{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,25]],"date-time":"2026-09-25T06:20:11Z","timestamp":1790317211499,"version":"4.1.0"},"reference-count":48,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2011,1,13]],"date-time":"2011-01-13T00:00:00Z","timestamp":1294876800000},"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":[[2011,6,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Comparative genomics of Dehalococcoides strains and an enrichment were performed using a microarray targeting genes from all available sequenced genomes of the Dehalococcoides genus. The microarray was designed with 4305 probe sets to target 98.6% of the open-reading frames from strains 195, CBDB1, BAV1 and VS. The microarrays were validated and applied to query the genomes of two recently isolated Dehalococcoides strains, ANAS1 and ANAS2, and their enrichment source (ANAS) to understand the genome\u2013physiology relationships. Strains ANAS1 and ANAS2 can both couple the reduction of trichloroethene, cis-dichloroethene (DCE) and 1,1-DCE, but not tetrachloroethene and trans-DCE with growth, whereas only strain ANAS2 couples vinyl chloride reduction to growth. Comparative genomic analysis showed that the genomes of both strains are similar to each other and to strain 195, except for genes that are within the previously defined integrated elements or high-plasticity regions. Combined results of the two isolates closely matched the results obtained using genomic DNA of the ANAS enrichment. The genome similarities, together with the distinct chlorinated ethene usage of strains ANAS1, ANAS2 and 195 demonstrate that closely phylogenetically related strains can be physiologically different. This incongruence between physiology and core genome phylogeny seems to be related to the presence of distinct reductive dehalogenase-encoding genes with assigned chlorinated ethene functions (pceA, tceA in strain 195; tceA in strain ANAS1; vcrA in strain ANAS2). Overall, the microarrays are a valuable high-throughput tool for comparative genomics of unsequenced Dehalococcoides-containing samples to provide insights into their gene content and dechlorination functions.<\/jats:p>","DOI":"10.1038\/ismej.2010.202","type":"journal-article","created":{"date-parts":[[2011,1,13]],"date-time":"2011-01-13T08:15:07Z","timestamp":1294906507000},"page":"1014-1024","source":"Crossref","is-referenced-by-count":56,"title":["Comparative genomics of two newly isolated\n                    <i>Dehalococcoides<\/i>\n                    strains and an enrichment using a genus microarray"],"prefix":"10.1093","volume":"5","author":[{"given":"Patrick K H","family":"Lee","sequence":"first","affiliation":[{"name":"Department of Civil and Environmental Engineering, University of California , Berkeley, CA ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dan","family":"Cheng","sequence":"additional","affiliation":[{"name":"Division of Environmental Science and Engineering, National University of Singapore ,","place":["Singapore"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ping","family":"Hu","sequence":"additional","affiliation":[{"name":"Ecology Department, Earth Sciences Division, Lawrence Berkeley National Laboratory , Berkeley, CA ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kimberlee A","family":"West","sequence":"additional","affiliation":[{"name":"Department of Civil and Environmental Engineering, University of California , Berkeley, CA ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gregory J","family":"Dick","sequence":"additional","affiliation":[{"name":"Department of Environmental Science, Policy, and Management, University of California , Berkeley, CA ,","place":["USA"]},{"name":"Current address: Department of Geological Sciences, University of Michigan, Ann Arbor, MI 48109, 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