title: Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation.
abstract: Discerning network interactions among different species/populations in microbial communities has evoked substantial interests in recent years, but little information is available about temporal dynamics of microbial network interactions in response to environmental perturbations. Here, 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. Particularly, 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.affiliation: CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences (CAS), Beijing, China.|Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.
authors.forename: Ye
authors.initials: Y
authors.lastname: Deng
authors.affiliation: Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.
authors.forename: Ping
authors.initials: P
authors.lastname: Zhang
authors.affiliation: Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.
authors.forename: Yujia
authors.initials: Y
authors.lastname: Qin
authors.affiliation: Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.
authors.forename: Qichao
authors.initials: Q
authors.lastname: Tu
authors.affiliation: State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, China.
authors.forename: Yunfeng
authors.initials: Y
authors.lastname: Yang
authors.affiliation: Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.
authors.forename: Zhili
authors.initials: Z
authors.lastname: He
authors.affiliation: BioSciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA.
authors.forename: Christopher Warren
authors.initials: CW
authors.lastname: Schadt
authors.affiliation: Institute for Environmental Genomics and Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK, USA.|State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, China.|Earth Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
authors.forename: Jizhong
authors.initials: J
authors.lastname: Zhou
mesh_terms: D001419:Bacteria / Q000235:genetics / Q000378:metabolism*; D001673:Biodegradation, Environmental; D017753:Ecosystem; D060587:Groundwater / Q000382:microbiology*; D064307:Microbiota / Q000235:genetics; D010802:Phylogeny; D010938:Plant Oils / Q000378:metabolism*; D014501:Uranium / Q000378:metabolism*
chemical_list: D010938:Plant Oils; D014501:Uranium