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Title: Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China

Abstract

In this paper, paddy soils from mercury (Hg)-contaminated rice fields in Guizhou, China were studied with respect to total mercury (THg) and methylmercury (MeHg) concentrations as well as Bacterial and Archaeal community composition. Total Hg (0.25–990 μg g –1) and MeHg (1.3–30.5 ng g –1) varied between samples. Pyrosequencing (454 FLX) of the hypervariable v1–v3 regions of the 16S rRNA genes showed that Proteobacteria, Actinobacteria, Chloroflexi, Acidobacteria, Euryarchaeota, and Crenarchaeota were dominant in all samples. The Bacterial α-diversity was higher in samples with relatively Low THg and MeHg and decreased with increasing THg and MeHg concentrations. In contrast, Archaeal α-diversity increased with increasing of MeHg concentrations but did not correlate with changes in THg concentrations. Overall, the methylation gene hgcAB copy number increased with both increasing THg and MeHg concentrations. The microbial communities at High THg and High MeHg appear to be adapted by species that are both Hg resistant and carry hgcAB genes for MeHg production. The relatively high abundance of both sulfate-reducing δ- Proteobacteria and methanogenic Archaea, as well as their positive correlations with increasing THg and MeHg concentrations, suggests that these microorganisms are the primary Hg-methylators in the rice paddy soils in Guizhou, China.

Authors:
ORCiD logo [1];  [2];  [3];  [1];  [4];  [4];  [4];  [3]; ORCiD logo [1]; ORCiD logo [1]; ORCiD logo [1]; ORCiD logo [1]; ORCiD logo [1]
  1. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  2. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Chinese Academy of Science, Guiyang (China)
  3. Univ. of Oklahoma, Norman, OK (United States)
  4. Chinese Academy of Science, Guiyang (China)
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1435339
Alternate Identifier(s):
OSTI ID: 1434080; OSTI ID: 1479398
Grant/Contract Number:  
AC05-00OR22725; AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Environmental Science: Processes & Impacts
Additional Journal Information:
Journal Volume: 20; Journal Issue: 4; Journal ID: ISSN 2050-7887
Publisher:
Royal Society of Chemistry
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Mercury; methylmercury; Hg-methylation; hgcAB; rice paddy soil; pyrosequencing

Citation Formats

Vishnivetskaya, Tatiana A., Hu, Haiyan, Van Nostrand, Joy D., Wymore, Ann M., Xu, Xiaohang, Qiu, Guangle, Feng, Xinbin, Zhou, Jizhong, Brown, Steven D., Brandt, Craig C., Podar, Mircea, Gu, Baohua, and Elias, Dwayne A. Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China. United States: N. p., 2018. Web. doi:10.1039/c7em00558j.
Vishnivetskaya, Tatiana A., Hu, Haiyan, Van Nostrand, Joy D., Wymore, Ann M., Xu, Xiaohang, Qiu, Guangle, Feng, Xinbin, Zhou, Jizhong, Brown, Steven D., Brandt, Craig C., Podar, Mircea, Gu, Baohua, & Elias, Dwayne A. Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China. United States. doi:10.1039/c7em00558j.
Vishnivetskaya, Tatiana A., Hu, Haiyan, Van Nostrand, Joy D., Wymore, Ann M., Xu, Xiaohang, Qiu, Guangle, Feng, Xinbin, Zhou, Jizhong, Brown, Steven D., Brandt, Craig C., Podar, Mircea, Gu, Baohua, and Elias, Dwayne A. Mon . "Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China". United States. doi:10.1039/c7em00558j. https://www.osti.gov/servlets/purl/1435339.
@article{osti_1435339,
title = {Microbial community structure with trends in methylation gene diversity and abundance in mercury-contaminated rice paddy soils in Guizhou, China},
author = {Vishnivetskaya, Tatiana A. and Hu, Haiyan and Van Nostrand, Joy D. and Wymore, Ann M. and Xu, Xiaohang and Qiu, Guangle and Feng, Xinbin and Zhou, Jizhong and Brown, Steven D. and Brandt, Craig C. and Podar, Mircea and Gu, Baohua and Elias, Dwayne A.},
abstractNote = {In this paper, paddy soils from mercury (Hg)-contaminated rice fields in Guizhou, China were studied with respect to total mercury (THg) and methylmercury (MeHg) concentrations as well as Bacterial and Archaeal community composition. Total Hg (0.25–990 μg g–1) and MeHg (1.3–30.5 ng g–1) varied between samples. Pyrosequencing (454 FLX) of the hypervariable v1–v3 regions of the 16S rRNA genes showed that Proteobacteria, Actinobacteria, Chloroflexi, Acidobacteria, Euryarchaeota, and Crenarchaeota were dominant in all samples. The Bacterial α-diversity was higher in samples with relatively Low THg and MeHg and decreased with increasing THg and MeHg concentrations. In contrast, Archaeal α-diversity increased with increasing of MeHg concentrations but did not correlate with changes in THg concentrations. Overall, the methylation gene hgcAB copy number increased with both increasing THg and MeHg concentrations. The microbial communities at High THg and High MeHg appear to be adapted by species that are both Hg resistant and carry hgcAB genes for MeHg production. The relatively high abundance of both sulfate-reducing δ-Proteobacteria and methanogenic Archaea, as well as their positive correlations with increasing THg and MeHg concentrations, suggests that these microorganisms are the primary Hg-methylators in the rice paddy soils in Guizhou, China.},
doi = {10.1039/c7em00558j},
journal = {Environmental Science: Processes & Impacts},
issn = {2050-7887},
number = 4,
volume = 20,
place = {United States},
year = {2018},
month = {3}
}

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Lupinus albus plants acquire mercury tolerance when inoculated with an Hg-resistant Bradyrhizobium strain
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Differential expression analysis for sequence count data
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Environmental mercury contamination in China: Sources and impacts
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    Works referencing / citing this record:

    Products of Mercury Demethylation by Sulfidogens and Methanogens
    journal, November 1998

    • Pak, K.; Bartha, R.
    • Bulletin of Environmental Contamination and Toxicology, Vol. 61, Issue 5
    • DOI: 10.1007/s001289900816

    Patterns of Bacterial Diversity Along a Long-Term Mercury-Contaminated Gradient in the Paddy Soils
    journal, May 2014


    Mercury biogeochemistry: Paradigm shifts, outstanding issues and research needs
    journal, May 2013

    • Sonke, Jeroen E.; Heimbürger, Lars-Eric; Dommergue, Aurélien
    • Comptes Rendus Geoscience, Vol. 345, Issue 5-6
    • DOI: 10.1016/j.crte.2013.05.002

    Environmental mercury contamination in China: Sources and impacts
    journal, January 2007


    Accumulation of total mercury and methylmercury in rice plants collected from different mining areas in China
    journal, January 2014


    Lupinus albus plants acquire mercury tolerance when inoculated with an Hg-resistant Bradyrhizobium strain
    journal, December 2013


    Mercury pollution in Guizhou, Southwestern China — An overview
    journal, August 2008


    Volatilisation of metals and metalloids: An inherent feature of methanoarchaea?
    journal, June 2008

    • Meyer, Jörg; Michalke, Klaus; Kouril, Theresa
    • Systematic and Applied Microbiology, Vol. 31, Issue 2
    • DOI: 10.1016/j.syapm.2008.02.001

    Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation
    journal, February 2017

    • King, Andrew J.; Preheim, Sarah P.; Bailey, Kathryn L.
    • Environmental Science & Technology, Vol. 51, Issue 5
    • DOI: 10.1021/acs.est.6b04751

    Sulfate stimulation of mercury methylation in freshwater sediments
    journal, November 1992

    • Gilmour, Cynthia C.; Henry, Elizabeth A.; Mitchell, Ralph
    • Environmental Science & Technology, Vol. 26, Issue 11
    • DOI: 10.1021/es00035a029

    Role of the Bacterial Organomercury Lyase (MerB) in Controlling Methylmercury Accumulation in Mercury-Contaminated Natural Waters
    journal, August 2004

    • Schaefer, Jeffra K.; Yagi, Jane; Reinfelder, John R.
    • Environmental Science & Technology, Vol. 38, Issue 16
    • DOI: 10.1021/es049895w

    Human Exposure To Methylmercury through Rice Intake in Mercury Mining Areas, Guizhou Province, China
    journal, January 2008

    • Feng, Xinbin; Li, Ping; Qiu, Guangle
    • Environmental Science & Technology, Vol. 42, Issue 1
    • DOI: 10.1021/es071948x

    Methanogens: Principal Methylators of Mercury in Lake Periphyton
    journal, September 2011

    • Hamelin, Stéphanie; Amyot, Marc; Barkay, Tamar
    • Environmental Science & Technology, Vol. 45, Issue 18
    • DOI: 10.1021/es2010072

    GeoChip-Based Analysis of Microbial Functional Gene Diversity in a Landfill Leachate-Contaminated Aquifer
    journal, May 2012

    • Lu, Zhenmei; He, Zhili; Parisi, Victoria A.
    • Environmental Science & Technology, Vol. 46, Issue 11
    • DOI: 10.1021/es300478j

    Mercury Methylation by Novel Microorganisms from New Environments
    journal, September 2013

    • Gilmour, Cynthia C.; Podar, Mircea; Bullock, Allyson L.
    • Environmental Science & Technology, Vol. 47, Issue 20
    • DOI: 10.1021/es403075t

    Updated Emission Inventories for Speciated Atmospheric Mercury from Anthropogenic Sources in China
    journal, February 2015

    • Zhang, Lei; Wang, Shuxiao; Wang, Long
    • Environmental Science & Technology, Vol. 49, Issue 5
    • DOI: 10.1021/es504840m

    Bioaccumulation of Methylmercury versus Inorganic Mercury in Rice ( Oryza sativa L.) Grain
    journal, June 2010

    • Zhang, Hua; Feng, Xinbin; Larssen, Thorjørn
    • Environmental Science & Technology, Vol. 44, Issue 12
    • DOI: 10.1021/es903565t

    Bacterial community succession during in situ uranium bioremediation: spatial similarities along controlled flow paths
    journal, September 2008

    • Hwang, Chiachi; Wu, Weimin; Gentry, Terry J.
    • The ISME Journal, Vol. 3, Issue 1
    • DOI: 10.1038/ismej.2008.77

    QIIME allows analysis of high-throughput community sequencing data
    journal, April 2010

    • Caporaso, J. Gregory; Kuczynski, Justin; Stombaugh, Jesse
    • Nature Methods, Vol. 7, Issue 5
    • DOI: 10.1038/nmeth.f.303

    Metallomics of two microorganisms relevant to heavy metal bioremediation reveal fundamental differences in metal assimilation and utilization
    journal, January 2014

    • Lancaster, W. Andrew; Menon, Angeli Lal; Scott, Israel
    • Metallomics, Vol. 6, Issue 5
    • DOI: 10.1039/c4mt00050a

    Overview of Mercury Methylation Capacities among Anaerobic Bacteria Including Representatives of the Sulphate-Reducers: Implications for Environmental Studies
    journal, January 2009

    • Ranchou-Peyruse, M.; Monperrus, M.; Bridou, R.
    • Geomicrobiology Journal, Vol. 26, Issue 1, p. 1-8
    • DOI: 10.1080/01490450802599227

    STAMP: statistical analysis of taxonomic and functional profiles
    journal, July 2014


    Methanocella paludicola gen. nov., sp. nov., a methane-producing archaeon, the first isolate of the lineage 'Rice Cluster I', and proposal of the new archaeal order Methanocellales ord. nov.
    journal, April 2008

    • Sakai, S.; Imachi, H.; Hanada, S.
    • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 4
    • DOI: 10.1099/ijs.0.65571-0

    The Genetic Basis for Bacterial Mercury Methylation
    journal, February 2013


    Microbial Ecology of Anaerobic Digesters: The Key Players of Anaerobiosis
    journal, January 2014

    • Ali Shah, Fayyaz; Mahmood, Qaisar; Maroof Shah, Mohammad
    • The Scientific World Journal, Vol. 2014
    • DOI: 10.1155/2014/183752

    The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes
    journal, September 2008


    Differential expression analysis for sequence count data
    journal, October 2010


    In Inland China, Rice, Rather than Fish, Is the Major Pathway for Methylmercury Exposure
    journal, September 2010

    • Zhang, Hua; Feng, Xinbin; Larssen, Thorjørn
    • Environmental Health Perspectives, Vol. 118, Issue 9
    • DOI: 10.1289/ehp.1001915

    Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
    journal, April 2014


    Adsorption of Mercury(II) by Soil: Effects of pH, Chloride, and Organic Matter
    journal, January 1996


    Global mercury emissions to the atmosphere from anthropogenic and natural sources
    journal, January 2010

    • Pirrone, N.; Cinnirella, S.; Feng, X.
    • Atmospheric Chemistry and Physics, Vol. 10, Issue 13
    • DOI: 10.5194/acp-10-5951-2010