Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach

Abstract There has been little study of effects of disturbance on soil biota combining closely controlled experimental conditions and DNA-based methods. We sampled pots of soil at varying times following an initial simulated mass mortality event. Soil DNA was extracted at intervals up to 24 weeks af...

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Autores principales:	Soobeom Choi, Hokyung Song, Binu M. Tripathi, Dorsaf Kerfahi, Hyoki Kim, Jonathan M. Adams
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/13855abb19714f1f994f2150bfa80043
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spelling	oai:doaj.org-article:13855abb19714f1f994f2150bfa800432021-12-02T16:06:00ZEffect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach10.1038/s41598-017-02262-62045-2322https://doaj.org/article/13855abb19714f1f994f2150bfa800432017-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-02262-6https://doaj.org/toc/2045-2322Abstract There has been little study of effects of disturbance on soil biota combining closely controlled experimental conditions and DNA-based methods. We sampled pots of soil at varying times following an initial simulated mass mortality event. Soil DNA was extracted at intervals up to 24 weeks after the event, and shotgun metagenomes sequenced using NextSeq. Compared to initial conditions, we found: consistent, sequential changes in functional metagenome and community structure over time, indicating successional niche differentiation amongst soil biota. As predicted, early successional systems had greater abundance of genes associated with motility, but fewer genes relating to DNA/RNA/protein metabolism, cell division and cell cycle. Contrary to predictions, there were no significant differences in cell signaling, virulence and defense-related genes. Also, stress related genes were less abundant in later succession. The early successional system had lower taxonomic diversity but higher functional gene diversity. Over time, community characteristics changed progressively, but by the end of the experiment had not returned to the ‘original’ state of the system before disturbance. Results indicated a predictable sequence of gene functions and taxa following disturbance, analogous to ecosystem succession for large organisms. It is unclear if and when the system would return to its pre-disturbance state.Soobeom ChoiHokyung SongBinu M. TripathiDorsaf KerfahiHyoki KimJonathan M. AdamsNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-15 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Soobeom Choi Hokyung Song Binu M. Tripathi Dorsaf Kerfahi Hyoki Kim Jonathan M. Adams Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
description	Abstract There has been little study of effects of disturbance on soil biota combining closely controlled experimental conditions and DNA-based methods. We sampled pots of soil at varying times following an initial simulated mass mortality event. Soil DNA was extracted at intervals up to 24 weeks after the event, and shotgun metagenomes sequenced using NextSeq. Compared to initial conditions, we found: consistent, sequential changes in functional metagenome and community structure over time, indicating successional niche differentiation amongst soil biota. As predicted, early successional systems had greater abundance of genes associated with motility, but fewer genes relating to DNA/RNA/protein metabolism, cell division and cell cycle. Contrary to predictions, there were no significant differences in cell signaling, virulence and defense-related genes. Also, stress related genes were less abundant in later succession. The early successional system had lower taxonomic diversity but higher functional gene diversity. Over time, community characteristics changed progressively, but by the end of the experiment had not returned to the ‘original’ state of the system before disturbance. Results indicated a predictable sequence of gene functions and taxa following disturbance, analogous to ecosystem succession for large organisms. It is unclear if and when the system would return to its pre-disturbance state.
format	article
author	Soobeom Choi Hokyung Song Binu M. Tripathi Dorsaf Kerfahi Hyoki Kim Jonathan M. Adams
author_facet	Soobeom Choi Hokyung Song Binu M. Tripathi Dorsaf Kerfahi Hyoki Kim Jonathan M. Adams
author_sort	Soobeom Choi
title	Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
title_short	Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
title_full	Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
title_fullStr	Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
title_full_unstemmed	Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
title_sort	effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/13855abb19714f1f994f2150bfa80043
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Effect of experimental soil disturbance and recovery on structure and function of soil community: a metagenomic and metagenetic approach

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