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Title: Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation: Competition in bioremediation system

Abstract

When trying to discern network interactions among different species/populations in microbial communities interests have been evoked in recent years, but little information is available about temporal dynamics of microbial network interactions in response to environmental perturbations. We modified the random matrix theory-based network approach to discern network succession in groundwater microbial communities in response to emulsified vegetable oil (EVO) amendment for uranium bioremediation. Groundwater microbial communities from one control and seven monitor wells were analysed with a functional gene array (GeoChip 3.0), and functional molecular ecological networks (fMENs) at different time points were reconstructed. Our results showed that the network interactions were dramatically altered by EVO amendment. Dynamic and resilient succession was evident: fairly simple at the initial stage (Day 0), increasingly complex at the middle period (Days 4, 17, 31), most complex at Day 80, and then decreasingly complex at a later stage (140–269 days). Unlike previous studies in other habitats, negative interactions predominated in a time-series fMEN, suggesting strong competition among different microbial species in the groundwater systems after EVO injection. In particular, several keystone sulfate-reducing bacteria showed strong negative interactions with their network neighbours. These results provide mechanistic understanding of the decreased phylogenetic diversity during environmental perturbations.

Authors:
 [1];  [2];  [2];  [2];  [3];  [2];  [4];  [5]
  1. Chinese Academy of Sciences (CAS), Beijing (China). CAS Key Lab. of Environmental Biotechnology; Univ. of Oklahoma, Norman, OK (United States). Inst. for Environmental Genomics and Dept. of Microbiology and Plant Biology
  2. Univ. of Oklahoma, Norman, OK (United States). Inst. for Environmental Genomics and Dept. of Microbiology and Plant Biology
  3. Tsinghua Univ., Beijing (China). State Key Joint Lab. of Environment Simulation and Pollution Control
  4. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). BioSciences Division
  5. Univ. of Oklahoma, Norman, OK (United States). Inst. for Environmental Genomics and Dept. of Microbiology and Plant Biology; Tsinghua Univ., Beijing (China). State Key Joint Lab. of Environment Simulation and Pollution Control; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Earth Sciences Division
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1325419
Grant/Contract Number:  
AC05-00OR22725; FG02-07ER64398; AC02-05CH11231; SC0004613
Resource Type:
Accepted Manuscript
Journal Name:
Environmental Microbiology
Additional Journal Information:
Journal Volume: 18; Journal Issue: 1; Journal ID: ISSN 1462-2912
Publisher:
Wiley
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Deng, Ye, Zhang, Ping, Qin, Yujia, Tu, Qichao, Yang, Yunfeng, He, Zhili, Schadt, Christopher Warren, and Zhou, Jizhong. Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation: Competition in bioremediation system. United States: N. p., 2015. Web. doi:10.1111/1462-2920.12981.
Deng, Ye, Zhang, Ping, Qin, Yujia, Tu, Qichao, Yang, Yunfeng, He, Zhili, Schadt, Christopher Warren, & Zhou, Jizhong. Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation: Competition in bioremediation system. United States. doi:https://doi.org/10.1111/1462-2920.12981
Deng, Ye, Zhang, Ping, Qin, Yujia, Tu, Qichao, Yang, Yunfeng, He, Zhili, Schadt, Christopher Warren, and Zhou, Jizhong. Tue . "Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation: Competition in bioremediation system". United States. doi:https://doi.org/10.1111/1462-2920.12981. https://www.osti.gov/servlets/purl/1325419.
@article{osti_1325419,
title = {Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation: Competition in bioremediation system},
author = {Deng, Ye and Zhang, Ping and Qin, Yujia and Tu, Qichao and Yang, Yunfeng and He, Zhili and Schadt, Christopher Warren and Zhou, Jizhong},
abstractNote = {When trying to discern network interactions among different species/populations in microbial communities interests have been evoked in recent years, but little information is available about temporal dynamics of microbial network interactions in response to environmental perturbations. We modified the random matrix theory-based network approach to discern network succession in groundwater microbial communities in response to emulsified vegetable oil (EVO) amendment for uranium bioremediation. Groundwater microbial communities from one control and seven monitor wells were analysed with a functional gene array (GeoChip 3.0), and functional molecular ecological networks (fMENs) at different time points were reconstructed. Our results showed that the network interactions were dramatically altered by EVO amendment. Dynamic and resilient succession was evident: fairly simple at the initial stage (Day 0), increasingly complex at the middle period (Days 4, 17, 31), most complex at Day 80, and then decreasingly complex at a later stage (140–269 days). Unlike previous studies in other habitats, negative interactions predominated in a time-series fMEN, suggesting strong competition among different microbial species in the groundwater systems after EVO injection. In particular, several keystone sulfate-reducing bacteria showed strong negative interactions with their network neighbours. These results provide mechanistic understanding of the decreased phylogenetic diversity during environmental perturbations.},
doi = {10.1111/1462-2920.12981},
journal = {Environmental Microbiology},
number = 1,
volume = 18,
place = {United States},
year = {2015},
month = {8}
}

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