Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a
<p>Abstract</p> <p>Background</p> <p>Bacteria of the genus <it>Arthrobacter</it> are ubiquitous in soil environments and can be considered as true survivalists. <it>Arthrobacter</it> sp. strain Rue61a is an isolate from sewage sludge able to util...
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| Format: | Article |
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BMC
2012-10-01
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| Series: | BMC Genomics |
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| Online Access: | http://www.biomedcentral.com/1471-2164/13/534 |
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| author | Niewerth Heiko Schuldes Jörg Parschat Katja Kiefer Patrick Vorholt Julia A Daniel Rolf Fetzner Susanne |
| author_facet | Niewerth Heiko Schuldes Jörg Parschat Katja Kiefer Patrick Vorholt Julia A Daniel Rolf Fetzner Susanne |
| author_sort | Niewerth Heiko |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Bacteria of the genus <it>Arthrobacter</it> are ubiquitous in soil environments and can be considered as true survivalists. <it>Arthrobacter</it> sp. strain Rue61a is an isolate from sewage sludge able to utilize quinaldine (2-methylquinoline) as sole carbon and energy source. The genome provides insight into the molecular basis of the versatility and robustness of this environmental <it>Arthrobacter</it> strain.</p> <p>Results</p> <p>The genome of <it>Arthrobacter</it> sp. Rue61a consists of a single circular chromosome of 4,736,495 bp with an average G + C content of 62.32%, the circular 231,551-bp plasmid pARUE232, and the linear 112,992-bp plasmid pARUE113 that was already published. Plasmid pARUE232 is proposed to contribute to the resistance of <it>Arthrobacter</it> sp. Rue61a to arsenate and Pb<sup>2+</sup>, whereas the linear plasmid confers the ability to convert quinaldine to anthranilate. Remarkably, degradation of anthranilate exclusively proceeds via a CoA-thioester pathway. Apart from quinaldine utilization, strain Rue61a has a limited set of aromatic degradation pathways, enabling the utilization of 4-hydroxy-substituted aromatic carboxylic acids, which are characteristic products of lignin depolymerization, via <it>ortho</it> cleavage of protocatechuate. However, 4-hydroxyphenylacetate degradation likely proceeds via <it>meta</it> cleavage of homoprotocatechuate. The genome of strain Rue61a contains numerous genes associated with osmoprotection, and a high number of genes coding for transporters. It encodes a broad spectrum of enzymes for the uptake and utilization of various sugars and organic nitrogen compounds. <it>A</it>. <it>aurescens</it> TC-1 is the closest sequenced relative of strain Rue61a.</p> <p>Conclusions</p> <p>The genome of <it>Arthrobacter</it> sp. Rue61a reflects the saprophytic lifestyle and nutritional versatility of the organism and a strong adaptive potential to environmental stress. The circular plasmid pARUE232 and the linear plasmid pARUE113 contribute to heavy metal resistance and to the ability to degrade quinaldine, respectively.</p> |
| first_indexed | 2024-04-12T16:40:11Z |
| format | Article |
| id | doaj.art-33b760798bae49afbaab0d3b87f7ca5e |
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| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-04-12T16:40:11Z |
| publishDate | 2012-10-01 |
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| spelling | doaj.art-33b760798bae49afbaab0d3b87f7ca5e2022-12-22T03:24:48ZengBMCBMC Genomics1471-21642012-10-0113153410.1186/1471-2164-13-534Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61aNiewerth HeikoSchuldes JörgParschat KatjaKiefer PatrickVorholt Julia ADaniel RolfFetzner Susanne<p>Abstract</p> <p>Background</p> <p>Bacteria of the genus <it>Arthrobacter</it> are ubiquitous in soil environments and can be considered as true survivalists. <it>Arthrobacter</it> sp. strain Rue61a is an isolate from sewage sludge able to utilize quinaldine (2-methylquinoline) as sole carbon and energy source. The genome provides insight into the molecular basis of the versatility and robustness of this environmental <it>Arthrobacter</it> strain.</p> <p>Results</p> <p>The genome of <it>Arthrobacter</it> sp. Rue61a consists of a single circular chromosome of 4,736,495 bp with an average G + C content of 62.32%, the circular 231,551-bp plasmid pARUE232, and the linear 112,992-bp plasmid pARUE113 that was already published. Plasmid pARUE232 is proposed to contribute to the resistance of <it>Arthrobacter</it> sp. Rue61a to arsenate and Pb<sup>2+</sup>, whereas the linear plasmid confers the ability to convert quinaldine to anthranilate. Remarkably, degradation of anthranilate exclusively proceeds via a CoA-thioester pathway. Apart from quinaldine utilization, strain Rue61a has a limited set of aromatic degradation pathways, enabling the utilization of 4-hydroxy-substituted aromatic carboxylic acids, which are characteristic products of lignin depolymerization, via <it>ortho</it> cleavage of protocatechuate. However, 4-hydroxyphenylacetate degradation likely proceeds via <it>meta</it> cleavage of homoprotocatechuate. The genome of strain Rue61a contains numerous genes associated with osmoprotection, and a high number of genes coding for transporters. It encodes a broad spectrum of enzymes for the uptake and utilization of various sugars and organic nitrogen compounds. <it>A</it>. <it>aurescens</it> TC-1 is the closest sequenced relative of strain Rue61a.</p> <p>Conclusions</p> <p>The genome of <it>Arthrobacter</it> sp. Rue61a reflects the saprophytic lifestyle and nutritional versatility of the organism and a strong adaptive potential to environmental stress. The circular plasmid pARUE232 and the linear plasmid pARUE113 contribute to heavy metal resistance and to the ability to degrade quinaldine, respectively.</p>http://www.biomedcentral.com/1471-2164/13/534<it>Arthrobacter</it> sp.Soil bacteriumSaprophyteBiodegradation2-MethylquinolineHeavy metal resistance |
| spellingShingle | Niewerth Heiko Schuldes Jörg Parschat Katja Kiefer Patrick Vorholt Julia A Daniel Rolf Fetzner Susanne Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a BMC Genomics <it>Arthrobacter</it> sp. Soil bacterium Saprophyte Biodegradation 2-Methylquinoline Heavy metal resistance |
| title | Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a |
| title_full | Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a |
| title_fullStr | Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a |
| title_full_unstemmed | Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a |
| title_short | Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium <it>Arthrobacter</it> sp. Rue61a |
| title_sort | complete genome sequence and metabolic potential of the quinaldine degrading bacterium it arthrobacter it sp rue61a |
| topic | <it>Arthrobacter</it> sp. Soil bacterium Saprophyte Biodegradation 2-Methylquinoline Heavy metal resistance |
| url | http://www.biomedcentral.com/1471-2164/13/534 |
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