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Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa

Understanding the abundance change of certain bacterial taxa is quite important for the study of soil microbiology. However, the observed differences of relative abundances by high-throughput techniques may not accurately reflect those of the actual taxon abundances. This study investigated whether...

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Autores principales: Zhang, Zhaojing, Qu, Yuanyuan, Li, Shuzhen, Feng, Kai, Wang, Shang, Cai, Weiwei, Liang, Yuting, Li, Hui, Xu, Meiying, Yin, Huaqun, Deng, Ye
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500469/
https://www.ncbi.nlm.nih.gov/pubmed/28684789
http://dx.doi.org/10.1038/s41598-017-05260-w
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author Zhang, Zhaojing
Qu, Yuanyuan
Li, Shuzhen
Feng, Kai
Wang, Shang
Cai, Weiwei
Liang, Yuting
Li, Hui
Xu, Meiying
Yin, Huaqun
Deng, Ye
author_facet Zhang, Zhaojing
Qu, Yuanyuan
Li, Shuzhen
Feng, Kai
Wang, Shang
Cai, Weiwei
Liang, Yuting
Li, Hui
Xu, Meiying
Yin, Huaqun
Deng, Ye
author_sort Zhang, Zhaojing
collection PubMed
description Understanding the abundance change of certain bacterial taxa is quite important for the study of soil microbiology. However, the observed differences of relative abundances by high-throughput techniques may not accurately reflect those of the actual taxon abundances. This study investigated whether soil microbial abundances coupling with microbial quantities can be more informative in describing the microbial population distribution under different locations. We analyzed relative abundances of the major species in soil microbial communities from Beijing and Tibet grasslands by using 16 S rRNA high-throughput sequencing technique, and quantified the absolute bacterial cell numbers directly or indirectly by multiple culture-independent measurements, including adenosine tri-phosphate (ATP), flow cytometry (FCM), quantitative real-time PCR (qPCR), phospholipid fatty acids (PLFA) and microbial biomass Carbon (MBC). By comparison of the relative abundance and the estimated absolute abundances (EAA) of the major components in soil microbial communities, several dominant phyla, including Actinobacteria, Bacteroidetes, Verrucomicrobia, Chloroflexi, Gemmatimonates and Planctomycetes, showed significantly different trends. These results indicated that the change in EAA might be more informative in describing the dynamics of a population in a community. Further studies of soil microbes should combine the quantification and relative abundances of the microbial communities for the comparisons among various locations.
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spelling pubmed-55004692017-07-10 Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa Zhang, Zhaojing Qu, Yuanyuan Li, Shuzhen Feng, Kai Wang, Shang Cai, Weiwei Liang, Yuting Li, Hui Xu, Meiying Yin, Huaqun Deng, Ye Sci Rep Article Understanding the abundance change of certain bacterial taxa is quite important for the study of soil microbiology. However, the observed differences of relative abundances by high-throughput techniques may not accurately reflect those of the actual taxon abundances. This study investigated whether soil microbial abundances coupling with microbial quantities can be more informative in describing the microbial population distribution under different locations. We analyzed relative abundances of the major species in soil microbial communities from Beijing and Tibet grasslands by using 16 S rRNA high-throughput sequencing technique, and quantified the absolute bacterial cell numbers directly or indirectly by multiple culture-independent measurements, including adenosine tri-phosphate (ATP), flow cytometry (FCM), quantitative real-time PCR (qPCR), phospholipid fatty acids (PLFA) and microbial biomass Carbon (MBC). By comparison of the relative abundance and the estimated absolute abundances (EAA) of the major components in soil microbial communities, several dominant phyla, including Actinobacteria, Bacteroidetes, Verrucomicrobia, Chloroflexi, Gemmatimonates and Planctomycetes, showed significantly different trends. These results indicated that the change in EAA might be more informative in describing the dynamics of a population in a community. Further studies of soil microbes should combine the quantification and relative abundances of the microbial communities for the comparisons among various locations. Nature Publishing Group UK 2017-07-06 /pmc/articles/PMC5500469/ /pubmed/28684789 http://dx.doi.org/10.1038/s41598-017-05260-w Text en © The Author(s) 2017 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
Zhang, Zhaojing
Qu, Yuanyuan
Li, Shuzhen
Feng, Kai
Wang, Shang
Cai, Weiwei
Liang, Yuting
Li, Hui
Xu, Meiying
Yin, Huaqun
Deng, Ye
Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title_full Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title_fullStr Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title_full_unstemmed Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title_short Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
title_sort soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500469/
https://www.ncbi.nlm.nih.gov/pubmed/28684789
http://dx.doi.org/10.1038/s41598-017-05260-w
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