{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,29]],"date-time":"2026-09-29T12:34:39Z","timestamp":1790685279608,"version":"4.1.0"},"reference-count":76,"publisher":"Public Library of Science (PLoS)","issue":"8","license":[{"start":{"date-parts":[[2016,8,17]],"date-time":"2016-08-17T00:00:00Z","timestamp":1471392000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\/"}],"funder":[{"DOI":"10.13039\/100000183","name":"Army Research Office","doi-asserted-by":"publisher","award":["Department of Defense (DoD)- W911NF-10-1-0146 and W911NF-10-R-0006"],"award-info":[{"award-number":["Department of Defense (DoD)- W911NF-10-1-0146 and W911NF-10-R-0006"]}],"id":[{"id":"10.13039\/100000183","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Savannah River Nuclear Solutions","award":["0000217620"],"award-info":[{"award-number":["0000217620"]}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0161032","type":"journal-article","created":{"date-parts":[[2016,8,17]],"date-time":"2016-08-17T19:28:27Z","timestamp":1471462107000},"page":"e0161032","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":25,"title":["Comparative Genomics and Metabolic Analysis Reveals Peculiar Characteristics of Rhodococcus opacus Strain M213 Particularly for Naphthalene Degradation"],"prefix":"10.1371","volume":"11","author":[{"given":"Ashish","family":"Pathak","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ashvini","family":"Chauhan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jochen","family":"Blom","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Karl J.","family":"Indest","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carina M.","family":"Jung","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul","family":"Stothard","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gopal","family":"Bera","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stefan J.","family":"Green","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew","family":"Ogram","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2016,8,17]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"209","DOI":"10.1016\/j.tox.2014.09.003","article-title":"The National Library of Medicine&apos;s (NLM) Hazardous Substances Data Bank (HSDB): background, recent enhancements and future plans","volume":"325","author":"GC Fonger","year":"2014","journal-title":"Toxicology"},{"issue":"no. 3","key":"ref2","doi-asserted-by":"crossref","first-page":"451","DOI":"10.1289\/ehp.02110s3451","article-title":"Cancer risk assessment, indicators, and guidelines for polycyclic aromatic hydrocarbons in the ambient air","volume":"vol. 110","author":"CE Bostr\u00f6m","year":"2002","journal-title":"Environmental Health Perspectives"},{"issue":"no. 2","key":"ref3","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1080\/10807030490438166","article-title":"Establishing Eco-SSLs for PAHs: lessons revealed from a review of literature on exposure and effects to terrestrial receptors","volume":"vol. 10","author":"LA Kapustka","year":"2004","journal-title":"Human and Ecological Risk Assessment"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"351","DOI":"10.1007\/BF00129093","article-title":"Biodegradation of polycyclic aromatic hydrocarbons","volume":"3","author":"CE Cerniglia","year":"1992","journal-title":"Biodegradation"},{"issue":"2","key":"ref5","doi-asserted-by":"crossref","first-page":"510","DOI":"10.1128\/MMBR.00047-05","article-title":"Biology of <italic>Pseudomonas stutzeri<\/italic>","volume":"70","author":"J Lalucat","year":"2006","journal-title":"Microbiol Mol Biol Rev"},{"issue":"4","key":"ref6","doi-asserted-by":"crossref","first-page":"1754","DOI":"10.1128\/AEM.71.4.1754-1764.2005","article-title":"Web-type evolution of <italic>Rhodococcus<\/italic> gene clusters associated with utilization of naphthalene","volume":"71","author":"LA Kulakov","year":"2005","journal-title":"Appl Environ Microbiol"},{"issue":"3","key":"ref7","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1016\/j.copbio.2005.04.007","article-title":"Biodegradation and <italic>Rhodococcus<\/italic>- masters of catabolic versatility","volume":"16","author":"MJ Larkin","year":"2005","journal-title":"Curr Opin Biotechnol"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/S0065-2164(06)59001-X","article-title":"Biodegradation by members of the genus <italic>Rhodococcus<\/italic>: biochemistry, physiology, and genetic adaptation","volume":"59","author":"MJ Larkin","year":"2006","journal-title":"Adv Appl Microbiol"},{"issue":"42","key":"ref9","doi-asserted-by":"crossref","first-page":"15582","DOI":"10.1073\/pnas.0607048103","article-title":"The complete genome of <italic>Rhodococcus<\/italic> sp. RHA1 provides insights into a catabolic powerhouse","volume":"103","author":"MP McLeod","year":"2006","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"3","key":"ref10","first-page":"255","article-title":"Harnessing the catabolic diversity of rhodococci for environmental and biotechnological applications","volume":"7","author":"R van der Geize","year":"2004","journal-title":"Microbiology"},{"key":"ref11","first-page":"231","article-title":"Biology of <italic>Rhodococcus<\/italic>","author":"MS Kuyukina","year":"2010"},{"key":"ref12","article-title":"Biology of <italic>Rhodococcus<\/italic>","author":"HM Alvarez","year":"2010"},{"issue":"2","key":"ref13","doi-asserted-by":"crossref","first-page":"518","DOI":"10.1128\/AEM.66.2.518-523.2000","article-title":"Naphthalene degradation and incorporation of naphthalene-derived carbon into biomass by the thermophile <italic>Bacillus thermoleovorans<\/italic>","volume":"66","author":"E Annweiler","year":"2000","journal-title":"Appl Environ Microbiol"},{"issue":"1","key":"ref14","doi-asserted-by":"crossref","first-page":"186","DOI":"10.1128\/AEM.69.1.186-190.2003","article-title":"Degradation of anthracene by <italic>Mycobacterium<\/italic> sp. Strain LB501T proceeds via a novel pathway, through <italic>o<\/italic>-phthalic acid","volume":"69","author":"R van Herwijnen","year":"2003","journal-title":"Applied and Environmental Microbiology"},{"issue":"1","key":"ref15","first-page":"61","article-title":"Degradation of naphthalene by thermophilic bacteria via a pathway through protocatechuic acid","volume":"3","author":"A Bubinas","year":"2008","journal-title":"Central European Journal of Biology"},{"issue":"2","key":"ref16","doi-asserted-by":"crossref","first-page":"671","DOI":"10.1007\/s00253-010-3033-1","article-title":"Functional characterization of a gene cluster involved in gentisate catabolism in <italic>Rhodococcus<\/italic> sp. strain NCIMB 12038","volume":"90","author":"TT Liu","year":"2011","journal-title":"Appl Microbiol Biotechnol"},{"issue":"6","key":"ref17","doi-asserted-by":"crossref","first-page":"1874","DOI":"10.1128\/AEM.58.6.1874-1877.1992","article-title":"Naphthalene degradation via salicylate and gentisate by <italic>Rhodococcus<\/italic> sp. strain B4","volume":"58","author":"E Grund","year":"1992","journal-title":"Appl Environ Microbiol"},{"issue":"7","key":"ref18","doi-asserted-by":"crossref","first-page":"641","DOI":"10.1016\/S0923-2508(01)01243-8","article-title":"Characterization of <italic>Rhodococcus opacus<\/italic> R7, a strain able to degrade naphthalene and o-xylene isolated from a polycyclic aromatic hydrocarbon-contaminated soil","volume":"152","author":"P Di Gennaro","year":"2001","journal-title":"Res Microbiol"},{"issue":"2","key":"ref19","doi-asserted-by":"crossref","first-page":"227","DOI":"10.1111\/j.1574-6968.1996.tb08582.x","article-title":"Isolation of <italic>Rhodococcus rhodochrous<\/italic> NCIMB13064 derivatives with new biodegradative abilities","volume":"145","author":"AN Kulakova","year":"1996","journal-title":"FEMS Microbiol Lett"},{"key":"ref20","first-page":"1","article-title":"Characterization of a protocatechuate catabolic gene cluster in <italic>Rhodococcus<\/italic> ruber OA1 involved in naphthalene degradation","author":"L Chao","year":"2015","journal-title":"Annals of Microbiology"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"1125","DOI":"10.1016\/S0032-9592(02)00245-5","article-title":"Impact of the presence of salicylate or glucose on enzyme activity and phenanthrene degradation by <italic>Pseudomonas mendocina<\/italic>","volume":"38","author":"L Tian","year":"2003","journal-title":"Process Biochemistry"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1002\/jctb.1391","article-title":"Assessment of naphthalene biodegradation efficiency of <italic>Pseudomonas<\/italic> and <italic>Burkholderia<\/italic> strains tested in soil model systems","volume":"81","author":"AE Filonov","year":"2006","journal-title":"Journal of Chemical Technology and Biotechnology"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"122","DOI":"10.1111\/j.1574-6941.2005.00001.x","article-title":"Effect of bioaugmentation and supplementary carbon sources on degradation of polycyclic aromatic hydrocarbons by a soil-derived culture","volume":"55","author":"R van Herwijnen","year":"2006","journal-title":"FEMS Microbiology Ecology"},{"issue":"2","key":"ref24","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1111\/1751-7915.12096","article-title":"Combination of degradation pathways for naphthalene utilization in <italic>Rhodococcus<\/italic> sp. strain TFB","volume":"7","author":"L Tom\u00e1s-Gallardo","year":"2014","journal-title":"Microb Biotechnol"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"231","DOI":"10.1111\/j.1574-6968.2000.tb09067.x","article-title":"Characterization of the naphthalene-degrading bacterium, <italic>Rhodococcus opacus<\/italic> M213","volume":"185","author":"I Uz","year":"2000","journal-title":"FEMS Microbiol. Letters"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"D560","DOI":"10.1093\/nar\/gkt963","article-title":"IMG 4 version of the integrated microbial genomes comparative analysis system","volume":"42","author":"VM Markowitz","year":"2014","journal-title":"Nucleic Acids Res"},{"issue":"1","key":"ref27","first-page":"e00144","article-title":"Genome Announc","volume":"1","author":"A Pathak","year":"2013","journal-title":"Draft Genome Sequence of"},{"issue":"5","key":"ref28","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1093\/embo-reports\/kve097","article-title":"Ecological fitness, genomic islands and bacterial pathogenicity. A Darwinian view of the evolution of microbes","volume":"2","author":"J Hacker","year":"2001","journal-title":"EMBO Rep"},{"issue":"2","key":"ref29","doi-asserted-by":"crossref","first-page":"376","DOI":"10.1111\/j.1574-6976.2008.00136.x","article-title":"Genomic islands: tools of bacterial horizontal gene transfer and evolution","volume":"33","author":"M Juhas","year":"2009","journal-title":"FEMS Microbiol Rev"},{"issue":"4","key":"ref30","doi-asserted-by":"crossref","first-page":"570","DOI":"10.1093\/bioinformatics\/btp690","article-title":"r2cat: synteny plots and comparative assembly","volume":"26","author":"P Husemann","year":"2010","journal-title":"Bioinformatics"},{"key":"ref31","article-title":"AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics","author":"M Duarte","year":"2014","journal-title":"Database (Oxford)"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"202","DOI":"10.1186\/1471-2164-13-202","article-title":"Comparing thousands of circular genomes using the CGView Comparison Tool","volume":"13","author":"JR Grant","year":"2012","journal-title":"BMC Genomics"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"944","DOI":"10.1093\/bioinformatics\/16.10.944","article-title":"Artemis: sequence visualization and annotation","volume":"16","author":"K Rutherford","year":"2000","journal-title":"Bioinformatics"},{"issue":"W1","key":"ref34","doi-asserted-by":"crossref","first-page":"W104","DOI":"10.1093\/nar\/gkv401","article-title":"IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis","volume":"43","author":"BK Dhillon","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"ref35","article-title":"GIPSy: Genomic island prediction software","author":"SC Soares","year":"2015","journal-title":"J Biotechnol"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"154","DOI":"10.1186\/1471-2105-10-154","article-title":"EDGAR: a software framework for the comparative analysis of prokaryotic genomes","volume":"10","author":"J Blom","year":"2009","journal-title":"BMC Bioinformatics"},{"issue":"7","key":"ref37","doi-asserted-by":"crossref","first-page":"1394","DOI":"10.1101\/gr.2289704","article-title":"Mauve: multiple alignment of conserved genomic sequence with rearrangements","volume":"14","author":"AC Darling","year":"2004","journal-title":"Genome Res"},{"issue":"5","key":"ref38","doi-asserted-by":"crossref","first-page":"572","DOI":"10.1046\/j.1462-2920.2000.00134.x","article-title":"Detection of genes for alkane and naphthalene catabolism in <italic>Rhodococcus<\/italic> sp. strain 1BN","volume":"2","author":"V Andreoni","year":"2000","journal-title":"Environ Microbiol"},{"key":"ref39","unstructured":"Pathak A. 2012. Naphthalene Degradation by Rhodococcus opacus strain M213 Isolated from a fuel oil contaminated soil. MS Thesis, School of the Environment, Florida A&amp;M University."},{"issue":"6","key":"ref40","doi-asserted-by":"crossref","first-page":"2079","DOI":"10.1128\/AEM.61.6.2079-2085.1995","article-title":"Characterization of biphenyl catabolic genes of gram-positive polychlorinated biphenyl degrader <italic>Rhodococcus<\/italic> sp. strain RHA1","volume":"61","author":"E Masai","year":"1995","journal-title":"Appl Environ Microbiol"},{"issue":"9","key":"ref41","doi-asserted-by":"crossref","first-page":"3353","DOI":"10.1128\/AEM.61.9.3353-3358.1995","article-title":"A novel transformation of polychlorinated biphenyls by <italic>Rhodococcus<\/italic> sp. strain RHA1","volume":"61","author":"M Seto","year":"1995","journal-title":"Appl Environ Microbiol"},{"issue":"24","key":"ref42","doi-asserted-by":"crossref","first-page":"7774","DOI":"10.1128\/AEM.01117-09","article-title":"Degradation of a mixture of hydrocarbons, gasoline, and diesel oil additives by <italic>Rhodococcus aetherivorans<\/italic> and <italic>Rhodococcus wratislaviensis<\/italic>","volume":"75","author":"M Auffret","year":"2009","journal-title":"Appl Environ Microbiol"},{"issue":"7","key":"ref43","doi-asserted-by":"crossref","first-page":"3270","DOI":"10.1128\/AEM.68.7.3270-3278.2002","article-title":"Monocyclic aromatic hydrocarbon degradation by <italic>Rhodococcus<\/italic> sp. strain DK17","volume":"68","author":"D Kim","year":"2002","journal-title":"Appl Environ Microbiol"},{"issue":"13","key":"ref44","doi-asserted-by":"crossref","first-page":"3543","DOI":"10.1128\/JB.00532-12","article-title":"Draft genome sequence of the nitrophenol-degrading actinomycete <italic>Rhodococcus imtechensis<\/italic> RKJ300","volume":"194","author":"S Vikram","year":"2012","journal-title":"J Bacteriol"},{"issue":"3","key":"ref45","doi-asserted-by":"crossref","first-page":"377","DOI":"10.1016\/j.femsre.2004.01.001","article-title":"Can whole genome analysis refine the taxonomy of the genus <italic>Rhodococcus<\/italic>?","volume":"28","author":"V G\u00fcrtler","year":"2004","journal-title":"FEMS Microbiol Rev"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"406","DOI":"10.3389\/fpls.2014.00406","article-title":"Use of whole genome sequences to develop a molecular phylogenetic framework for <italic>Rhodococcus fascians<\/italic> and the <italic>Rhodococcus<\/italic> genus","volume":"5","author":"AL Creason","year":"2014","journal-title":"Front Plant Sci"},{"issue":"6","key":"ref47","doi-asserted-by":"crossref","first-page":"e60","DOI":"10.1371\/journal.pcbi.0010060","article-title":"A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR\/Cas subtypes exist in prokaryotic genomes","volume":"1","author":"DH Haft","year":"2005","journal-title":"PLoS Comput Biol"},{"issue":"5819","key":"ref48","doi-asserted-by":"crossref","first-page":"1709","DOI":"10.1126\/science.1138140","article-title":"CRISPR provides acquired resistance against viruses in prokaryotes","volume":"315","author":"R Barrangou","year":"2007","journal-title":"Science"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1016\/S1369-5274(00)00250-2","article-title":"Whole genome plasticity in pathogenic bacteria","volume":"4","author":"U Dobrindt","year":"2001","journal-title":"Curr. Opin. Microbiol"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"190","DOI":"10.1186\/1471-2164-9-190","article-title":"<italic>Burkholderia pseudomallei<\/italic> genome plasticity associated with genomic island variation","volume":"9","author":"S Tumapa","year":"2008","journal-title":"BMC Genom"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"1915","DOI":"10.1093\/jac\/dkq223","article-title":"A 63 kb genomic resistance island found in a multidrug-resistant <italic>Acinetobacter baumannii<\/italic> isolate of European clone I from 1977","volume":"65","author":"L Krizova","year":"2010","journal-title":"J. Antimicrob. Chemother"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"2635","DOI":"10.1128\/AEM.01823-06","article-title":"Evidence of horizontal transfer of symbiotic genes from a <italic>Bradyrhizobium japonicum<\/italic> inoculant strain to indigenous <italic>Diazotrophs sinorhizobium<\/italic> (ensifer) fredii and <italic>Bradyrhizobium elkani<\/italic>i in a Brazilian savannah soil","volume":"73","author":"FG Barcellos","year":"2007","journal-title":"Appl. Environ. Microbiol"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"1999","DOI":"10.1128\/JB.188.5.1999-2013.2006","article-title":"The clc element of <italic>Pseudomonas<\/italic> sp. strain B13, a genomic island with various catabolic properties","volume":"188","author":"M Gaillard","year":"2006","journal-title":"J Bacteriol"},{"issue":"7","key":"ref54","doi-asserted-by":"crossref","first-page":"1949","DOI":"10.1128\/JB.182.7.1949-1955.2000","article-title":"A 90-kilobase conjugative chromosomal element coding for biphenyl and salicylate catabolism in Pseudomonas putida KF715","volume":"182","author":"A Nishi","year":"2000","journal-title":"J. Bacteriol"},{"key":"ref55","doi-asserted-by":"crossref","first-page":"4837","DOI":"10.1128\/AEM.69.8.4837-4845.2003","article-title":"The biphenyl- and 4-chlorobiphenyl-catabolic transposon Tn4371, a member of a new family of genomic islands related to IncP and Ti plasmids","volume":"69","author":"A Toussaint","year":"2003","journal-title":"Appl Environ Microb"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"4292","DOI":"10.1128\/JB.05252-11","article-title":"Complete genome sequence of the polycyclic aromatic hydrocarbon-degrading bacterium<italic>Alteromonas<\/italic> sp. strain SN2","volume":"193","author":"HM Jin","year":"2011","journal-title":"J. Bacteriol"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"2253","DOI":"10.1111\/j.1462-2920.2009.01947.x","article-title":"The genome of <italic>Polaromonas naphthalenivorans<\/italic> strain CJ2, isolated from coal tar-contaminated sediment, reveals physiological and metabolic versatility and evolution through extensive horizontal gene transfer","volume":"11","author":"JM Yagi","year":"2009","journal-title":"Environ. Microbiol"},{"key":"ref58","doi-asserted-by":"crossref","first-page":"125","DOI":"10.3389\/fmicb.2012.00125","article-title":"The phn Island: A New Genomic Island Encoding Catabolism of Polynuclear Aromatic Hydrocarbons","volume":"3","author":"WJ Hickey","year":"2012","journal-title":"Front Microbiol"},{"key":"ref59","doi-asserted-by":"crossref","first-page":"299","DOI":"10.1038\/35012500","article-title":"Lateral gene transfer and the nature of bacterial innovation","volume":"18","author":"H Ochman","year":"2000","journal-title":"Nature"},{"key":"ref60","unstructured":"Pathak A, Cooper B, Wafula D, Ogram A, Chauhan A. 2011. Evidence that Rhodococcus opacus strain M213 degrades naphthalene via a previously undescribed metabolic pathway. Strategic Environmental Research and Development Program (SERDP) Symposium, Washington, DC."},{"key":"ref61","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1007\/s10532-007-9117-7","article-title":"Conjugative transfer of preferential utilization of aromatic compounds from <italic>Pseudomonas putida<\/italic> CSV86","volume":"19","author":"A Basu","year":"2008","journal-title":"Biodegradation"},{"issue":"1","key":"ref62","doi-asserted-by":"crossref","first-page":"e00234","DOI":"10.1128\/genomeA.00234-12","article-title":"Genome Sequence of Naphthalene-Degrading Soil Bacterium <italic>Pseudomonas putida<\/italic> CSV86","volume":"1","author":"PS Phale","year":"2013","journal-title":"Genome Announc"},{"issue":"19","key":"ref63","doi-asserted-by":"crossref","first-page":"6200","DOI":"10.1128\/JB.181.19.6200-6204.1999","article-title":"Purification and characterization of a novel naphthalene dioxygenase from <italic>Rhodococcus<\/italic> sp. strain NCIMB12038","volume":"181","author":"MJ Larkin","year":"1999","journal-title":"J Bacteriol"},{"key":"ref64","first-page":"182","article-title":"Microbial degradation of organic compounds","author":"DT Gibson","year":"1984"},{"key":"ref65","article-title":"Environmental photochemistry","author":"B Pierre","year":"1999"},{"issue":"3","key":"ref66","doi-asserted-by":"crossref","first-page":"766","DOI":"10.1016\/j.bbrc.2007.04.009","article-title":"Requirement of duplicated operons for maximal metabolism of phthalate by <italic>Rhodococcus<\/italic> sp. strain DK17","volume":"357","author":"KY Choi","year":"2007","journal-title":"Biochem Biophys Res Commun"},{"issue":"16","key":"ref67","doi-asserted-by":"crossref","first-page":"4440","DOI":"10.1128\/JB.00844-12","article-title":"Draft genome sequence and comparative analysis of the superb aromatic-hydrocarbon degrader <italic>Rhodococcus<\/italic> sp. strain DK17","volume":"194","author":"M Yoo","year":"2012","journal-title":"J Bacteriol"},{"key":"ref68","doi-asserted-by":"crossref","first-page":"351","DOI":"10.1186\/1471-2164-10-351","article-title":"Metabolic analysis of the soil microbe <italic>Dechloromonas aromatica<\/italic> str. RCB: indications of a surprisingly complex life-style and cryptic anaerobic pathways for aromatic degradation","volume":"10","author":"KK Salinero","year":"2009","journal-title":"BMC Genomics"},{"issue":"15","key":"ref69","doi-asserted-by":"crossref","first-page":"4165","DOI":"10.1128\/JB.182.15.4165-4172.2000","article-title":"Characterization of a second tfd gene cluster for chlorophenol and chlorocatechol metabolism on plasmid pJP4 in <italic>Ralstonia eutropha<\/italic> JMP134(pJP4)","volume":"182","author":"CM Laemmli","year":"2000","journal-title":"J Bacteriol"},{"issue":"18","key":"ref70","doi-asserted-by":"crossref","first-page":"5268","DOI":"10.1128\/JB.183.18.5268-5278.2001","article-title":"Two similar gene clusters coding for enzymes of a new type of aerobic 2-aminobenzoate (anthranilate) metabolism in the bacterium <italic>Azoarcus evansii<\/italic>","volume":"183","author":"K Sch\u00fchle","year":"2001","journal-title":"J Bacteriol"},{"issue":"20","key":"ref71","doi-asserted-by":"crossref","first-page":"5714","DOI":"10.1128\/JB.184.20.5714-5722.2002","article-title":"Differential expression of two catechol 1,2-dioxygenases in <italic>Burkholderia<\/italic> sp. strain TH2","volume":"184","author":"K Suzuki","year":"2002","journal-title":"J Bacteriol"},{"issue":"2","key":"ref72","doi-asserted-by":"crossref","first-page":"957","DOI":"10.1128\/AEM.68.2.957-962.2002","article-title":"Coexistence of two distinct copies of naphthalene degradation genes in <italic>Pseudomonas<\/italic> strains isolated from the western Mediterranean region","volume":"68","author":"M Ferrero","year":"2002","journal-title":"Appl Environ Microbiol"},{"key":"ref73","first-page":"115","article-title":"Nucleic Acid Techniques in Bacterial Systematics","author":"DJ Lane","year":"1991"},{"issue":"4","key":"ref74","doi-asserted-by":"crossref","first-page":"472","DOI":"10.1046\/j.1365-2672.1999.00824.x","article-title":"Identification and environmental detection of <italic>Rhodococcus<\/italic> species by 16S rDNA-targeted PCR","volume":"87","author":"KS Bell","year":"1999","journal-title":"J Appl Microbiol"},{"issue":"7","key":"ref75","doi-asserted-by":"crossref","first-page":"395","DOI":"10.1016\/j.micres.2011.12.002","article-title":"Characterization of <italic>Gordonia<\/italic> sp. strain CC-NAPH129-6 capable of naphthalene degradation","volume":"167","author":"CL Lin","year":"2012","journal-title":"Microbiol. Res"},{"issue":"2","key":"ref76","doi-asserted-by":"crossref","first-page":"474","DOI":"10.1007\/s00253-006-0481-8","article-title":"Genetic and biochemical characterization of the dioxygenase involved in lateral deoxygenation of dibenzofuran from <italic>Rhodococcus opacus<\/italic> strain SAO101","volume":"73","author":"N Kimura","year":"2006","journal-title":"Appl Microbiol Biotechnol"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0161032","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,9,25]],"date-time":"2020-09-25T06:58:53Z","timestamp":1601017133000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0161032"}},"subtitle":[],"editor":[{"given":"Marie-Joelle","family":"Virolle","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2016,8,17]]},"references-count":76,"journal-issue":{"issue":"8","published-online":{"date-parts":[[2016,8,17]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0161032","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,8,17]]}}}