{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,5,17]],"date-time":"2024-05-17T15:32:43Z","timestamp":1715959963050},"reference-count":74,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2008,2,28]],"date-time":"2008-02-28T00:00:00Z","timestamp":1204156800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2008,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The definition and delineation of microbial species are of great importance and challenge due to the extent of evolution and diversity. Whole-genome DNA\u2013DNA hybridization is the cornerstone for defining procaryotic species relatedness, but obtaining pairwise DNA\u2013DNA reassociation values for a comprehensive phylogenetic analysis of procaryotes is tedious and time consuming. A previously described microarray format containing whole-genomic DNA (the community genome array or CGA) was rigorously evaluated as a high-throughput alternative to the traditional DNA\u2013DNA reassociation approach for delineating procaryotic species relationships. DNA similarities for multiple bacterial strains obtained with the CGA-based hybridization were comparable to those obtained with various traditional whole-genome hybridization methods (r=0.87, P&amp;lt;0.01). Significant linear relationships were also observed between the CGA-based genome similarities and those derived from small subunit (SSU) rRNA gene sequences (r=0.79, P&amp;lt;0.0001), gyrB sequences (r=0.95, P&amp;lt;0.0001) or REP- and BOX-PCR fingerprinting profiles (r=0.82, P&amp;lt;0.0001). The CGA hybridization-revealed species relationships in several representative genera, including Pseudomonas, Azoarcus and Shewanella, were largely congruent with previous classifications based on various conventional whole-genome DNA\u2013DNA reassociation, SSU rRNA and\/or gyrB analyses. These results suggest that CGA-based DNA\u2013DNA hybridization could serve as a powerful, high-throughput format for determining species relatedness among microorganisms.<\/jats:p>","DOI":"10.1038\/ismej.2008.23","type":"journal-article","created":{"date-parts":[[2008,2,28]],"date-time":"2008-02-28T13:06:13Z","timestamp":1204203973000},"page":"642-655","source":"Crossref","is-referenced-by-count":13,"title":["Microarray-based whole-genome hybridization as a tool for determining procaryotic species relatedness"],"prefix":"10.1093","volume":"2","author":[{"given":"Liyou","family":"Wu","sequence":"first","affiliation":[{"name":"Department of Botany and Microbiology, Institute for Environmental Genomics, Stephenson Research and Technology Center, University of Oklahoma , Norman, OK , USA"},{"name":"Environmental Sciences Division, Oak Ridge National Laboratory , Oak Ridge, TN , USA"},{"name":"College of Bio-Safety Science and Technology, Hunan Agricultural University , Changsha, Hunan , PR China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xueduan","family":"Liu","sequence":"additional","affiliation":[{"name":"Environmental Sciences Division, Oak Ridge National Laboratory , Oak Ridge, TN , USA"},{"name":"School of Minerals Processing & Bioengineering, Central South University, Changsha , Hunan , PR China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Matthew W","family":"Fields","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Montana State University , Bozeman, MT , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dorothea K","family":"Thompson","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Purdue University , West Lafayette, IN , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christopher E","family":"Bagwell","sequence":"additional","affiliation":[{"name":"Environmental Biotechnology Section, Westinghouse Savannah River Company , Aiken, SC , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"James M","family":"Tiedje","sequence":"additional","affiliation":[{"name":"Center for Microbial Ecology, Michigan State University , East Lansing, MI , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Terry C","family":"Hazen","sequence":"additional","affiliation":[{"name":"Earth Sciences Division, Lawrence Berkeley National Laboratory , Berkeley, CA , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jizhong","family":"Zhou","sequence":"additional","affiliation":[{"name":"Department of Botany and Microbiology, Institute for Environmental Genomics, Stephenson Research and Technology Center, University of Oklahoma , Norman, OK , USA"},{"name":"Environmental Sciences Division, Oak Ridge National Laboratory , Oak Ridge, TN , USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2008,2,28]]},"reference":[{"key":"2024020117193355900_CR1","doi-asserted-by":"publisher","first-page":"139","DOI":"10.1111\/j.1574-6968.1993.tb05949.x","article-title":"Covalently immobilized DNA plate for luminometric DNA\u2013DNA hybridization to identify viridans streptococci in under 2\u2009h","volume":"106","author":"Adnan","year":"1993","journal-title":"FEMS Microbiol Lett"},{"key":"2024020117193355900_CR2","doi-asserted-by":"publisher","first-page":"23","DOI":"10.1016\/S0723-2020(11)80133-5","article-title":"Diversity among fibrobacter isolates\u2014towards a phylogenetic classification","volume":"15","author":"Amann","year":"1992","journal-title":"Syst Appl Microbiol"},{"key":"2024020117193355900_CR3","doi-asserted-by":"publisher","first-page":"1520","DOI":"10.1126\/science.284.5419.1520","article-title":"Comparative genomics of BCG vaccines by whole-genome DNA microarray","volume":"284","author":"Behr","year":"1999","journal-title":"Science"},{"key":"2024020117193355900_CR4","doi-asserted-by":"publisher","first-page":"566","DOI":"10.1046\/j.1462-2920.2003.00450.x","article-title":"Development and validation of a diagnostic microbial microarray for methanotrophs","volume":"5","author":"Bodrossy","year":"2003","journal-title":"Environ Microbiol"},{"key":"2024020117193355900_CR5","doi-asserted-by":"publisher","first-page":"2096","DOI":"10.1128\/AEM.66.5.2096-2104.2000","article-title":"Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in Pacific northwest marine sediment communities","volume":"66","author":"Braker","year":"2000","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR6","doi-asserted-by":"publisher","first-page":"447","DOI":"10.1016\/0003-2697(69)90199-7","article-title":"Batch procedure for thermal elution of DNA from hydroxyapatite","volume":"28","author":"Brenner","year":"1969","journal-title":"Anal Biochem"},{"key":"2024020117193355900_CR7","doi-asserted-by":"publisher","first-page":"340","DOI":"10.1016\/S1369-5274(98)80039-8","article-title":"Genomics and computational molecular biology","volume":"1","author":"Brutlag","year":"1998","journal-title":"Curr Opin Microbiol"},{"key":"2024020117193355900_CR8","doi-asserted-by":"publisher","first-page":"931","DOI":"10.1099\/00207713-50-2-931","article-title":"Non-radioactive dot-blot DNA reassociation for unequivocal yeast identification","volume":"50","author":"Cardinali","year":"2000","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR9","doi-asserted-by":"publisher","first-page":"3677","DOI":"10.1128\/AEM.67.8.3677-3682.2001","article-title":"Bacterial species determination from DNA\u2013DNA hybridization by using genome fragments and DNA microarrays","volume":"67","author":"Cho","year":"2001","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR10","doi-asserted-by":"publisher","first-page":"5239","DOI":"10.1128\/JB.186.16.5239-5248.2004","article-title":"Comparative genetic diversity of Pseudomonas stutzeri genomovars, clonal structure, and phylogeny of the species","volume":"186","author":"Cladera","year":"2004","journal-title":"J Bacteriol"},{"key":"2024020117193355900_CR11","doi-asserted-by":"publisher","first-page":"457","DOI":"10.1146\/annurev.micro.56.012302.160634","article-title":"What are bacterial species?","volume":"56","author":"Cohan","year":"2002","journal-title":"Annu Rev Microbiol"},{"key":"2024020117193355900_CR12","doi-asserted-by":"crossref","first-page":"904","DOI":"10.1128\/jb.115.3.904-911.1973","article-title":"Use of a single-strand specific nuclease for analysis of bacterial and plasmid deoxyribonucleic acid homoduplexes and heteroduplexes","volume":"115","author":"Crosa","year":"1973","journal-title":"J Bacteriol"},{"key":"2024020117193355900_CR13","doi-asserted-by":"publisher","first-page":"461","DOI":"10.1007\/BF02069048","article-title":"Evaluation of membrane filter methods for DNA\u2013DNA hybridization","volume":"36","author":"De Lay","year":"1970","journal-title":"Antonie Van Leeuwenhoek J Microbiol"},{"key":"2024020117193355900_CR14","doi-asserted-by":"publisher","first-page":"680","DOI":"10.1126\/science.278.5338.680","article-title":"Exploring the metabolic and genetic control of gene expression on a genomic scale","volume":"278","author":"DeRisi","year":"1997","journal-title":"Science"},{"key":"2024020117193355900_CR15","doi-asserted-by":"publisher","first-page":"1911","DOI":"10.1128\/AEM.67.4.1911-1921.2001","article-title":"Genomic interspecies microarray hybridization: rapid discovery of three thousand genes in the maize endophyte, Klebsiella pneumoniae 342, by microarray hybridization with Escherichia coli K-12 open reading frames","volume":"67","author":"Dong","year":"2001","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR16","doi-asserted-by":"publisher","first-page":"14863","DOI":"10.1073\/pnas.95.25.14863","article-title":"Cluster analysis and display of genome-wide expression patterns","volume":"95","author":"Eisen","year":"1998","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR17","doi-asserted-by":"publisher","first-page":"224","DOI":"10.1099\/00207713-39-3-224","article-title":"Fluorometric deoxyribonucleic acid deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane-filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains","volume":"39","author":"Ezaki","year":"1989","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR18","doi-asserted-by":"publisher","first-page":"243","DOI":"10.1007\/s00248-003-1016-9","article-title":"Identification of planctomycetes with order-, genus-, and strain-specific 16S rRNA-targeted probes","volume":"47","author":"Gade","year":"2004","journal-title":"Microb Ecol"},{"key":"2024020117193355900_CR19","doi-asserted-by":"publisher","first-page":"7796","DOI":"10.1128\/JB.186.22.7796-7803.2004","article-title":"Global transcriptome analysis of the heat shock response of Shewanella oneidensis","volume":"186","author":"Gao","year":"2004","journal-title":"J Bacteriol"},{"key":"2024020117193355900_CR20","first-page":"163","volume-title":"Bergey's Manual of Systematic Bacteriology","author":"Garrity","year":"2004"},{"key":"2024020117193355900_CR21","doi-asserted-by":"publisher","first-page":"1148","DOI":"10.1139\/w98-118","article-title":"Evaluation of a microplate DNA\u2013DNA hybridization method compared with the initial renaturation method","volume":"44","author":"Goris","year":"1998","journal-title":"Can J Microbiol"},{"key":"2024020117193355900_CR22","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1007\/978-3-540-31292-5_5","volume-title":"Molecular Identification, Systematics, and Population Structure of Prokaryotes","author":"Harayama","year":"2006"},{"key":"2024020117193355900_CR23","doi-asserted-by":"publisher","first-page":"1591","DOI":"10.1099\/ijs.0.02958-0","article-title":"Comparison of 16S rRNA, nifD, recA, gyrB, rpoB and fusA genes within the family Geobacteraceae fam. nov","volume":"54","author":"Holmes","year":"2004","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR24","doi-asserted-by":"publisher","first-page":"547","DOI":"10.1101\/gr.166401","article-title":"Comparing genomes within the species Mycobacterium tuberculosis","volume":"11","author":"Kato-Maeda","year":"2001","journal-title":"Genome Res"},{"key":"2024020117193355900_CR25","first-page":"362","article-title":"A method of colorimetric DNA\u2013DNA hybridization in microplates with covalently immobilized DNA for identification of Aeromonas spp","volume":"4","author":"Kaznowski","year":"1995","journal-title":"Med Microbiol Lett"},{"key":"2024020117193355900_CR26","doi-asserted-by":"publisher","first-page":"3160","DOI":"10.1073\/pnas.0308653100","article-title":"Trends between gene content and genome size in prokaryotic species with larger genomes","volume":"101","author":"Konstantinidis","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR27","doi-asserted-by":"publisher","first-page":"504","DOI":"10.1016\/j.mib.2007.08.006","article-title":"Prokaryotic taxonomy and phylogeny in the genomic era: advancements and challenges ahead","volume":"10","author":"Konstantinidis","year":"2007","journal-title":"Curr Opin Microbiol"},{"key":"2024020117193355900_CR28","first-page":"947","article-title":"MEGA3: an integrated software for molecular evolutionary genetic analysis and sequence alignment","volume":"43","author":"Kumar","year":"2003","journal-title":"Integr Comp Biol"},{"key":"2024020117193355900_CR29","doi-asserted-by":"publisher","first-page":"4191","DOI":"10.1073\/pnas.0630387100","article-title":"Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation","volume":"100","author":"Liu","year":"2003","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR30","doi-asserted-by":"publisher","first-page":"1675","DOI":"10.1038\/nbt1296-1675","article-title":"Expression monitoring by hybridization to high-density oligonucleotide arrays","volume":"14","author":"Lockhart","year":"1996","journal-title":"Nat Biotechnol"},{"key":"2024020117193355900_CR31","doi-asserted-by":"publisher","first-page":"5064","DOI":"10.1128\/AEM.68.10.5064-5081.2002","article-title":"Oligonucleotide microarray for 16S rRNA gene-based detection of all recognized lineages of sulfate-reducing prokaryotes in the environment","volume":"68","author":"Loy","year":"2002","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR32","doi-asserted-by":"publisher","first-page":"1031","DOI":"10.1099\/ijs.0.64184-0","article-title":"Phylogenetic study and multiplex PCR-based detection of Burkholderia plantarii, Burkholderia glumae and Burkholderia gladioli using gyrB and rpoD sequences","volume":"56","author":"Maeda","year":"2006","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR33","doi-asserted-by":"publisher","first-page":"689","DOI":"10.1078\/0723202042369875","article-title":"Development of a fast DNA\u2013DNA hybridization method based on melting profiles in microplates","volume":"27","author":"Mehlen","year":"2004","journal-title":"Syst Appl Microbiol"},{"key":"2024020117193355900_CR34","doi-asserted-by":"publisher","first-page":"9853","DOI":"10.1073\/pnas.171178898","article-title":"DNA\/DNA hybridization to microarrays reveals gene-specific differences between closely related microbial genomes","volume":"98","author":"Murray","year":"2001","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR35","doi-asserted-by":"publisher","first-page":"215","DOI":"10.1099\/00221287-60-2-215","article-title":"Taxonomy of aerobic pseudomonads\u2014properties of Pseudomonas-stutzeri group","volume":"60","author":"Palleron","year":"1970","journal-title":"J Gen Microbiol"},{"key":"2024020117193355900_CR36","first-page":"151","article-title":"Use of deae-cellulose filters in the s1 nuclease method for bacterial deoxyribonucleic-acid hybridization","volume":"131","author":"Popoff","year":"1980","journal-title":"Ann Microbiol A"},{"key":"2024020117193355900_CR37","doi-asserted-by":"publisher","first-page":"665","DOI":"10.1099\/00207713-50-2-665","article-title":"Comparison of AFLP and rep-PCR genomic fingerprinting with DNA\u2013DNA homology studies: Xanthomonas as a model system","volume":"50","author":"Rademaker","year":"2000","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR38","doi-asserted-by":"publisher","first-page":"4303","DOI":"10.1128\/AEM.70.7.4303-4317.2004","article-title":"Detection of genes involved in biodegradation and biotransformation in microbial communities by using 50-mer oligonucleotide microarrays","volume":"70","author":"Rhee","year":"2004","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR39","doi-asserted-by":"publisher","first-page":"4249","DOI":"10.1128\/AEM.69.7.4249-4255.2003","article-title":"Detection and diversity assessment of Xylella fastidiosa in field-collected plant and insect samples by using 16S rRNA and gyrB sequences","volume":"69","author":"Rodrigues","year":"2003","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR40","doi-asserted-by":"publisher","first-page":"150","DOI":"10.1016\/S0723-2020(11)80294-8","article-title":"Genotypic and phenotypic diversity of Pseudomonas-stutzeri","volume":"14","author":"Rossello","year":"1991","journal-title":"Syst Appl Microbiol"},{"key":"2024020117193355900_CR41","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1007\/978-3-540-31292-5_2","volume-title":"Molecular Identification, Systematics, and Population Structure of Prokaryotes","author":"Rossello-Mora","year":"2006"},{"key":"2024020117193355900_CR42","doi-asserted-by":"publisher","first-page":"39","DOI":"10.1111\/j.1574-6976.2001.tb00571.x","article-title":"The species concept for prokaryotes","volume":"25","author":"Rossello-Mora","year":"2001","journal-title":"Fems Microbiol Rev"},{"key":"2024020117193355900_CR43","doi-asserted-by":"publisher","first-page":"14668","DOI":"10.1073\/pnas.97.26.14668","article-title":"A whole-genome microarray reveals genetic diversity among Helicobacter pylori strains","volume":"97","author":"Salama","year":"2000","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR44","first-page":"331","volume-title":"Microbial Imaging","author":"Schadt","year":"2005"},{"key":"2024020117193355900_CR45","first-page":"301","volume-title":"Microarray Biochip Technology","author":"Schena","year":"2000"},{"key":"2024020117193355900_CR46","doi-asserted-by":"publisher","first-page":"467","DOI":"10.1126\/science.270.5235.467","article-title":"Quantitative monitoring of gene-expression patterns with a complementary-DNA Microarray","volume":"270","author":"Schena","year":"1995","journal-title":"Science"},{"key":"2024020117193355900_CR47","doi-asserted-by":"publisher","first-page":"10614","DOI":"10.1073\/pnas.93.20.10614","article-title":"Parallel human genome analysis: microarray-based expression monitoring of 1000 genes","volume":"93","author":"Schena","year":"1996","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR48","doi-asserted-by":"publisher","first-page":"2013","DOI":"10.1099\/00207713-51-6-2013","article-title":"Pseudomonas sp strain KC represents a new genomovar within Pseudomonas stutzeri","volume":"51","author":"Sepulveda-Torres","year":"2001","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR49","doi-asserted-by":"publisher","first-page":"1129","DOI":"10.1099\/00207713-49-3-1129","article-title":"Taxonomic characterization of denitrifying bacteria that degrade aromatic compounds and description of Azoarcus toluvorans sp nov and Azoarcus toluclasticus sp nov","volume":"49","author":"Song","year":"1999","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR50","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1007\/978-3-540-31292-5","volume-title":"Molecular Identification, Systematics, and Population Structure of Prokaryotes","author":"Stackebrandt","year":"2006"},{"key":"2024020117193355900_CR51","first-page":"1043","article-title":"Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology","volume":"52","author":"Stackebrandt","year":"2002","journal-title":"Int J Syst Evol Microbiol"},{"key":"2024020117193355900_CR52","doi-asserted-by":"publisher","first-page":"846","DOI":"10.1099\/00207713-44-4-846","article-title":"A Place for DNA\u2013DNA reassociation and 16\u2009s ribosomal-RNA sequence-analysis in the present species definition in bacteriology","volume":"44","author":"Stackebrandt","year":"1994","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR53","doi-asserted-by":"publisher","first-page":"81","DOI":"10.3354\/ame038081","article-title":"Metal reduction at cold temperatures by Shewanella isolates from various marine environments","volume":"38","author":"Stapleton","year":"2005","journal-title":"Aquat Microb Ecol"},{"key":"2024020117193355900_CR54","doi-asserted-by":"publisher","first-page":"4673","DOI":"10.1093\/nar\/22.22.4673","article-title":"Clustal-W\u2014improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice","volume":"22","author":"Thompson","year":"1994","journal-title":"Nucleic Acids Res"},{"key":"2024020117193355900_CR55","doi-asserted-by":"publisher","first-page":"664","DOI":"10.2144\/04364RR02","article-title":"Evaluation of 50-mer oligonucleotide arrays for detecting microbial populations in environmental samples","volume":"36","author":"Tiquia","year":"2004","journal-title":"Biotechniques"},{"key":"2024020117193355900_CR56","doi-asserted-by":"publisher","first-page":"623","DOI":"10.1023\/A:1026607404744","article-title":"The role of DNA\u2013DNA hybridization and 16S rRNA gene sequencing in solving taxonomic problems by the example of the order Haloanaerobiales","volume":"69","author":"Tourova","year":"2000","journal-title":"Microbiology"},{"key":"2024020117193355900_CR57","doi-asserted-by":"publisher","first-page":"705","DOI":"10.1099\/00207713-49-2-705","article-title":"Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov","volume":"49","author":"Venkateswaran","year":"1999","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR58","doi-asserted-by":"publisher","first-page":"66","DOI":"10.1126\/science.1093857","article-title":"Environmental genome shotgun sequencing of the Sargasso Sea","volume":"304","author":"Venter","year":"2004","journal-title":"Science"},{"key":"2024020117193355900_CR59","first-page":"83","volume-title":"DNA Array Image Analysis Nuts and Bolts","author":"Verdnik","year":"2002"},{"key":"2024020117193355900_CR60","first-page":"25","article-title":"Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction","volume":"5","author":"Versalovic","year":"1994","journal-title":"Methods Mol Cell Biol"},{"key":"2024020117193355900_CR61","doi-asserted-by":"publisher","first-page":"463","DOI":"10.1099\/00207713-37-4-463","article-title":"Report of the ad hoc committee on reconciliation of approaches to bacterial systematics","volume":"37","author":"Wayne","year":"1987","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR62","doi-asserted-by":"publisher","first-page":"6578","DOI":"10.1073\/pnas.95.12.6578","article-title":"Prokaryotes: the unseen majority","volume":"95","author":"Whitman","year":"1998","journal-title":"Proc Natl Acad Sci USA"},{"key":"2024020117193355900_CR63","doi-asserted-by":"publisher","first-page":"5780","DOI":"10.1128\/AEM.67.12.5780-5790.2001","article-title":"Development and evaluation of functional gene arrays for detection of selected genes in the environment","volume":"67","author":"Wu","year":"2001","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR64","doi-asserted-by":"publisher","first-page":"6775","DOI":"10.1021\/es049508i","article-title":"Development and evaluation of microarray-based whole-genome hybridization for detection of microorganisms within the context of environmental applications","volume":"38","author":"Wu","year":"2004","journal-title":"Environ Sci Technol"},{"key":"2024020117193355900_CR65","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1099\/00207713-49-1-87","article-title":"Phylogenetic structures of the genus Acinetobacter based on gyrB sequences: comparison with the grouping by DNA\u2013DNA hybridization","volume":"49","author":"Yamamoto","year":"1999","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR66","doi-asserted-by":"crossref","first-page":"1104","DOI":"10.1128\/aem.61.3.1104-1109.1995","article-title":"PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of pseudomonas-putida strains","volume":"61","author":"Yamamoto","year":"1995","journal-title":"Appl Environ Microbiol"},{"key":"2024020117193355900_CR67","doi-asserted-by":"publisher","first-page":"506","DOI":"10.1099\/00207713-46-2-506","article-title":"Phylogenetic analysis of Acinetobacter strains based on the nucleotide sequences of gyrB genes and on the amino acid sequences of their products","volume":"46","author":"Yamamoto","year":"1996","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR68","doi-asserted-by":"publisher","first-page":"813","DOI":"10.1099\/00207713-48-3-813","article-title":"Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, ropD and 16S rRNA genes","volume":"48","author":"Yamamoto","year":"1998","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR69","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1046\/j.1462-2920.2003.00393.x","article-title":"Molecular diversity and characterization of nitrite reductase gene fragments (nirK and nirS) from nitrate- and uranium-contaminated groundwater","volume":"5","author":"Yan","year":"2003","journal-title":"Environ Microbiol"},{"key":"2024020117193355900_CR70","doi-asserted-by":"publisher","first-page":"4458","DOI":"10.1128\/JB.182.16.4458-4465.2000","article-title":"Global gene expression profiles of Bacillus subtilis grown under anaerobic conditions","volume":"182","author":"Ye","year":"2000","journal-title":"J Bacteriol"},{"key":"2024020117193355900_CR71","doi-asserted-by":"publisher","first-page":"456","DOI":"10.1007\/s00248-006-9126-9","article-title":"A nifH-based oligonucleotide microarray for functional diagnostics of nitrogen-fixing microorganisms","volume":"53","author":"Zhang","year":"2007","journal-title":"Microb Ecol"},{"key":"2024020117193355900_CR72","doi-asserted-by":"publisher","first-page":"288","DOI":"10.1016\/S1369-5274(03)00052-3","article-title":"Microarrays for bacterial detection and microbial community analysis","volume":"6","author":"Zhou","year":"2003","journal-title":"Curr Opin Microbiol"},{"key":"2024020117193355900_CR73","doi-asserted-by":"publisher","first-page":"500","DOI":"10.1099\/00207713-45-3-500","article-title":"Phylogenetic analyses of a new group of denitrifiers capable of anaerobic growth on toluene and description of Azoarcus tolulyticus sp. nov","volume":"45","author":"Zhou","year":"1995","journal-title":"Int J Syst Bacteriol"},{"key":"2024020117193355900_CR74","doi-asserted-by":"publisher","first-page":"179","DOI":"10.1099\/00207713-48-1-179","article-title":"Reclassification of Shewanella putrefaciens Owen's genomic group II as Shewanella baltica sp. nov","volume":"48","author":"Ziemke","year":"1998","journal-title":"Int J Syst Bacteriol"}],"container-title":["The ISME Journal"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/www.nature.com\/articles\/ismej200823.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/www.nature.com\/articles\/ismej200823","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/2\/6\/642\/56442025\/41396_2008_article_bfismej200823.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/www.nature.com\/articles\/ismej200823.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"},{"URL":"https:\/\/academic.oup.com\/ismej\/article-pdf\/2\/6\/642\/56442025\/41396_2008_article_bfismej200823.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,1]],"date-time":"2024-02-01T17:19:57Z","timestamp":1706807997000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/ismej\/article\/2\/6\/642\/7588460"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2008,2,28]]},"references-count":74,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2008,7,1]]}},"URL":"https:\/\/doi.org\/10.1038\/ismej.2008.23","relation":{},"ISSN":["1751-7362","1751-7370"],"issn-type":[{"value":"1751-7362","type":"print"},{"value":"1751-7370","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2008,6]]},"published":{"date-parts":[[2008,2,28]]}}}