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  • 2015_PLOSONE_Phenanthrene SIP

    Rights statement: © 2015 Jiang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited

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Novel phenanthrene-degrading bacteria identified by DNA-stable isotope probing

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Article numbere0130846
<mark>Journal publication date</mark>22/06/2015
<mark>Journal</mark>PLoS ONE
Issue number6
Volume10
Number of pages14
Publication statusPublished
Original languageEnglish

Abstract

Microorganisms responsible for the degradation of phenanthrene in a clean forest soil sample were identified by DNA-based stable isotope probing (SIP). The soil was artificially amended with either <sup>12</sup>C- or <sup>13</sup>C-labeled phenanthrene, and soil DNA was extracted on days 3, 6 and 9. Terminal restriction fragment length polymorphism (TRFLP) results revealed that the fragments of 219- And 241-bp in HaeIII digests were distributed throughout the gradient profile at three different sampling time points, and both fragments were more dominant in the heavy fractions of the samples exposed to the <sup>13</sup>C-labeled contaminant. 16S rRNA sequencing of the <sup>13</sup>C-enriched fraction suggested that Acidobacterium spp. within the class Acidobacteria, and Collimonas spp. within the class Betaproteobacteria, were directly involved in the uptake and degradation of phenanthrene at different times. To our knowledge, this is the first report that the genus Collimonas has the ability to degrade PAHs. Two PAH-RHD<inf>α</inf> genes were identified in <sup>13</sup>C-labeled DNA. However, isolation of pure cultures indicated that strains of Staphylococcus sp. PHE-3, Pseudomonas sp. PHE- 1, and Pseudomonas sp. PHE-2 in the soil had high phenanthrene-degrading ability. This emphasizes the role of a culture-independent method in the functional understanding of microbial communities in situ.

Bibliographic note

Date of Acceptance: 13/05/2015 Publisher version © 2015 Jiang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.