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Title: High reactivity of deep biota under anthropogenic CO 2 injection into basalt

Abstract

Basalts are recognized as one of the major habitats on Earth, harboring diverse and active microbial populations. Inconsistently, this living component is rarely considered in engineering operations carried out in these environments. This includes carbon capture and storage (CCS) technologies that seek to offset anthropogenic CO 2 emissions into the atmosphere by burying this greenhouse gas in the subsurface. Here, we show that deep ecosystems respond quickly to field operations associated with CO 2 injections based on a microbiological survey of a basaltic CCS site. Acidic CO 2-charged groundwater results in a marked decrease (by ~ 2.5–4) in microbial richness despite observable blooms of lithoautotrophic iron-oxidizing Betaproteobacteria and degraders of aromatic compounds, which hence impact the aquifer redox state and the carbon fate. Host-basalt dissolution releases nutrients and energy sources, which sustain the growth of autotrophic and heterotrophic species whose activities may have consequences on mineral storage.

Authors:
 [1]; ORCiD logo [1];  [1];  [2];  [1];  [3];  [4];  [4];  [5];  [5];  [5];  [5];  [6];  [6];  [7];  [8];  [9];  [1]
  1. CNRS and Univ. Paris Diderot (France). Paris Inst. of Earth Physics (IPGP). Research Center on the Geological Storage of CO2
  2. Univ. Paris-Sud, Orsay (France). Inst. of Integrative Biology of the Cell
  3. CNRS and Univ. Paris Diderot (France). Paris Inst. of Earth Physics (IPGP)
  4. Helmholtz-Zentrum Muenchen-German Research Center for Environmental Health, Neuherberg (Germany). Research Unit Analytical Biogeochemistry
  5. Univ. of Iceland, Reykjavik (Iceland). Inst. of Earth Sciences
  6. Reykjavik Energy (Iceland)
  7. Univ. of Southampton (United Kingdom). Ocean and Earth Science; Columbia Univ., Palisades, NY (United States). Lamont-Doherty Earth Observatory
  8. Columbia Univ., Palisades, NY (United States). Lamont-Doherty Earth Observatory; Barnard College, New York, NY (United States)
  9. Univ. of Iceland, Reykjavik (Iceland). Inst. of Earth Sciences; Paul Sabatier Univ., Toulouse (France); Univ. College London (United Kingdom). Earth Sciences
Publication Date:
Research Org.:
Columbia Univ., Palisades, NY (United States); CNRS and Univ. Paris Diderot (France); Univ. Paris-Sud, Orsay (France)
Sponsoring Org.:
USDOE Office of Fossil Energy (FE); Total S.A. (France); Schlumberger; French Environment and Energy Management Agency (ADEME) (France); French National Research Agency (ANR) (France); European Union (EU)
OSTI Identifier:
1499988
Grant/Contract Number:  
[FE0004847; ANR-08-PCO2-003-03; ANR-14-CE01-0008-01; 624382]
Resource Type:
Accepted Manuscript
Journal Name:
Nature Communications
Additional Journal Information:
[ Journal Volume: 8]; Journal ID: ISSN 2041-1723
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
58 GEOSCIENCES; 59 BASIC BIOLOGICAL SCIENCES; carbon cycle; climate-change mitigation; microbial ecology

Citation Formats

Trias, Rosalia, Ménez, Bénédicte, le Campion, Paul, Zivanovic, Yvan, Lecourt, Léna, Lecoeuvre, Aurélien, Schmitt-Kopplin, Philippe, Uhl, Jenny, Gislason, Sigurður R., Alfreðsson, Helgi A., Mesfin, Kiflom G., Snæbjörnsdóttir, Sandra Ó., Aradóttir, Edda S., Gunnarsson, Ingvi, Matter, Juerg M., Stute, Martin, Oelkers, Eric H., and Gérard, Emmanuelle. High reactivity of deep biota under anthropogenic CO2 injection into basalt. United States: N. p., 2017. Web. doi:10.1038/s41467-017-01288-8.
Trias, Rosalia, Ménez, Bénédicte, le Campion, Paul, Zivanovic, Yvan, Lecourt, Léna, Lecoeuvre, Aurélien, Schmitt-Kopplin, Philippe, Uhl, Jenny, Gislason, Sigurður R., Alfreðsson, Helgi A., Mesfin, Kiflom G., Snæbjörnsdóttir, Sandra Ó., Aradóttir, Edda S., Gunnarsson, Ingvi, Matter, Juerg M., Stute, Martin, Oelkers, Eric H., & Gérard, Emmanuelle. High reactivity of deep biota under anthropogenic CO2 injection into basalt. United States. doi:10.1038/s41467-017-01288-8.
Trias, Rosalia, Ménez, Bénédicte, le Campion, Paul, Zivanovic, Yvan, Lecourt, Léna, Lecoeuvre, Aurélien, Schmitt-Kopplin, Philippe, Uhl, Jenny, Gislason, Sigurður R., Alfreðsson, Helgi A., Mesfin, Kiflom G., Snæbjörnsdóttir, Sandra Ó., Aradóttir, Edda S., Gunnarsson, Ingvi, Matter, Juerg M., Stute, Martin, Oelkers, Eric H., and Gérard, Emmanuelle. Fri . "High reactivity of deep biota under anthropogenic CO2 injection into basalt". United States. doi:10.1038/s41467-017-01288-8. https://www.osti.gov/servlets/purl/1499988.
@article{osti_1499988,
title = {High reactivity of deep biota under anthropogenic CO2 injection into basalt},
author = {Trias, Rosalia and Ménez, Bénédicte and le Campion, Paul and Zivanovic, Yvan and Lecourt, Léna and Lecoeuvre, Aurélien and Schmitt-Kopplin, Philippe and Uhl, Jenny and Gislason, Sigurður R. and Alfreðsson, Helgi A. and Mesfin, Kiflom G. and Snæbjörnsdóttir, Sandra Ó. and Aradóttir, Edda S. and Gunnarsson, Ingvi and Matter, Juerg M. and Stute, Martin and Oelkers, Eric H. and Gérard, Emmanuelle},
abstractNote = {Basalts are recognized as one of the major habitats on Earth, harboring diverse and active microbial populations. Inconsistently, this living component is rarely considered in engineering operations carried out in these environments. This includes carbon capture and storage (CCS) technologies that seek to offset anthropogenic CO2 emissions into the atmosphere by burying this greenhouse gas in the subsurface. Here, we show that deep ecosystems respond quickly to field operations associated with CO2 injections based on a microbiological survey of a basaltic CCS site. Acidic CO2-charged groundwater results in a marked decrease (by ~ 2.5–4) in microbial richness despite observable blooms of lithoautotrophic iron-oxidizing Betaproteobacteria and degraders of aromatic compounds, which hence impact the aquifer redox state and the carbon fate. Host-basalt dissolution releases nutrients and energy sources, which sustain the growth of autotrophic and heterotrophic species whose activities may have consequences on mineral storage.},
doi = {10.1038/s41467-017-01288-8},
journal = {Nature Communications},
number = ,
volume = [8],
place = {United States},
year = {2017},
month = {10}
}

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Works referenced in this record:

UCHIME improves sensitivity and speed of chimera detection
journal, June 2011


Microbial Oxidation of Pyrite Coupled to Nitrate Reduction in Anoxic Groundwater Sediment
journal, July 2009

  • Juncher Jørgensen, Christian; Jacobsen, Ole Stig; Elberling, Bo
  • Environmental Science & Technology, Vol. 43, Issue 13
  • DOI: 10.1021/es803417s

Natural emissions of methane from geothermal and volcanic sources in Europe
journal, August 2007


Impact of CO2 concentration on autotrophic metabolisms and carbon fate in saline aquifers – A case study
journal, October 2013

  • Dupraz, Sebastien; Fabbri, Antonin; Joulian, Catherine
  • Geochimica et Cosmochimica Acta, Vol. 119
  • DOI: 10.1016/j.gca.2013.05.027

PyNAST: a flexible tool for aligning sequences to a template alignment
journal, November 2009


Gene and translation initiation site prediction in metagenomic sequences
journal, July 2012


Universally Distributed Single-Copy Genes Indicate a Constant Rate of Horizontal Transfer
journal, August 2011


The effect of Fe-oxidizing bacteria on Fe-silicate mineral dissolution
journal, October 2001


CO2 disposal by means of silicates
journal, June 1990


Monitoring permanent CO2 storage by in situ mineral carbonation using a reactive tracer technique
journal, January 2014


New Insight into Microbial Iron Oxidation as Revealed by the Proteomic Profile of an Obligate Iron-Oxidizing Chemolithoautotroph
journal, June 2015

  • Barco, Roman A.; Emerson, David; Sylvan, Jason B.
  • Applied and Environmental Microbiology, Vol. 81, Issue 17
  • DOI: 10.1128/AEM.01374-15

Metatranscriptomic evidence of pervasive and diverse chemolithoautotrophy relevant to C, S, N and Fe cycling in a shallow alluvial aquifer
journal, March 2016

  • Jewell, Talia N. M.; Karaoz, Ulas; Brodie, Eoin L.
  • The ISME Journal, Vol. 10, Issue 9
  • DOI: 10.1038/ismej.2016.25

MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
journal, January 2015


Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
journal, September 1997

  • Altschul, Stephen F.; Madden, Thomas L.; Schäffer, Alejandro A.
  • Nucleic Acids Research, Vol. 25, Issue 17, p. 3389-3402
  • DOI: 10.1093/nar/25.17.3389

Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy
journal, June 2007

  • Wang, Q.; Garrity, G. M.; Tiedje, J. M.
  • Applied and Environmental Microbiology, Vol. 73, Issue 16
  • DOI: 10.1128/AEM.00062-07

Structural mechanism of RuBisCO activation by carbamylation of the active site lysine
journal, October 2012


Protein-SIP enables time-resolved analysis of the carbon flux in a sulfate-reducing, benzene-degrading microbial consortium
journal, July 2012

  • Taubert, Martin; Vogt, Carsten; Wubet, Tesfaye
  • The ISME Journal, Vol. 6, Issue 12
  • DOI: 10.1038/ismej.2012.68

Solving the carbon-dioxide buoyancy challenge: The design and field testing of a dissolved CO2 injection system
journal, June 2015

  • Sigfusson, Bergur; Gislason, Sigurdur R.; Matter, Juerg M.
  • International Journal of Greenhouse Gas Control, Vol. 37
  • DOI: 10.1016/j.ijggc.2015.02.022

Multiple Rubisco forms in proteobacteria: their functional significance in relation to CO2 acquisition by the CBB cycle
journal, February 2008

  • Badger, Murray Ronald; Bek, Emily Jane
  • Journal of Experimental Botany, Vol. 59, Issue 7
  • DOI: 10.1093/jxb/erm297

Methanogenic Hydrocarbon Degradation: Evidence from Field and Laboratory Studies
journal, January 2016

  • Jiménez, Núria; Richnow, Hans H.; Vogt, Carsten
  • Journal of Molecular Microbiology and Biotechnology, Vol. 26, Issue 1-3
  • DOI: 10.1159/000441679

Rapid carbon mineralization for permanent disposal of anthropogenic carbon dioxide emissions
journal, June 2016


Functional microbial diversity explains groundwater chemistry in a pristine aquifer
journal, January 2013


DECIPHER, a Search-Based Approach to Chimera Identification for 16S rRNA Sequences
journal, November 2011

  • Wright, Erik S.; Yilmaz, L. Safak; Noguera, Daniel R.
  • Applied and Environmental Microbiology, Vol. 78, Issue 3
  • DOI: 10.1128/AEM.06516-11

Characterization of MtoD from Sideroxydans lithotrophicus: a cytochrome c electron shuttle used in lithoautotrophic growth
journal, April 2015

  • Beckwith, Christopher R.; Edwards, Marcus J.; Lawes, Matthew
  • Frontiers in Microbiology, Vol. 6
  • DOI: 10.3389/fmicb.2015.00332

Metaproteogenomic analysis of a sulfate-reducing enrichment culture reveals genomic organization of key enzymes in the m-xylene degradation pathway and metabolic activity of proteobacteria
journal, October 2014

  • Bozinovski, Dragana; Taubert, Martin; Kleinsteuber, Sabine
  • Systematic and Applied Microbiology, Vol. 37, Issue 7
  • DOI: 10.1016/j.syapm.2014.07.005

RStudio: A Platform-Independent IDE for R and Sweave: SOFTWARE REVIEW
journal, October 2011

  • Racine, Jeffrey S.
  • Journal of Applied Econometrics, Vol. 27, Issue 1
  • DOI: 10.1002/jae.1278

FLASH: fast length adjustment of short reads to improve genome assemblies
journal, September 2011


The geology and water chemistry of the Hellisheidi, SW-Iceland carbon storage site
journal, January 2013

  • Alfredsson, Helgi A.; Oelkers, Eric H.; Hardarsson, Björn S.
  • International Journal of Greenhouse Gas Control, Vol. 12
  • DOI: 10.1016/j.ijggc.2012.11.019

Classification and phylogeny of hydrogenases
journal, August 2001


Comparative Genomic Insights into Ecophysiology of Neutrophilic, Microaerophilic Iron Oxidizing Bacteria
journal, November 2015


A thermodynamic assessment of the potential synthesis of condensed hydrocarbons during cooling and dilution of volcanic gases
journal, January 2000

  • Zolotov, Mikhail Y.; Shock, Everett L.
  • Journal of Geophysical Research: Solid Earth, Vol. 105, Issue B1
  • DOI: 10.1029/1999JB900369

Search and clustering orders of magnitude faster than BLAST
journal, August 2010


Rapid biotic molecular transformation of fulvic acids in a karst aquifer
journal, November 2007

  • Einsiedl, Florian; Hertkorn, Norbert; Wolf, Manfred
  • Geochimica et Cosmochimica Acta, Vol. 71, Issue 22
  • DOI: 10.1016/j.gca.2007.09.024

Microbial characterization of basalt formation waters targeted for geological carbon sequestration
journal, March 2013

  • Lavalleur, Heather J.; Colwell, Frederick S.
  • FEMS Microbiology Ecology, Vol. 85, Issue 1
  • DOI: 10.1111/1574-6941.12098

Rapid solubility and mineral storage of CO2 in basalt
journal, January 2014


Abundance and diversity of microbial life in ocean crust
journal, May 2008

  • Santelli, Cara M.; Orcutt, Beth N.; Banning, Erin
  • Nature, Vol. 453, Issue 7195
  • DOI: 10.1038/nature06899

Expanded microbial genome coverage and improved protein family annotation in the COG database
journal, November 2014

  • Galperin, Michael Y.; Makarova, Kira S.; Wolf, Yuri I.
  • Nucleic Acids Research, Vol. 43, Issue D1
  • DOI: 10.1093/nar/gku1223

Carbon Storage in Basalt
journal, April 2014


SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
journal, May 2012


The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
journal, November 2012

  • Quast, Christian; Pruesse, Elmar; Yilmaz, Pelin
  • Nucleic Acids Research, Vol. 41, Issue D1
  • DOI: 10.1093/nar/gks1219

Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions
journal, September 2010


Potential impact of CO2 storage on subsurface microbial ecosystems and implications for groundwater quality
journal, January 2011


Microbial Stimulation and Succession following a Test Well Injection Simulating CO₂ Leakage into a Shallow Newark Basin Aquifer
journal, January 2015


ARB: a software environment for sequence data
journal, February 2004


Desulfotomaculum spp. and related gram-positive sulfate-reducing bacteria in deep subsurface environments
journal, January 2013

  • Aüllo, Thomas; Ranchou-Peyruse, Anthony; Ollivier, Bernard
  • Frontiers in Microbiology, Vol. 4
  • DOI: 10.3389/fmicb.2013.00362

The Pfam protein families database: towards a more sustainable future
journal, December 2015

  • Finn, Robert D.; Coggill, Penelope; Eberhardt, Ruth Y.
  • Nucleic Acids Research, Vol. 44, Issue D1
  • DOI: 10.1093/nar/gkv1344

Multidimensional reactive transport modeling of CO2 mineral sequestration in basalts at the Hellisheidi geothermal field, Iceland
journal, July 2012

  • Aradóttir, E. S. P.; Sonnenthal, E. L.; Björnsson, G.
  • International Journal of Greenhouse Gas Control, Vol. 9
  • DOI: 10.1016/j.ijggc.2012.02.006

Diversity of Ribulose-1,5-Bisphosphate Carboxylase/Oxygenase Large-Subunit Genes from Groundwater and Aquifer Microorganisms
journal, June 2003


Life in the hydrated suboceanic mantle
journal, January 2012

  • Ménez, Bénédicte; Pasini, Valerio; Brunelli, Daniele
  • Nature Geoscience, Vol. 5, Issue 2
  • DOI: 10.1038/ngeo1359

Geochemistry of Dissolved Organic Matter in a Spatially Highly Resolved Groundwater Petroleum Hydrocarbon Plume Cross-Section
journal, May 2016

  • Dvorski, Sabine E. -M.; Gonsior, Michael; Hertkorn, Norbert
  • Environmental Science & Technology, Vol. 50, Issue 11
  • DOI: 10.1021/acs.est.6b00849

Experimental contamination of Minims of fluorescein by Pseudomonas aeruginosa.
journal, July 1986


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

Diverse uncultivated ultra-small bacterial cells in groundwater
journal, February 2015

  • Luef, Birgit; Frischkorn, Kyle R.; Wrighton, Kelly C.
  • Nature Communications, Vol. 6, Issue 1
  • DOI: 10.1038/ncomms7372

Comparative genomics of freshwater Fe-oxidizing bacteria: implications for physiology, ecology, and systematics
journal, January 2013


Factors Controlling Phosphate Interaction with Iron Oxides
journal, January 2012

  • Weng, Liping; Van Riemsdijk, Willem H.; Hiemstra, Tjisse
  • Journal of Environment Quality, Vol. 41, Issue 3
  • DOI: 10.2134/jeq2011.0250

A simple and efficient method for the solid-phase extraction of dissolved organic matter (SPE-DOM) from seawater: SPE-DOM from seawater
journal, June 2008

  • Dittmar, Thorsten; Koch, Boris; Hertkorn, Norbert
  • Limnology and Oceanography: Methods, Vol. 6, Issue 6
  • DOI: 10.4319/lom.2008.6.230

rrndb: the Ribosomal RNA Operon Copy Number Database
journal, January 2001


Gas chemistry, boiling and phase segregation in a geothermal system, Hellisheidi, Iceland
journal, January 2014

  • Scott, Samuel; Gunnarsson, Ingvi; Arnórsson, Stefán
  • Geochimica et Cosmochimica Acta, Vol. 124
  • DOI: 10.1016/j.gca.2013.09.027

Desulfotomaculum aquiferis sp. nov. and Desulfotomaculum profundi sp. nov., isolated from a deep natural gas storage aquifer
journal, November 2016

  • Berlendis, Sabrina; Ranchou-Peyruse, Magali; Fardeau, Marie-Laure
  • International Journal of Systematic and Evolutionary Microbiology, Vol. 66, Issue 11
  • DOI: 10.1099/ijsem.0.001352

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
journal, October 2003


MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
journal, October 2013

  • Tamura, Koichiro; Stecher, Glen; Peterson, Daniel
  • Molecular Biology and Evolution, Vol. 30, Issue 12
  • DOI: 10.1093/molbev/mst197

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
journal, January 2011


Monitoring of the microbial community composition in deep subsurface saline aquifers during CO2 storage in Ketzin, Germany
journal, January 2011


UniFrac: a New Phylogenetic Method for Comparing Microbial Communities
journal, December 2005


Ca-carbonates precipitation and limestone genesis — the microbiogeologist point of view
journal, July 1999

  • Castanier, Sabine; Le Métayer-Levrel, Gaële; Perthuisot, Jean-Pierre
  • Sedimentary Geology, Vol. 126, Issue 1-4
  • DOI: 10.1016/S0037-0738(99)00028-7

Metal ions in biological catalysis: from enzyme databases to general principles
journal, July 2008

  • Andreini, Claudia; Bertini, Ivano; Cavallaro, Gabriele
  • JBIC Journal of Biological Inorganic Chemistry, Vol. 13, Issue 8
  • DOI: 10.1007/s00775-008-0404-5

The chemistry and saturation states of subsurface fluids during the in situ mineralisation of CO2 and H2S at the CarbFix site in SW-Iceland
journal, March 2017

  • Snæbjörnsdóttir, Sandra Ó.; Oelkers, Eric H.; Mesfin, Kiflom
  • International Journal of Greenhouse Gas Control, Vol. 58
  • DOI: 10.1016/j.ijggc.2017.01.007