Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning

He, Zhili; Zhang, Ping; Wu, Linwei; Rocha, Andrea M.; Tu, Qichao; Shi, Zhou; Wu, Bo; Qin, Yujia; Wang, Jianjun; Yan, Qingyun; Curtis, Daniel; Ning, Daliang; Van Nostrand, Joy D.; Wu, Liyou; Yang, Yunfeng; Elias, Dwayne A.; Watson, David B.; Adams, Michael W. W.; Fields, Matthew W.; Alm, Eric J.; Hazen, Terry C.; Adams, Paul D.; Arkin, Adam P.; Zhou, Jizhong; Martiny, Jennifer

doi:10.1128/mBio.02435-17

Title: Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning

Journal Article · Tue Feb 20 00:00:00 EST 2018 · mBio (Online)

DOI:https://doi.org/10.1128/mBio.02435-17· OSTI ID:1422377

He, Zhili ^[1]; Zhang, Ping ^[2]; Wu, Linwei ^[3]; Rocha, Andrea M. ^[4];

^[2]; Shi, Zhou ^[2]; Wu, Bo ^[1]; Qin, Yujia ^[2]; Wang, Jianjun ^[2]; Yan, Qingyun ^[1]; Curtis, Daniel ^[2]; Ning, Daliang ^[2]; Van Nostrand, Joy D. ^[2]; Wu, Liyou ^[2];

^[5];

^[6];

^[6]; Adams, Michael W. W. ^[7];

^[8]; Alm, Eric J. ^[9] more »

Sun Yat-Sen Univ., Guangzhou (China); Univ. of Oklahoma, Norman, OK (United States)
Univ. of Oklahoma, Norman, OK (United States)
Univ. of Oklahoma, Norman, OK (United States); Tsinghua Univ., Beijing (China)
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Univ. of Tennessee, Knoxville, TN (United States)
Tsinghua Univ., Beijing (China)
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Univ. of Georgia, Athens, GA (United States)
Montana State Univ., Bozeman, MT (United States)
Massachusetts Inst. of Technology (MIT), Cambridge, MA (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States)
Univ. of Oklahoma, Norman, OK (United States); Tsinghua Univ., Beijing (China); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Univ. of California, Irvine, CA (United States)

Contamination from anthropogenic activities has significantly impacted Earth’s biosphere. However, knowledge about how environmental contamination affects the biodiversity of groundwater microbiomes and ecosystem functioning remains very limited. Here, we used a comprehensive functional gene array to analyze groundwater microbiomes from 69 wells at the Oak Ridge Field Research Center (Oak Ridge, TN), representing a wide pH range and uranium, nitrate, and other contaminants. We hypothesized that the functional diversity of groundwater microbiomes would decrease as environmental contamination (e.g., uranium or nitrate) increased or at low or high pH, while some specific populations capable of utilizing or resistant to those contaminants would increase, and thus, such key microbial functional genes and/or populations could be used to predict groundwater contamination and ecosystem functioning. Our results indicated that functional richness/diversity decreased as uranium (but not nitrate) increased in groundwater. In addition, about 5.9% of specific key functional populations targeted by a comprehensive functional gene array (GeoChip 5) increased significantly (P< 0.05) as uranium or nitrate increased, and their changes could be used to successfully predict uranium and nitrate contamination and ecosystem functioning. This study indicates great potential for using microbial functional genes to predict environmental contamination and ecosystem functioning. IMPORTANCEDisentangling the relationships between biodiversity and ecosystem functioning is an important but poorly understood topic in ecology. Predicting ecosystem functioning on the basis of biodiversity is even more difficult, particularly with microbial biomarkers. As an exploratory effort, this study used key microbial functional genes as biomarkers to provide predictive understanding of environmental contamination and ecosystem functioning. The results indicated that the overall functional gene richness/diversity decreased as uranium increased in groundwater, while specific key microbial guilds increased significantly as uranium or nitrate increased. These key microbial functional genes could be used to successfully predict environmental contamination and ecosystem functioning. This study represents a significant advance in using functional gene markers to predict the spatial distribution of environmental contaminants and ecosystem functioning toward predictive microbial ecology, which is an ultimate goal of microbial ecology.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725; AC02-05CH11231

OSTI ID:: 1422377

Alternate ID(s):: OSTI ID: 1466711

Journal Information:: mBio (Online), Vol. 9, Issue 1; ISSN 2150-7511

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 47 works

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