Literature DB >> 24550501

Stochasticity, succession, and environmental perturbations in a fluidic ecosystem.

Jizhong Zhou1, Ye Deng, Ping Zhang, Kai Xue, Yuting Liang, Joy D Van Nostrand, Yunfeng Yang, Zhili He, Liyou Wu, David A Stahl, Terry C Hazen, James M Tiedje, Adam P Arkin.   

Abstract

Unraveling the drivers of community structure and succession in response to environmental change is a central goal in ecology. Although the mechanisms shaping community structure have been intensively examined, those controlling ecological succession remain elusive. To understand the relative importance of stochastic and deterministic processes in mediating microbial community succession, a unique framework composed of four different cases was developed for fluidic and nonfluidic ecosystems. The framework was then tested for one fluidic ecosystem: a groundwater system perturbed by adding emulsified vegetable oil (EVO) for uranium immobilization. Our results revealed that groundwater microbial community diverged substantially away from the initial community after EVO amendment and eventually converged to a new community state, which was closely clustered with its initial state. However, their composition and structure were significantly different from each other. Null model analysis indicated that both deterministic and stochastic processes played important roles in controlling the assembly and succession of the groundwater microbial community, but their relative importance was time dependent. Additionally, consistent with the proposed conceptual framework but contradictory to conventional wisdom, the community succession responding to EVO amendment was primarily controlled by stochastic rather than deterministic processes. During the middle phase of the succession, the roles of stochastic processes in controlling community composition increased substantially, ranging from 81.3% to 92.0%. Finally, there are limited successional studies available to support different cases in the conceptual framework, but further well-replicated explicit time-series experiments are needed to understand the relative importance of deterministic and stochastic processes in controlling community succession.

Entities:  

Keywords:  GeoChip; community assembly; disturbances; metagenomics; remediation

Mesh:

Substances:

Year:  2014        PMID: 24550501      PMCID: PMC3948316          DOI: 10.1073/pnas.1324044111

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  44 in total

1.  Community assembly and invasion: an experimental test of neutral versus niche processes.

Authors:  Joseph Fargione; Cynthia S Brown; David Tilman
Journal:  Proc Natl Acad Sci U S A       Date:  2003-07-03       Impact factor: 11.205

2.  Niche tradeoffs, neutrality, and community structure: a stochastic theory of resource competition, invasion, and community assembly.

Authors:  David Tilman
Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-08       Impact factor: 11.205

3.  Stochastic and deterministic assembly processes in subsurface microbial communities.

Authors:  James C Stegen; Xueju Lin; Allan E Konopka; James K Fredrickson
Journal:  ISME J       Date:  2012-03-29       Impact factor: 10.302

4.  Disentangling the drivers of β diversity along latitudinal and elevational gradients.

Authors:  Nathan J B Kraft; Liza S Comita; Jonathan M Chase; Nathan J Sanders; Nathan G Swenson; Thomas O Crist; James C Stegen; Mark Vellend; Brad Boyle; Marti J Anderson; Howard V Cornell; Kendi F Davies; Amy L Freestone; Brian D Inouye; Susan P Harrison; Jonathan A Myers
Journal:  Science       Date:  2011-09-23       Impact factor: 47.728

5.  Combined niche and neutral effects in a microbial wastewater treatment community.

Authors:  Irina Dana Ofiteru; Mary Lunn; Thomas P Curtis; George F Wells; Craig S Criddle; Christopher A Francis; William T Sloan
Journal:  Proc Natl Acad Sci U S A       Date:  2010-08-12       Impact factor: 11.205

6.  Null model analysis of species associations using abundance data.

Authors:  Werner Ulrich; Nicholas J Gotelli
Journal:  Ecology       Date:  2010-11       Impact factor: 5.499

7.  GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes.

Authors:  Zhili He; Terry J Gentry; Christopher W Schadt; Liyou Wu; Jost Liebich; Song C Chong; Zhijian Huang; Weimin Wu; Baohua Gu; Phil Jardine; Craig Criddle; Jizhong Zhou
Journal:  ISME J       Date:  2007-05       Impact factor: 10.302

8.  In situ bioreduction of uranium (VI) to submicromolar levels and reoxidation by dissolved oxygen.

Authors:  Wei-Min Wu; Jack Carley; Jian Luo; Matthew A Ginder-Vogel; Erick Cardenas; Mary Beth Leigh; Chiachi Hwang; Shelly D Kelly; Chuanmin Ruan; Liyou Wu; Joy Van Nostrand; Terry Gentry; Kenneth Lowe; Tonia Mehlhorn; Sue Carroll; Wensui Luo; Matthew W Fields; Baohua Gu; David Watson; Kenneth M Kemner; Terence Marsh; James Tiedje; Jizhong Zhou; Scott Fendorf; Peter K Kitanidis; Philip M Jardine; Craig S Criddle
Journal:  Environ Sci Technol       Date:  2007-08-15       Impact factor: 9.028

9.  Local and regional factors influencing bacterial community assembly.

Authors:  Eva S Lindström; Silke Langenheder
Journal:  Environ Microbiol Rep       Date:  2011-04-20       Impact factor: 3.541

10.  Four opportunities for studies of ecological succession.

Authors:  Karel Prach; Lawrence R Walker
Journal:  Trends Ecol Evol       Date:  2011-02-02       Impact factor: 17.712

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  123 in total

1.  Disentangling mechanisms that mediate the balance between stochastic and deterministic processes in microbial succession.

Authors:  Francisco Dini-Andreote; James C Stegen; Jan Dirk van Elsas; Joana Falcão Salles
Journal:  Proc Natl Acad Sci U S A       Date:  2015-03-02       Impact factor: 11.205

2.  A general framework for quantitatively assessing ecological stochasticity.

Authors:  Daliang Ning; Ye Deng; James M Tiedje; Jizhong Zhou
Journal:  Proc Natl Acad Sci U S A       Date:  2019-08-07       Impact factor: 11.205

3.  Phycosphere Microbial Succession Patterns and Assembly Mechanisms in a Marine Dinoflagellate Bloom.

Authors:  Jin Zhou; Guo-Fu Chen; Ke-Zhen Ying; Hui Jin; Jun-Ting Song; Zhong-Hua Cai
Journal:  Appl Environ Microbiol       Date:  2019-07-18       Impact factor: 4.792

4.  Linking the development and functioning of a carnivorous pitcher plant's microbial digestive community.

Authors:  David W Armitage
Journal:  ISME J       Date:  2017-06-23       Impact factor: 10.302

5.  Assembly and Tracking of Microbial Community Development within a Microwell Array Platform.

Authors:  Andrea C Timm; Michelle C Halsted; Jared L Wilmoth; Scott T Retterer
Journal:  J Vis Exp       Date:  2017-06-06       Impact factor: 1.355

6.  Discordant Temporal Turnovers of Sediment Bacterial and Eukaryotic Communities in Response to Dredging: Nonresilience and Functional Changes.

Authors:  Na Zhang; Xian Xiao; Meng Pei; Xiang Liu; Yuting Liang
Journal:  Appl Environ Microbiol       Date:  2016-12-15       Impact factor: 4.792

7.  Contrasting Ecological Processes and Functional Compositions Between Intestinal Bacterial Community in Healthy and Diseased Shrimp.

Authors:  Jinyong Zhu; Wenfang Dai; Qiongfen Qiu; Chunming Dong; Jinjie Zhang; Jinbo Xiong
Journal:  Microb Ecol       Date:  2016-08-18       Impact factor: 4.552

8.  Distance-Decay Relationship for Biological Wastewater Treatment Plants.

Authors:  Xiaohui Wang; Xianghua Wen; Ye Deng; Yu Xia; Yunfeng Yang; Jizhong Zhou
Journal:  Appl Environ Microbiol       Date:  2016-07-29       Impact factor: 4.792

9.  Warming and nutrient enrichment in combination increase stochasticity and beta diversity of bacterioplankton assemblages across freshwater mesocosms.

Authors:  Lijuan Ren; Dan He; Zhen Chen; Erik Jeppesen; Torben L Lauridsen; Martin Søndergaard; Zhengwen Liu; Qinglong L Wu
Journal:  ISME J       Date:  2016-12-09       Impact factor: 10.302

Review 10.  Microbial diversity--exploration of natural ecosystems and microbiomes.

Authors:  Sean M Gibbons; Jack A Gilbert
Journal:  Curr Opin Genet Dev       Date:  2015-11-18       Impact factor: 5.578

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