Linking soil biology and chemistry in biological soil crust using isolate exometabolomics

Swenson, Tami L.; Karaoz, Ulas; Swenson, Joel M.; Bowen, Benjamin P.; Northen, Trent R.

doi:10.1038/s41467-017-02356-9

Title: Linking soil biology and chemistry in biological soil crust using isolate exometabolomics

Journal Article · Tue Jan 02 00:00:00 EST 2018 · Nature Communications

DOI:https://doi.org/10.1038/s41467-017-02356-9· OSTI ID:1434034

^[1];

^[2]; Swenson, Joel M. ^[3]; Bowen, Benjamin P. ^[4]; Northen, Trent R. ^[4]

Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Environmental Genomics and Systems Biology Division
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Climate and Ecosystems Sciences Division
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Biological Systems and Engineering Division
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Environmental Genomics and Systems Biology Division; USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)

Metagenomic sequencing provides a window into microbial community structure and metabolic potential; however, linking these data to exogenous metabolites that microorganisms process and produce (the exometabolome) remains challenging. Previously, we observed strong exometabolite niche partitioning among bacterial isolates from biological soil crust (biocrust). For this study, we examine native biocrust to determine if these patterns are reproduced in the environment. Overall, most soil metabolites display the expected relationship (positive or negative correlation) with four dominant bacteria following a wetting event and across biocrust developmental stages. For metabolites that were previously found to be consumed by an isolate, 70% are negatively correlated with the abundance of the isolate's closest matching environmental relative in situ, whereas for released metabolites, 67% were positively correlated. Our results demonstrate that metabolite profiling, shotgun sequencing and exometabolomics may be successfully integrated to functionally link microbial community structure with environmental chemistry in biocrust.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

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

Grant/Contract Number:: AC02-05CH11231; S10 OD018174

OSTI ID:: 1434034

Journal Information:: Nature Communications, Vol. 9, Issue 1; Related Information: © 2017 The Author(s).; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

Citation Metrics:

Cited by: 98 works

Citation information provided by
Web of Science

References (71)

Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation Pepe-Ranney, Charles; Koechli, Chantal; Potrafka, Ruth The ISME Journal, Vol. 10, Issue 2 https://doi.org/10.1038/ismej.2015.106	journal	June 2015
The macromolecular organic composition of plant and microbial residues as inputs to soil organic matter Kögel-Knabner, I. Soil Biology and Biochemistry, Vol. 34, Issue 2 https://doi.org/10.1016/S0038-0717(01)00158-4	journal	February 2002
Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases Yao, Yushu; Sun, Terence; Wang, Tony Metabolites, Vol. 5, Issue 3 https://doi.org/10.3390/metabo5030431	journal	July 2015
Climate-smart soils Paustian, Keith; Lehmann, Johannes; Ogle, Stephen Nature, Vol. 532, Issue 7597 https://doi.org/10.1038/nature17174	journal	April 2016
Accurate, multi-kb reads resolve complex populations and detect rare microorganisms Sharon, Itai; Kertesz, Michael; Hug, Laura A. Genome Research, Vol. 25, Issue 4 https://doi.org/10.1101/gr.183012.114	journal	February 2015
Comparison of methods for extraction of organic N monomers from soil microbial biomass Warren, Charles R. Soil Biology and Biochemistry, Vol. 81 https://doi.org/10.1016/j.soilbio.2014.11.005	journal	February 2015
Revisiting N2 fixation in Guerrero Negro intertidal microbial mats with a functional single-cell approach Woebken, Dagmar; Burow, Luke C.; Behnam, Faris The ISME Journal, Vol. 9, Issue 2 https://doi.org/10.1038/ismej.2014.144	journal	October 2014
Genome-Wide Experimental Determination of Barriers to Horizontal Gene Transfer Sorek, R.; Zhu, Y.; Creevey, C. J. Science, Vol. 318, Issue 5855 https://doi.org/10.1126/science.1147112	journal	November 2007
Agricultural Management and Labile Carbon Additions Affect Soil Microbial Community Structure and Interact with Carbon and Nitrogen Cycling Berthrong, Sean T.; Buckley, Daniel H.; Drinkwater, Laurie E. Microbial Ecology, Vol. 66, Issue 1 https://doi.org/10.1007/s00248-013-0225-0	journal	April 2013
Persistence of soil organic matter as an ecosystem property Schmidt, Michael W. I.; Torn, Margaret S.; Abiven, Samuel Nature, Vol. 478, Issue 7367 https://doi.org/10.1038/nature10386	journal	October 2011
Contribution of cryptogamic covers to the global cycles of carbon and nitrogen Elbert, Wolfgang; Weber, Bettina; Burrows, Susannah Nature Geoscience, Vol. 5, Issue 7 https://doi.org/10.1038/ngeo1486	journal	June 2012
Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean Orsi, William D.; Smith, Jason M.; Liu, Shuting The ISME Journal, Vol. 10, Issue 9 https://doi.org/10.1038/ismej.2016.20	journal	March 2016
Micron-scale mapping of sulfur cycling across the oxycline of a cyanobacterial mat: a paired nanoSIMS and CARD-FISH approach Fike, David Andrew; Gammon, Crystal Lynn; Ziebis, Wiebke The ISME Journal, Vol. 2, Issue 7 https://doi.org/10.1038/ismej.2008.39	journal	June 2008
The circadian oscillator in Synechococcus elongatus controls metabolite partitioning during diurnal growth Diamond, Spencer; Jun, Darae; Rubin, Benjamin E. Proceedings of the National Academy of Sciences, Vol. 112, Issue 15 https://doi.org/10.1073/pnas.1504576112	journal	March 2015
Responses of soil bacterial and fungal communities to extreme desiccation and rewetting Barnard, Romain L.; Osborne, Catherine A.; Firestone, Mary K. The ISME Journal, Vol. 7, Issue 11 https://doi.org/10.1038/ismej.2013.104	journal	July 2013
Microbiomes in light of traits: A phylogenetic perspective Martiny, J. B. H.; Jones, S. E.; Lennon, J. T. Science, Vol. 350, Issue 6261 https://doi.org/10.1126/science.aac9323	journal	November 2015
Exometabolomics and MSI: deconstructing how cells interact to transform their small molecule environment Silva, Leslie P.; Northen, Trent R. Current Opinion in Biotechnology, Vol. 34 https://doi.org/10.1016/j.copbio.2015.03.015	journal	August 2015
OptCom: A Multi-Level Optimization Framework for the Metabolic Modeling and Analysis of Microbial Communities Zomorrodi, Ali R.; Maranas, Costas D. PLoS Computational Biology, Vol. 8, Issue 2 https://doi.org/10.1371/journal.pcbi.1002363	journal	February 2012
Proposed minimum reporting standards for chemical analysis: Chemical Analysis Working Group (CAWG) Metabolomics Standards Initiative (MSI) Sumner, Lloyd W.; Amberg, Alexander; Barrett, Dave Metabolomics, Vol. 3, Issue 3 https://doi.org/10.1007/s11306-007-0082-2	journal	September 2007
Rainfall-induced carbon dioxide pulses result from sequential resuscitation of phylogenetically clustered microbial groups Placella, S. A.; Brodie, E. L.; Firestone, M. K. Proceedings of the National Academy of Sciences, Vol. 109, Issue 27 https://doi.org/10.1073/pnas.1204306109	journal	June 2012
Metabolic Footprinting of Mutant Libraries to Map Metabolite Utilization to Genotype Baran, Richard; Bowen, Benjamin P.; Price, Morgan N. ACS Chemical Biology, Vol. 8, Issue 1 https://doi.org/10.1021/cb300477w	journal	October 2012
Phylogenomics of prokaryotic ribosomal proteins Yutin, Natalya; Makarova, Kira S.; Wolf, Yuri I. Genome Biology, Vol. 12, Issue Suppl 1 https://doi.org/10.1186/gb-2011-12-s1-p30	journal	January 2011
Roles of Bacillus endospores in the environment Nicholson, W. L. Cellular and Molecular Life Sciences (CMLS), Vol. 59, Issue 3 https://doi.org/10.1007/s00018-002-8433-7	journal	March 2002
Cyanobacterial reuse of extracellular organic carbon in microbial mats Stuart, Rhona K.; Mayali, Xavier; Lee, Jackson Z. The ISME Journal, Vol. 10, Issue 5 https://doi.org/10.1038/ismej.2015.180	journal	October 2015
Temperature Drives the Continental-Scale Distribution of Key Microbes in Topsoil Communities Garcia-Pichel, Ferran; Loza, Virginia; Marusenko, Yevgeniy Science, Vol. 340, Issue 6140 https://doi.org/10.1126/science.1236404	journal	June 2013
Persistence of soil organic matter as an ecosystem property Schmidt, M. W. I.; Torn, M. S.; Abiven, S. Nature Publishing Group https://doi.org/10.5167/uzh-51257	text	January 2011
Microbial regulation of the soil carbon cycle: evidence from gene–enzyme relationships Trivedi, Pankaj; Delgado-Baquerizo, Manuel; Trivedi, Chanda The ISME Journal, Vol. 10, Issue 11 https://doi.org/10.1038/ismej.2016.65	journal	May 2016
Nutritional flexibility of oligotrophic and copiotrophic Antarctic bacteria with respect to organic substrates Upton, A. C.; Nedwell, D. B. FEMS Microbiology Letters, Vol. 62, Issue 1 https://doi.org/10.1111/j.1574-6968.1989.tb03651.x	journal	January 1989
Molecular-Scale Investigation with ESI-FT-ICR-MS on Fractionation of Dissolved Organic Matter Induced by Adsorption on Iron Oxyhydroxides Lv, Jitao; Zhang, Shuzhen; Wang, Songshan Environmental Science & Technology, Vol. 50, Issue 5 https://doi.org/10.1021/acs.est.5b04996	journal	February 2016
Soil fertility is associated with fungal and bacterial richness, whereas pH is associated with community composition in polar soil microbial communities Siciliano, Steven D.; Palmer, Anne S.; Winsley, Tristrom Soil Biology and Biochemistry, Vol. 78 https://doi.org/10.1016/j.soilbio.2014.07.005	journal	November 2014
Nitrogen cycling in desert biological soil crusts across biogeographic regions in the Southwestern United States Strauss, Sarah L.; Day, Thomas A.; Garcia-Pichel, Ferran Biogeochemistry, Vol. 108, Issue 1-3 https://doi.org/10.1007/s10533-011-9587-x	journal	March 2011
Exometabolite niche partitioning among sympatric soil bacteria Baran, Richard; Brodie, Eoin L.; Mayberry-Lewis, Jazmine Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms9289	journal	September 2015
A simple, fast, and accurate method of phylogenomic inference Wu, Martin; Eisen, Jonathan A. Genome Biology, Vol. 9, Issue 10 https://doi.org/10.1186/gb-2008-9-10-r151	journal	January 2008
A trait-based approach for modelling microbial litter decomposition Allison, S. D. Ecology Letters, Vol. 15, Issue 9 https://doi.org/10.1111/j.1461-0248.2012.01807.x	journal	May 2012
Increasing aridity reduces soil microbial diversity and abundance in global drylands Maestre, Fernando T.; Delgado-Baquerizo, Manuel; Jeffries, Thomas C. Proceedings of the National Academy of Sciences https://doi.org/10.1073/pnas.1516684112	journal	December 2015
Dispersing misconceptions and identifying opportunities for the use of 'omics' in soil microbial ecology Prosser, James I. Nature Reviews Microbiology, Vol. 13, Issue 7 https://doi.org/10.1038/nrmicro3468	journal	June 2015
Metabolic interactions in microbial communities: untangling the Gordian knot Ponomarova, Olga; Patil, Kiran Raosaheb Current Opinion in Microbiology, Vol. 27 https://doi.org/10.1016/j.mib.2015.06.014	journal	October 2015
A Multiscale, Hierarchical Model of Pulse Dynamics in Arid-Land Ecosystems Collins, S. L.; Belnap, J.; Grimm, N. B. Annual Review of Ecology, Evolution, and Systematics, Vol. 45, Issue 1 https://doi.org/10.1146/annurev-ecolsys-120213-091650	journal	November 2014
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system Anantharaman, Karthik; Brown, Christopher T.; Hug, Laura A. Nature Communications, Vol. 7, Issue 1 https://doi.org/10.1038/ncomms13219	journal	October 2016
Integrated metagenomics and network analysis of soil microbial community of the forest timberline Ding, Junjun; Zhang, Yuguang; Deng, Ye Scientific Reports, Vol. 5, Issue 1 https://doi.org/10.1038/srep07994	journal	January 2015
Organic matter transformations in the upper mesopelagic zone of the North Pacific: Chemical composition and linkages to microbial community structure: ORGANIC MATTER IN THE UPPER MESOPELAGIC Kaiser, Karl; Benner, Ronald Journal of Geophysical Research: Oceans, Vol. 117, Issue C1 https://doi.org/10.1029/2011JC007141	journal	January 2012
Climate–Carbon Cycle Feedback Analysis: Results from the C ⁴ MIP Model Intercomparison Friedlingstein, P.; Cox, P.; Betts, R. Journal of Climate, Vol. 19, Issue 14 https://doi.org/10.1175/JCLI3800.1	journal	July 2006
Phylogenomics of Prokaryotic Ribosomal Proteins Yutin, Natalya; Puigbò, Pere; Koonin, Eugene V. PLoS ONE, Vol. 7, Issue 5 https://doi.org/10.1371/journal.pone.0036972	journal	May 2012
Dynamic substrate preferences predict metabolic properties of a simple microbial consortium Erbilgin, Onur; Bowen, Benjamin P.; Kosina, Suzanne M. BMC Bioinformatics, Vol. 18, Issue 1 https://doi.org/10.1186/s12859-017-1478-2	journal	January 2017
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes Rodriguez-R, Luis M.; Konstantinidis, Konstantinos T. PeerJ Preprints 4:e1900v1 https://doi.org/10.7287/peerj.preprints.1900v1	preprint	March 2016
Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir Walsh, Aaron M.; Crispie, Fiona; Kilcawley, Kieran mSystems, Vol. 1, Issue 5 https://doi.org/10.1128/mSystems.00052-16	journal	October 2016
METLIN: A Metabolite Mass Spectral Database Smith, Colin A.; Maille, Grace O??; Want, Elizabeth J. Therapeutic Drug Monitoring, Vol. 27, Issue 6 https://doi.org/10.1097/01.ftd.0000179845.53213.39	journal	January 2005
The Evolution of a Capacity to Build Supra-Cellular Ropes Enabled Filamentous Cyanobacteria to Colonize Highly Erodible Substrates Garcia-Pichel, Ferran; Wojciechowski, Martin F. PLoS ONE, Vol. 4, Issue 11 https://doi.org/10.1371/journal.pone.0007801	journal	November 2009
Untargeted soil metabolomics methods for analysis of extractable organic matter Swenson, Tami L.; Jenkins, Stefan; Bowen, Benjamin P. Soil Biology and Biochemistry, Vol. 80 https://doi.org/10.1016/j.soilbio.2014.10.007	journal	January 2015
The generation and maintenance of diversity in microbial communities Fierer, Noah; Lennon, Jay T. American Journal of Botany, Vol. 98, Issue 3 https://doi.org/10.3732/ajb.1000498	journal	March 2011
Cohesion: a method for quantifying the connectivity of microbial communities Herren, Cristina M.; McMahon, Katherine D. The ISME Journal, Vol. 11, Issue 11 https://doi.org/10.1038/ismej.2017.91	journal	July 2017
Climate change and physical disturbance cause similar community shifts in biological soil crusts Ferrenberg, Scott; Reed, Sasha C.; Belnap, Jayne Proceedings of the National Academy of Sciences, Vol. 112, Issue 39 https://doi.org/10.1073/pnas.1509150112	journal	September 2015
Competitive sorption of microbial metabolites on an iron oxide mineral Swenson, Tami L.; Bowen, Benjamin P.; Nico, Peter S. Soil Biology and Biochemistry, Vol. 90 https://doi.org/10.1016/j.soilbio.2015.07.022	journal	November 2015
Membrane transporter engineering in industrial biotechnology and whole cell biocatalysis Kell, Douglas B.; Swainston, Neil; Pir, Pınar Trends in Biotechnology, Vol. 33, Issue 4 https://doi.org/10.1016/j.tibtech.2015.02.001	journal	April 2015
Variation in Dissolved Organic Matter Controls Bacterial Production and Community Composition Judd, Kristin E.; Crump, Byron C.; Kling, George W. Ecology, Vol. 87, Issue 8 https://doi.org/10.1890/0012-9658(2006)87[2068:VIDOMC]2.0.CO;2	journal	August 2006
The role of soil microbes in the global carbon cycle: tracking the below-ground microbial processing of plant-derived carbon for manipulating carbon dynamics in agricultural systems: Role of soil microbes in global carbon cycle: carbon tracking & agro-cosystem management Gougoulias, Christos; Clark, Joanna M.; Shaw, Liz J. Journal of the Science of Food and Agriculture, Vol. 94, Issue 12 https://doi.org/10.1002/jsfa.6577	journal	March 2014
Time-Resolved Metabolic Footprinting for Nonlinear Modeling of Bacterial Substrate Utilization Behrends, V.; Ebbels, T. M. D.; Williams, H. D. Applied and Environmental Microbiology, Vol. 75, Issue 8 https://doi.org/10.1128/aem.01742-08	journal	February 2009
Community genomics in microbial ecology and evolution Allen, Eric E.; Banfield, Jillian F. Nature Reviews Microbiology, Vol. 3, Issue 6 https://doi.org/10.1038/nrmicro1157	journal	June 2005
Body Shaping under Water Stress: Osmosensing and Osmoregulation of Solute Transport in Bacteria Morbach, Susanne; Krämer, Reinhard ChemBioChem, Vol. 3, Issue 5 https://doi.org/10.1002/1439-7633(20020503)3:5<384::aid-cbic384>3.0.co;2-h	journal	May 2002
Cytological Analysis of the Mother Cell Death Process during Sporulation in Bacillus subtilis Hosoya, S.; Lu, Z.; Ozaki, Y. Journal of Bacteriology, Vol. 189, Issue 6 https://doi.org/10.1128/JB.01738-06	journal	January 2007
Dynamic cyanobacterial response to hydration and dehydration in a desert biological soil crust Rajeev, Lara; da Rocha, Ulisses Nunes; Klitgord, Niels The ISME Journal, Vol. 7, Issue 11 https://doi.org/10.1038/ismej.2013.83	journal	June 2013
A new view of the tree of life Hug, Laura A.; Baker, Brett J.; Anantharaman, Karthik Nature Microbiology, Vol. 1, Issue 5 https://doi.org/10.1038/nmicrobiol.2016.48	journal	April 2016
MetaboLights—an open-access general-purpose repository for metabolomics studies and associated meta-data Haug, Kenneth; Salek, Reza M.; Conesa, Pablo Nucleic Acids Research, Vol. 41, Issue D1 https://doi.org/10.1093/nar/gks1004	journal	October 2012
Structure and Functioning of Dryland Ecosystems in a Changing World Soliveres, Santiago; Gaitán, Juan; García-Palacios, Pablo Annual Reviews Inc. https://doi.org/10.7892/boris.92920	text	January 2016
Cyanobacteria track water in desert soils Garcia-Pichel, Ferran; Pringault, Olivier Nature, Vol. 413, Issue 6854 https://doi.org/10.1038/35096640	journal	September 2001
Resistance of Bacillus Endospores to Extreme Terrestrial and Extraterrestrial Environments Nicholson, W. L.; Munakata, N.; Horneck, G. Microbiology and Molecular Biology Reviews, Vol. 64, Issue 3 https://doi.org/10.1128/MMBR.64.3.548-572.2000	journal	September 2000
Structure and Functioning of Dryland Ecosystems in a Changing World Maestre, Fernando T.; Eldridge, David J.; Soliveres, Santiago Annual Review of Ecology, Evolution, and Systematics, Vol. 47, Issue 1 https://doi.org/10.1146/annurev-ecolsys-121415-032311	journal	November 2016
The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes Rodriguez-R., Luis M.; Konstantinidis, Konstantinos T. https://doi.org/10.7287/peerj.preprints.1900	preprint	March 2016
Nutrient cross-feeding in the microbial world Seth, Erica C.; Taga, Michiko E. Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00350	journal	July 2014
What is flux balance analysis? Orth, Jeffrey D.; Thiele, Ines; Palsson, Bernhard Ø Nature Biotechnology, Vol. 28, Issue 3 https://doi.org/10.1038/nbt.1614	journal	March 2010
Biological Soil Crusts as an Organizing Principle in Drylands Belnap, Jayne; Weber, Bettina; Büdel, Burkhard Biological Soil Crusts: An Organizing Principle in Drylands https://doi.org/10.1007/978-3-319-30214-0_1	book	January 2016

Cited By (17)

Biocrust science and global change Reed, Sasha C.; Delgado‐Baquerizo, Manuel; Ferrenberg, Scott New Phytologist, Vol. 223, Issue 3 https://doi.org/10.1111/nph.15992	journal	May 2019
Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust Van Goethem, Marc W.; Swenson, Tami L.; Trubl, Gareth mBio, Vol. 10, Issue 6 https://doi.org/10.1128/mbio.02287-19	journal	December 2019
Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change Malik, Ashish A.; Martiny, Jennifer B. H.; Brodie, Eoin L. The ISME Journal, Vol. 14, Issue 1 https://doi.org/10.1038/s41396-019-0510-0	journal	September 2019
Bio‐priming seeds with cyanobacteria: effects on native plant growth and soil properties Chua, Melissa; Erickson, Todd E.; Merritt, David J. Restoration Ecology, Vol. 28, Issue S2 https://doi.org/10.1111/rec.13040	journal	November 2019
Root renovation: how an improved understanding of basic root biology could inform the development of elite crops that foster sustainable soil health Wong, Johanna W. -H.; Plett, Jonathan M. Functional Plant Biology, Vol. 46, Issue 7 https://doi.org/10.1071/fp18200	journal	January 2019
Spatial segregation of the biological soil crust microbiome around its foundational cyanobacterium, Microcoleus vaginatus, and the formation of a nitrogen-fixing cyanosphere Couradeau, Estelle; Giraldo-Silva, Ana; De Martini, Francesca Microbiome, Vol. 7, Issue 1 https://doi.org/10.1186/s40168-019-0661-2	journal	April 2019
Evaluation of an untargeted nano-liquid chromatography-mass spectrometry approach to expand coverage of low molecular weight dissolved organic matter in Arctic soil Ladd, Mallory P.; Giannone, Richard J.; Abraham, Paul E. Scientific Reports, Vol. 9, Issue 1 https://doi.org/10.1038/s41598-019-42118-9	journal	April 2019
Costless metabolic secretions as drivers of interspecies interactions in microbial ecosystems Pacheco, Alan R.; Moel, Mauricio; Segrè, Daniel Nature Communications, Vol. 10, Issue 1 https://doi.org/10.1038/s41467-018-07946-9	journal	January 2019
Assessing the influence of soil abiotic and biotic factors on Nostoc commune inoculation success Roncero-Ramos, B.; Román, J. R.; Rodríguez-Caballero, E. Plant and Soil, Vol. 444, Issue 1-2 https://doi.org/10.1007/s11104-019-04239-y	journal	August 2019
Microbial Group Dynamics in Plant Rhizospheres and Their Implications on Nutrient Cycling Garcia, Joshua; Kao-Kniffin, Jenny Frontiers in Microbiology, Vol. 9 https://doi.org/10.3389/fmicb.2018.01516	journal	July 2018
Populations of Populus angustifolia have evolved distinct metabolic profiles that influence their surrounding soil Mueller, Liam O.; Borstein, Samuel R.; Tague, Eric D. Plant and Soil, Vol. 448, Issue 1-2 https://doi.org/10.1007/s11104-019-04405-2	journal	February 2020
Revisiting microbe-metabolite interactions: doing better than random T., Morton, James; Daniel, McDonald,; A., Aksenov, Alexander ETH Zurich https://doi.org/10.3929/ethz-b-000431153	text	January 2019
The known and the unknown in soil microbial ecology Baldrian, Petr FEMS Microbiology Ecology, Vol. 95, Issue 2 https://doi.org/10.1093/femsec/fiz005	journal	January 2019
Biofilms 2018: a Diversity of Microbes and Mechanisms Fuqua, Clay; Filloux, Alain; Ghigo, Jean-Marc Journal of Bacteriology, Vol. 201, Issue 18 https://doi.org/10.1128/jb.00118-19	journal	February 2019
Learning representations of microbe–metabolite interactions Morton, James T.; Aksenov, Alexander A.; Nothias, Louis Felix Nature Methods, Vol. 16, Issue 12 https://doi.org/10.1038/s41592-019-0616-3	journal	November 2019
The Ecology of Subaerial Biofilms in Dry and Inhospitable Terrestrial Environments Villa, Federica; Cappitelli, Francesca Microorganisms, Vol. 7, Issue 10 https://doi.org/10.3390/microorganisms7100380	journal	September 2019
Common principles and best practices for engineering microbiomes Lawson, Christopher E.; Harcombe, William R.; Hatzenpichler, Roland Nature Reviews Microbiology, Vol. 17, Issue 12 https://doi.org/10.1038/s41579-019-0255-9	journal	September 2019

Similar Records

Exometabolite niche partitioning among sympatric soil bacteria

Journal Article · Tue Sep 22 00:00:00 EDT 2015 · Nature Communications · OSTI ID:1434034

Baran, Richard; Brodie, Eoin L.; Mayberry-Lewis, Jazmine; +8 more

Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics

Journal Article · Thu Nov 18 00:00:00 EST 2021 · Communications Biology · OSTI ID:1434034

Van Goethem, Marc W.; Osborn, Andrew R.; Bowen, Benjamin P.; +16 more

Adaptation to Environmental Extremes Structures Functional Traits in Biological Soil Crust and Hypolithic Microbial Communities

Journal Article · Tue Jul 19 00:00:00 EDT 2022 · mSystems · OSTI ID:1434034

Mackelprang, Rachel; Vaishampayan, Parag; Fisher, Kirsten

Related Subjects

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY
59 BASIC BIOLOGICAL SCIENCES
Environmental chemistry
Metabolomics
Microbial ecology
Soil microbiology

Title: Linking soil biology and chemistry in biological soil crust using isolate exometabolomics

Citation Formats

References (71)

Cited By (17)

Similar Records

Related Subjects