Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing.
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 12C- or 13C-labeled phenanthrene, and soil DNA was extracted on days 3, 6 and 9. Terminal restriction...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2015-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC4476716?pdf=render |
| _version_ | 1818140962676801536 |
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| author | Longfei Jiang Mengke Song Chunling Luo Dayi Zhang Gan Zhang |
| author_facet | Longfei Jiang Mengke Song Chunling Luo Dayi Zhang Gan Zhang |
| author_sort | Longfei Jiang |
| collection | DOAJ |
| description | 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 12C- or 13C-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 13C-labeled contaminant. 16S rRNA sequencing of the 13C-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-RHDα genes were identified in 13C-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. |
| first_indexed | 2024-12-11T10:52:19Z |
| format | Article |
| id | doaj.art-42415f7a79c648cbbf6a62bd5ae133be |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-11T10:52:19Z |
| publishDate | 2015-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-42415f7a79c648cbbf6a62bd5ae133be2022-12-22T01:10:14ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01106e013084610.1371/journal.pone.0130846Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing.Longfei JiangMengke SongChunling LuoDayi ZhangGan ZhangMicroorganisms 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 12C- or 13C-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 13C-labeled contaminant. 16S rRNA sequencing of the 13C-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-RHDα genes were identified in 13C-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.http://europepmc.org/articles/PMC4476716?pdf=render |
| spellingShingle | Longfei Jiang Mengke Song Chunling Luo Dayi Zhang Gan Zhang Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. PLoS ONE |
| title | Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. |
| title_full | Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. |
| title_fullStr | Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. |
| title_full_unstemmed | Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. |
| title_short | Novel Phenanthrene-Degrading Bacteria Identified by DNA-Stable Isotope Probing. |
| title_sort | novel phenanthrene degrading bacteria identified by dna stable isotope probing |
| url | http://europepmc.org/articles/PMC4476716?pdf=render |
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