase that associates with nascent polypeptide chains","volume":"93","author":"T Hesterkamp","year":"1996","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref40","doi-asserted-by":"crossref","first-page":"11138","DOI":"10.1073\/pnas.0703980104","article-title":"Collaboration between the ClpB AAA<sup>+<\/sup> remodeling protein and the DnaK chaperone system","volume":"104","author":"SM Doyle","year":"2007","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1038\/379420a0","article-title":"Protein folding in the central cavity of the GroEL-GroES chaperonin complex","volume":"379","author":"M Mayhew","year":"1996","journal-title":"Nature"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"315","DOI":"10.1126\/science.1219192","article-title":"Oxidation of the guanine nucleotide pool underlies cell death by bactericidal antibiotics","volume":"336","author":"JJ Foti","year":"2012","journal-title":"Science"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1128\/IAI.00768-12","article-title":"Identification of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> Strain H111 virulence factors using nonmammalian infection hosts","volume":"81","author":"S Schwager","year":"2013","journal-title":"Infect Immun"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"e37","DOI":"10.1371\/journal.ppat.0040037","article-title":"Nucleotide biosynthesis is critical for growth of bacteria in human blood","volume":"4","author":"S Samant","year":"2008","journal-title":"PLOS Pathog"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"881","DOI":"10.1146\/annurev.micro.54.1.881","article-title":"Iron metabolism in pathogenic bacteria","volume":"54","author":"C Ratledge","year":"2000","journal-title":"Annu Rev Microbiol"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1186\/1471-2164-13-63","article-title":"Global changes in gene expression by the opportunistic pathogen Burkholderia cenocepacia in response to internalization by murine macrophages","volume":"13","author":"JS Tolman","year":"2012","journal-title":"BMC Genomics"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"5534","DOI":"10.1128\/JB.00900-10","article-title":"Metabolic network analysis of <italic>Pseudomonas<\/italic> <italic>aeruginosa<\/italic> during chronic cystic fibrosis lung infection","volume":"192","author":"MA Oberhardt","year":"2010","journal-title":"J Bacteriol"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"118","DOI":"10.1086\/599360","article-title":"Dynamics of adaptive microevolution of hypermutable <italic>Pseudomonas<\/italic> <italic>aeruginosa<\/italic> during chronic pulmonary infection in patients with cystic fibrosis","volume":"200","author":"C Hoboth","year":"2009","journal-title":"J Infect Dis"},{"key":"ref49","article-title":"The unexpected discovery of a novel low-oxygen-activated locus for the anoxic persistence of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic>. Isme","author":"AM Sass","year":"2013"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"1275","DOI":"10.1038\/ng.997","article-title":"Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes","volume":"43","author":"TD Lieberman","year":"2011","journal-title":"Nat Genet"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"7220","DOI":"10.1128\/IAI.72.12.7220-7230.2004","article-title":"Identification of a novel virulence factor in <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> H111 required for efficient slow killing of <italic>Caenorhabditis<\/italic> <italic>elegans<\/italic>","volume":"72","author":"B Huber","year":"2004","journal-title":"Infect Immun"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"4102","DOI":"10.1128\/IAI.00398-09","article-title":"Identification of specific and universal virulence factors in <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> strains by using multiple infection hosts","volume":"77","author":"S Uehlinger","year":"2009","journal-title":"Infect Immun"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"72","DOI":"10.5355\/JAST.2012.72","article-title":"Functions of <italic>Burkholderia<\/italic> <italic>virulence<\/italic> factors: input from proteomics and DNA microarray analyses","volume":"3","author":"KM Vellasamy","year":"2012","journal-title":"Journal Analytical Science and Technology"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"4010","DOI":"10.1128\/IAI.72.7.4010-4022.2004","article-title":"Identification of <italic>Burkholderia<\/italic> <italic>cenocepacia<\/italic> genes required for bacterial survival <italic>in<\/italic> <italic>vivo<\/italic>","volume":"72","author":"TA Hunt","year":"2004","journal-title":"Infect Immun"},{"key":"ref55","doi-asserted-by":"crossref","first-page":"373","DOI":"10.1186\/1471-2164-12-373","article-title":"Spontaneous and evolutionary changes in the antibiotic resistance of Burkholderia cenocepacia observed by global gene expression analysis","volume":"12","author":"A Sass","year":"2011","journal-title":"BMC Genomics"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"e26518","DOI":"10.1371\/journal.pone.0026518","article-title":"Profiling of <italic>Burkholderia<\/italic> <italic>cepacia<\/italic> secretome at mid-logarithmic and early-stationary phases of growth","volume":"6","author":"V Mariappan","year":"2011","journal-title":"PLOS ONE"}],"container-title":["PLoS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0083065","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,8,12]],"date-time":"2020-08-12T03:16:14Z","timestamp":1597202174000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0083065"}},"subtitle":[],"editor":[{"given":"Jos\u00e9\u00a0A.","family":"Bengoechea","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2013,12,13]]},"references-count":56,"journal-issue":{"issue":"12","published-online":{"date-parts":[[2013,12,13]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0083065","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,12,13]]}}}