Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function
No systems have been reported for genetic manipulation of cold-adapted Archaea. Halorubrum lacusprofundi is an important member of Deep Lake, Antarctica (~10% of the population), and is amendable to laboratory cultivation. Here we report the development of a shuttle-vector and targeted gene-knockout...
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ftpubmed:oai:pubmedcentral.nih.gov:5052560 2023-05-15T13:54:58+02:00 Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function Liao, Y. Williams, T. J. Walsh, J. C. Ji, M. Poljak, A. Curmi, P. M. G. Duggin, I. G. Cavicchioli, R. 2016-10-06 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5052560/ http://www.ncbi.nlm.nih.gov/pubmed/27708407 https://doi.org/10.1038/srep34639 en eng Nature Publishing Group http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5052560/ http://www.ncbi.nlm.nih.gov/pubmed/27708407 http://dx.doi.org/10.1038/srep34639 Copyright © 2016, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ CC-BY Article Text 2016 ftpubmed https://doi.org/10.1038/srep34639 2016-10-23T00:06:22Z No systems have been reported for genetic manipulation of cold-adapted Archaea. Halorubrum lacusprofundi is an important member of Deep Lake, Antarctica (~10% of the population), and is amendable to laboratory cultivation. Here we report the development of a shuttle-vector and targeted gene-knockout system for this species. To investigate the function of acetamidase/formamidase genes, a class of genes not experimentally studied in Archaea, the acetamidase gene, amd3, was disrupted. The wild-type grew on acetamide as a sole source of carbon and nitrogen, but the mutant did not. Acetamidase/formamidase genes were found to form three distinct clades within a broad distribution of Archaea and Bacteria. Genes were present within lineages characterized by aerobic growth in low nutrient environments (e.g. haloarchaea, Starkeya) but absent from lineages containing anaerobes or facultative anaerobes (e.g. methanogens, Epsilonproteobacteria) or parasites of animals and plants (e.g. Chlamydiae). While acetamide is not a well characterized natural substrate, the build-up of plastic pollutants in the environment provides a potential source of introduced acetamide. In view of the extent and pattern of distribution of acetamidase/formamidase sequences within Archaea and Bacteria, we speculate that acetamide from plastics may promote the selection of amd/fmd genes in an increasing number of environmental microorganisms. Text Antarc* Antarctic Antarctica PubMed Central (PMC) Antarctic The Antarctic Scientific Reports 6 1 |
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Article Liao, Y. Williams, T. J. Walsh, J. C. Ji, M. Poljak, A. Curmi, P. M. G. Duggin, I. G. Cavicchioli, R. Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
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description |
No systems have been reported for genetic manipulation of cold-adapted Archaea. Halorubrum lacusprofundi is an important member of Deep Lake, Antarctica (~10% of the population), and is amendable to laboratory cultivation. Here we report the development of a shuttle-vector and targeted gene-knockout system for this species. To investigate the function of acetamidase/formamidase genes, a class of genes not experimentally studied in Archaea, the acetamidase gene, amd3, was disrupted. The wild-type grew on acetamide as a sole source of carbon and nitrogen, but the mutant did not. Acetamidase/formamidase genes were found to form three distinct clades within a broad distribution of Archaea and Bacteria. Genes were present within lineages characterized by aerobic growth in low nutrient environments (e.g. haloarchaea, Starkeya) but absent from lineages containing anaerobes or facultative anaerobes (e.g. methanogens, Epsilonproteobacteria) or parasites of animals and plants (e.g. Chlamydiae). While acetamide is not a well characterized natural substrate, the build-up of plastic pollutants in the environment provides a potential source of introduced acetamide. In view of the extent and pattern of distribution of acetamidase/formamidase sequences within Archaea and Bacteria, we speculate that acetamide from plastics may promote the selection of amd/fmd genes in an increasing number of environmental microorganisms. |
format |
Text |
author |
Liao, Y. Williams, T. J. Walsh, J. C. Ji, M. Poljak, A. Curmi, P. M. G. Duggin, I. G. Cavicchioli, R. |
author_facet |
Liao, Y. Williams, T. J. Walsh, J. C. Ji, M. Poljak, A. Curmi, P. M. G. Duggin, I. G. Cavicchioli, R. |
author_sort |
Liao, Y. |
title |
Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
title_short |
Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
title_full |
Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
title_fullStr |
Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
title_full_unstemmed |
Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function |
title_sort |
developing a genetic manipulation system for the antarctic archaeon, halorubrum lacusprofundi: investigating acetamidase gene function |
publisher |
Nature Publishing Group |
publishDate |
2016 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5052560/ http://www.ncbi.nlm.nih.gov/pubmed/27708407 https://doi.org/10.1038/srep34639 |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
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Antarc* Antarctic Antarctica |
genre_facet |
Antarc* Antarctic Antarctica |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5052560/ http://www.ncbi.nlm.nih.gov/pubmed/27708407 http://dx.doi.org/10.1038/srep34639 |
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Copyright © 2016, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ |
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CC-BY |
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https://doi.org/10.1038/srep34639 |
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Scientific Reports |
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6 |
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1 |
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1766261167719710720 |