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Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes

Lake Lanier (Georgia, USA) is home to more than 11,000 microbial Operational Taxonomic Units (OTUs), many of which exhibit clear annual abundance patterns. To assess the dynamics of this microbial community, we collected time series data of 16S and 18S rRNA gene sequences, recovered from 29 plankton...

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Autores principales: Dam, Phuongan, Rodriguez-R, Luis M., Luo, Chengwei, Hatt, Janet, Tsementzi, Despina, Konstantinidis, Konstantinos T., Voit, Eberhard O.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7016141/
https://www.ncbi.nlm.nih.gov/pubmed/32051429
http://dx.doi.org/10.1038/s41598-020-58769-y
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author Dam, Phuongan
Rodriguez-R, Luis M.
Luo, Chengwei
Hatt, Janet
Tsementzi, Despina
Konstantinidis, Konstantinos T.
Voit, Eberhard O.
author_facet Dam, Phuongan
Rodriguez-R, Luis M.
Luo, Chengwei
Hatt, Janet
Tsementzi, Despina
Konstantinidis, Konstantinos T.
Voit, Eberhard O.
author_sort Dam, Phuongan
collection PubMed
description Lake Lanier (Georgia, USA) is home to more than 11,000 microbial Operational Taxonomic Units (OTUs), many of which exhibit clear annual abundance patterns. To assess the dynamics of this microbial community, we collected time series data of 16S and 18S rRNA gene sequences, recovered from 29 planktonic shotgun metagenomic datasets. Based on these data, we constructed a dynamic mathematical model of bacterial interactions in the lake and used it to analyze changes in the abundances of OTUs. The model accounts for interactions among 14 sub-communities (SCs), which are composed of OTUs blooming at the same time of the year, and three environmental factors. It captures the seasonal variations in abundances of the SCs quite well. Simulation results suggest that changes in water temperature affect the various SCs differentially and that the timing of perturbations is critical. We compared the model results with published results from Lake Mendota (Wisconsin, USA). These comparative analyses between lakes in two very different geographical locations revealed substantially more cooperation and less competition among species in the warmer Lake Lanier than in Lake Mendota.
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spelling pubmed-70161412020-02-21 Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes Dam, Phuongan Rodriguez-R, Luis M. Luo, Chengwei Hatt, Janet Tsementzi, Despina Konstantinidis, Konstantinos T. Voit, Eberhard O. Sci Rep Article Lake Lanier (Georgia, USA) is home to more than 11,000 microbial Operational Taxonomic Units (OTUs), many of which exhibit clear annual abundance patterns. To assess the dynamics of this microbial community, we collected time series data of 16S and 18S rRNA gene sequences, recovered from 29 planktonic shotgun metagenomic datasets. Based on these data, we constructed a dynamic mathematical model of bacterial interactions in the lake and used it to analyze changes in the abundances of OTUs. The model accounts for interactions among 14 sub-communities (SCs), which are composed of OTUs blooming at the same time of the year, and three environmental factors. It captures the seasonal variations in abundances of the SCs quite well. Simulation results suggest that changes in water temperature affect the various SCs differentially and that the timing of perturbations is critical. We compared the model results with published results from Lake Mendota (Wisconsin, USA). These comparative analyses between lakes in two very different geographical locations revealed substantially more cooperation and less competition among species in the warmer Lake Lanier than in Lake Mendota. Nature Publishing Group UK 2020-02-12 /pmc/articles/PMC7016141/ /pubmed/32051429 http://dx.doi.org/10.1038/s41598-020-58769-y Text en © The Author(s) 2020 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
Dam, Phuongan
Rodriguez-R, Luis M.
Luo, Chengwei
Hatt, Janet
Tsementzi, Despina
Konstantinidis, Konstantinos T.
Voit, Eberhard O.
Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title_full Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title_fullStr Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title_full_unstemmed Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title_short Model-based Comparisons of the Abundance Dynamics of Bacterial Communities in Two Lakes
title_sort model-based comparisons of the abundance dynamics of bacterial communities in two lakes
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7016141/
https://www.ncbi.nlm.nih.gov/pubmed/32051429
http://dx.doi.org/10.1038/s41598-020-58769-y
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