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The selective pressures on the microbial community in a metal-contaminated aquifer

In many environments, toxic compounds restrict which microorganisms persist. However, in complex mixtures of inhibitory compounds, it is challenging to determine which specific compounds cause changes in abundance and prevent some microorganisms from growing. We focused on a contaminated aquifer in...

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Autores principales: Carlson, Hans K., Price, Morgan N., Callaghan, Mark, Aaring, Alex, Chakraborty, Romy, Liu, Hualan, Kuehl, Jennifer V., Arkin, Adam P., Deutschbauer, Adam M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6461962/
https://www.ncbi.nlm.nih.gov/pubmed/30523276
http://dx.doi.org/10.1038/s41396-018-0328-1
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author Carlson, Hans K.
Price, Morgan N.
Callaghan, Mark
Aaring, Alex
Chakraborty, Romy
Liu, Hualan
Kuehl, Jennifer V.
Arkin, Adam P.
Deutschbauer, Adam M.
author_facet Carlson, Hans K.
Price, Morgan N.
Callaghan, Mark
Aaring, Alex
Chakraborty, Romy
Liu, Hualan
Kuehl, Jennifer V.
Arkin, Adam P.
Deutschbauer, Adam M.
author_sort Carlson, Hans K.
collection PubMed
description In many environments, toxic compounds restrict which microorganisms persist. However, in complex mixtures of inhibitory compounds, it is challenging to determine which specific compounds cause changes in abundance and prevent some microorganisms from growing. We focused on a contaminated aquifer in Oak Ridge, Tennessee, USA that has large gradients of pH and widely varying concentrations of uranium, nitrate, and many other inorganic ions. In the most contaminated wells, the microbial community is enriched in the Rhodanobacter genus. Rhodanobacter abundance is positively correlated with low pH and high concentrations of uranium and 13 other ions and we sought to determine which of these ions are selective pressures that favor the growth of Rhodanobacter over other taxa. Of these ions, low pH and high UO(2)(2+), Mn(2+), Al(3+), Cd(2+), Zn(2+), Co(2+), and Ni(2+) are both (a) selectively inhibitory of a Pseudomonas isolate from an uncontaminated well vs. a Rhodanobacter isolate from a contaminated well, and (b) reach toxic concentrations (for the Pseudomonas isolate) in the Rhodanobacter-dominated wells. We used mixtures of ions to simulate the groundwater conditions in the most contaminated wells and verified that few isolates aside from Rhodanobacter can tolerate these eight ions. These results clarify which ions are likely causal factors that impact the microbial community at this field site and are not merely correlated with taxonomic shifts. Furthermore, our general high-throughput approach can be applied to other environments, isolates, and conditions to systematically help identify selective pressures on microbial communities.
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spelling pubmed-64619622019-10-04 The selective pressures on the microbial community in a metal-contaminated aquifer Carlson, Hans K. Price, Morgan N. Callaghan, Mark Aaring, Alex Chakraborty, Romy Liu, Hualan Kuehl, Jennifer V. Arkin, Adam P. Deutschbauer, Adam M. ISME J Article In many environments, toxic compounds restrict which microorganisms persist. However, in complex mixtures of inhibitory compounds, it is challenging to determine which specific compounds cause changes in abundance and prevent some microorganisms from growing. We focused on a contaminated aquifer in Oak Ridge, Tennessee, USA that has large gradients of pH and widely varying concentrations of uranium, nitrate, and many other inorganic ions. In the most contaminated wells, the microbial community is enriched in the Rhodanobacter genus. Rhodanobacter abundance is positively correlated with low pH and high concentrations of uranium and 13 other ions and we sought to determine which of these ions are selective pressures that favor the growth of Rhodanobacter over other taxa. Of these ions, low pH and high UO(2)(2+), Mn(2+), Al(3+), Cd(2+), Zn(2+), Co(2+), and Ni(2+) are both (a) selectively inhibitory of a Pseudomonas isolate from an uncontaminated well vs. a Rhodanobacter isolate from a contaminated well, and (b) reach toxic concentrations (for the Pseudomonas isolate) in the Rhodanobacter-dominated wells. We used mixtures of ions to simulate the groundwater conditions in the most contaminated wells and verified that few isolates aside from Rhodanobacter can tolerate these eight ions. These results clarify which ions are likely causal factors that impact the microbial community at this field site and are not merely correlated with taxonomic shifts. Furthermore, our general high-throughput approach can be applied to other environments, isolates, and conditions to systematically help identify selective pressures on microbial communities. Nature Publishing Group UK 2018-12-06 2019-04 /pmc/articles/PMC6461962/ /pubmed/30523276 http://dx.doi.org/10.1038/s41396-018-0328-1 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Carlson, Hans K.
Price, Morgan N.
Callaghan, Mark
Aaring, Alex
Chakraborty, Romy
Liu, Hualan
Kuehl, Jennifer V.
Arkin, Adam P.
Deutschbauer, Adam M.
The selective pressures on the microbial community in a metal-contaminated aquifer
title The selective pressures on the microbial community in a metal-contaminated aquifer
title_full The selective pressures on the microbial community in a metal-contaminated aquifer
title_fullStr The selective pressures on the microbial community in a metal-contaminated aquifer
title_full_unstemmed The selective pressures on the microbial community in a metal-contaminated aquifer
title_short The selective pressures on the microbial community in a metal-contaminated aquifer
title_sort selective pressures on the microbial community in a metal-contaminated aquifer
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6461962/
https://www.ncbi.nlm.nih.gov/pubmed/30523276
http://dx.doi.org/10.1038/s41396-018-0328-1
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