Differences in substrate use linked to divergent carbon flow during litter decomposition

Albright, Michaeline B. N.; Thompson, Jaron; Kroeger, Marie E.; Johansen, Renee; Ulrich, Danielle E. M.; Gallegos-Graves, La Verne; Munsky, Brian; Dunbar, John

doi:10.1093/femsec/fiaa135

Differences in substrate use linked to divergent carbon flow during litter decomposition

Journal Article · Mon Jul 06 00:00:00 EDT 2020 · FEMS Microbiology Ecology (Online)

DOI:https://doi.org/10.1093/femsec/fiaa135· OSTI ID:1641872

^[1]; Thompson, Jaron ^[2]; Kroeger, Marie E. ^[1]; Johansen, Renee ^[1]; Ulrich, Danielle E. M. ^[1]; Gallegos-Graves, La Verne ^[1]; Munsky, Brian ^[3]; Dunbar, John ^[1]

Biosciences Division, Los Alamos National Laboratory, Mailstop M888, Los Alamos, NM 87545, USA
Department of Chemical and Biological Engineering, Colorado State University, Fort Collins, CO 80523, USA
Department of Chemical and Biological Engineering, Colorado State University, Fort Collins, CO 80523, USA, School of Biomedical Engineering, Colorado State University, Fort Collins, CO 80523, USA

ABSTRACT

Discovering widespread microbial processes that create variation in soil carbon (C) cycling within ecosystems may improve soil C modeling. Toward this end, we screened 206 soil communities decomposing plant litter in a common garden microcosm environment and examined features linked to divergent patterns of C flow. C flow was measured as carbon dioxide (CO2) and dissolved organic carbon (DOC) from 44-days of litter decomposition. Two large groups of microbial communities representing ‘high’ and ‘low’ DOC phenotypes from original soil and 44-day microcosm samples were down-selected for fungal and bacterial profiling. Metatranscriptomes were also sequenced from a smaller subset of communities in each group. The two groups exhibited differences in average rate of CO2 production, demonstrating that the divergent patterns of C flow arose from innate functional constraints on C metabolism, not a time-dependent artefact. To infer functional constraints, we identified features – traits at the organism, pathway or gene level – linked to the high and low DOC phenotypes using RNA-Seq approaches and machine learning approaches. Substrate use differed across the high and low DOC phenotypes. Additional features suggested that divergent patterns of C flow may be driven in part by differences in organism interactions that affect DOC abundance directly or indirectly by controlling community structure.

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Research Organization:: Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)

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

Grant/Contract Number:: 89233218CNA000001

OSTI ID:: 1641872

Alternate ID(s):: OSTI ID: 1716813

Report Number(s):: LA-UR--20-22813; fiaa135

Journal Information:: FEMS Microbiology Ecology (Online), Journal Name: FEMS Microbiology Ecology (Online) Journal Issue: 8 Vol. 96; ISSN 1574-6941

Publisher:: Federation of European Microbiological SocietiesCopyright Statement

Country of Publication:: Netherlands

Language:: English

References (93)

Modeling Global Soil Carbon and Soil Microbial Carbon by Integrating Microbial Processes into the Ecosystem Process Model TRIPLEX-GHG: GLOBAL SOIL CARBON AND MICROBIAL CARBON Wang, Kefeng; Peng, Changhui; Zhu, Qiuan Journal of Advances in Modeling Earth Systems, Vol. 9, Issue 6 https://doi.org/10.1002/2017MS000920	journal	October 2017
Functional traits, the phylogeny of function, and ecosystem service vulnerability Díaz, Sandra; Purvis, Andy; Cornelissen, Johannes H. C. Ecology and Evolution, Vol. 3, Issue 9 https://doi.org/10.1002/ece3.601	journal	July 2013
Species associations overwhelm abiotic conditions to dictate the structure and function of wood-decay fungal communities Maynard, Daniel S.; Covey, Kristofer R.; Crowther, Thomas W. Ecology, Vol. 99, Issue 4 https://doi.org/10.1002/ecy.2165	journal	February 2018
Contribution of dissolved organic matter to carbon storage in forest mineral soils Kalbitz, Karsten; Kaiser, Klaus Journal of Plant Nutrition and Soil Science, Vol. 171, Issue 1 https://doi.org/10.1002/jpln.200700043	journal	February 2008
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
Rapid Microbial Community Changes During Initial Stages of Pine Litter Decomposition Gołębiewski, Marcin; Tarasek, Agata; Sikora, Marcin Microbial Ecology, Vol. 77, Issue 1 https://doi.org/10.1007/s00248-018-1209-x	journal	May 2018
Litter decomposition: what controls it and how can we alter it to sequester more carbon in forest soils? Prescott, Cindy E. Biogeochemistry, Vol. 101, Issue 1-3 https://doi.org/10.1007/s10533-010-9439-0	journal	April 2010
Selection of extreme phenotypes: the role of clinical observation in translational research Pérez-Gracia, José Luis; Gúrpide, Alfonso; Ruiz-Ilundain, María Gloria Clinical and Translational Oncology, Vol. 12, Issue 3 https://doi.org/10.1007/s12094-010-0487-7	journal	March 2010
Fungal–bacterial interaction on beech leaves: influence on decomposition and dissolved organic carbon quality Møller, Jacob; Miller, Morten; Kjøller, Annelise Soil Biology and Biochemistry, Vol. 31, Issue 3 https://doi.org/10.1016/S0038-0717(98)00138-2	journal	March 1999
Vertical distribution, age, and chemical composition of organic carbon in two forest soils of different pedogenesis Rumpel, C.; Kögel-Knabner, I.; Bruhn, F. Organic Geochemistry, Vol. 33, Issue 10 https://doi.org/10.1016/S0146-6380(02)00088-8	journal	October 2002
Ecological and Evolutionary Forces Shaping Microbial Diversity in the Human Intestine Ley, Ruth E.; Peterson, Daniel A.; Gordon, Jeffrey I. Cell, Vol. 124, Issue 4 https://doi.org/10.1016/j.cell.2006.02.017	journal	February 2006
Exploring Bacteroidetes: Metabolic key points and immunological tricks of our gut commensals Gibiino, Giulia; Lopetuso, Loris Riccardo; Scaldaferri, Franco Digestive and Liver Disease, Vol. 50, Issue 7 https://doi.org/10.1016/j.dld.2018.03.016	journal	July 2018
Chemical composition of young and old carbon pools throughout Cambisol and Luvisol profiles under forests Schöning, Ingo; Kögel-Knabner, Ingrid Soil Biology and Biochemistry, Vol. 38, Issue 8 https://doi.org/10.1016/j.soilbio.2006.03.005	journal	August 2006
Fate of gram-negative bacterial biomass in soil—mineralization and contribution to SOM Kindler, R.; Miltner, A.; Richnow, H. Soil Biology and Biochemistry, Vol. 38, Issue 9 https://doi.org/10.1016/j.soilbio.2006.04.047	journal	September 2006
Temporal dynamics of microbial communities on decomposing leaf litter of 10 plant species in relation to decomposition rate Bray, Sarah R.; Kitajima, Kaoru; Mack, Michelle C. Soil Biology and Biochemistry, Vol. 49 https://doi.org/10.1016/j.soilbio.2012.02.009	journal	June 2012
Corrigendum to “Fate of ectomycorrhizal fungal biomass in a soil bioreactor system and its contribution to soil organic matter formation” [Soil Biol. Biogeochem. 88 (2015) 120–127] Schweigert, Michael; Herrmann, Stefanie; Miltner, Anja Soil Biology and Biochemistry, Vol. 92 https://doi.org/10.1016/j.soilbio.2015.09.004	journal	January 2016
Microbial modulators of soil carbon storage: integrating genomic and metabolic knowledge for global prediction Trivedi, Pankaj; Anderson, Ian C.; Singh, Brajesh K. Trends in Microbiology, Vol. 21, Issue 12 https://doi.org/10.1016/j.tim.2013.09.005	journal	December 2013
Examining the global distribution of dominant archaeal populations in soil Bates, Scott T.; Berg-Lyons, Donna; Caporaso, J. Gregory The ISME Journal, Vol. 5, Issue 5 https://doi.org/10.1038/ismej.2010.171	journal	November 2010
Who is who in litter decomposition? Metaproteomics reveals major microbial players and their biogeochemical functions Schneider, Thomas; Keiblinger, Katharina M.; Schmid, Emanuel The ISME Journal, Vol. 6, Issue 9 https://doi.org/10.1038/ismej.2012.11	journal	March 2012
Fungal community on decomposing leaf litter undergoes rapid successional changes Voříšková, Jana; Baldrian, Petr The ISME Journal, Vol. 7, Issue 3 https://doi.org/10.1038/ismej.2012.116	journal	October 2012
Bacterial predation in a marine host-associated microbiome Welsh, Rory M.; Zaneveld, Jesse R.; Rosales, Stephanie M. The ISME Journal, Vol. 10, Issue 6 https://doi.org/10.1038/ismej.2015.219	journal	November 2015
Microbial response to simulated global change is phylogenetically conserved and linked with functional potential Amend, Anthony S.; Martiny, Adam C.; Allison, Steven D. The ISME Journal, Vol. 10, Issue 1 https://doi.org/10.1038/ismej.2015.96	journal	June 2015
Microbial legacies alter decomposition in response to simulated global change Martiny, Jennifer BH; Martiny, Adam C.; Weihe, Claudia The ISME Journal, Vol. 11, Issue 2 https://doi.org/10.1038/ismej.2016.122	journal	October 2016
A core gut microbiome in obese and lean twins Turnbaugh, Peter J.; Hamady, Micah; Yatsunenko, Tanya Nature, Vol. 457, Issue 7228 https://doi.org/10.1038/nature07540	journal	November 2008
Accelerated microbial turnover but constant growth efficiency with warming in soil Hagerty, Shannon B.; van Groenigen, Kees Jan; Allison, Steven D. Nature Climate Change, Vol. 4, Issue 10 https://doi.org/10.1038/nclimate2361	journal	September 2014
Social dynamics within decomposer communities lead to nitrogen retention and organic matter build-up in soils Kaiser, Christina; Franklin, Oskar; Richter, Andreas Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms9960	journal	December 2015
UPARSE: highly accurate OTU sequences from microbial amplicon reads Edgar, Robert C. Nature Methods, Vol. 10, Issue 10 https://doi.org/10.1038/nmeth.2604	journal	August 2013
The importance of anabolism in microbial control over soil carbon storage Liang, Chao; Schimel, Joshua P.; Jastrow, Julie D. Nature Microbiology, Vol. 2, Issue 8 https://doi.org/10.1038/nmicrobiol.2017.105	journal	July 2017
Stress and stability: applying the Anna Karenina principle to animal microbiomes Zaneveld, Jesse R.; McMinds, Ryan; Vega Thurber, Rebecca Nature Microbiology, Vol. 2, Issue 9 https://doi.org/10.1038/nmicrobiol.2017.121	journal	August 2017
The abundance and variety of carbohydrate-active enzymes in the human gut microbiota Kaoutari, Abdessamad El; Armougom, Fabrice; Gordon, Jeffrey I. Nature Reviews Microbiology, Vol. 11, Issue 7 https://doi.org/10.1038/nrmicro3050	journal	June 2013
Decomposer food web in a deciduous forest shows high share of generalist microorganisms and importance of microbial biomass recycling López-Mondéjar, Ruben; Brabcová, Vendula; Štursová, Martina The ISME Journal, Vol. 12, Issue 7 https://doi.org/10.1038/s41396-018-0084-2	journal	February 2018
Microbial succession on decomposing root litter in a drought-prone Scots pine forest Herzog, Claude; Hartmann, Martin; Frey, Beat The ISME Journal, Vol. 13, Issue 9 https://doi.org/10.1038/s41396-019-0436-6	journal	May 2019
Divergent accumulation of microbial necromass and plant lignin components in grassland soils Ma, Tian; Zhu, Shanshan; Wang, Zhiheng Nature Communications, Vol. 9, Issue 1 https://doi.org/10.1038/s41467-018-05891-1	journal	August 2018
A new genomic blueprint of the human gut microbiota Almeida, Alexandre; Mitchell, Alex L.; Boland, Miguel Nature, Vol. 568, Issue 7753 https://doi.org/10.1038/s41586-019-0965-1	journal	February 2019
Growth-rate-dependent adjustment of ribosome function in the fungus Mucor racemosus Orlowski, M. Biochemical Journal, Vol. 196, Issue 2 https://doi.org/10.1042/bj1960403	journal	May 1981
Predicting changes in community composition and ecosystem functioning from plant traits: revisiting the Holy Grail Lavorel, S.; Garnier, E. Functional Ecology, Vol. 16, Issue 5 https://doi.org/10.1046/j.1365-2435.2002.00664.x	journal	October 2002
Resistance, resilience, and redundancy in microbial communities Allison, S. D.; Martiny, J. B. H. Proceedings of the National Academy of Sciences, Vol. 105, Issue Supplement 1 https://doi.org/10.1073/pnas.0801925105	journal	August 2008
Endemism and functional convergence across the North American soil mycobiome Talbot, J. M.; Bruns, T. D.; Taylor, J. W. Proceedings of the National Academy of Sciences, Vol. 111, Issue 17 https://doi.org/10.1073/pnas.1402584111	journal	April 2014
Decomposition responses to climate depend on microbial community composition Glassman, Sydney I.; Weihe, Claudia; Li, Junhui Proceedings of the National Academy of Sciences, Vol. 115, Issue 47 https://doi.org/10.1073/pnas.1811269115	journal	November 2018
UCHIME improves sensitivity and speed of chimera detection Edgar, Robert C.; Haas, Brian J.; Clemente, Jose C. Bioinformatics, Vol. 27, Issue 16 https://doi.org/10.1093/bioinformatics/btr381	journal	June 2011
PEAR: a fast and accurate Illumina Paired-End reAd mergeR Zhang, J.; Kobert, K.; Flouri, T. Bioinformatics, Vol. 30, Issue 5 https://doi.org/10.1093/bioinformatics/btt593	journal	October 2013
Bacterial succession on decomposing leaf litter exhibits a specific occurrence pattern of cellulolytic taxa and potential decomposers of fungal mycelia Tláskal, Vojtěch; Voříšková, Jana; Baldrian, Petr FEMS Microbiology Ecology, Vol. 92, Issue 11 https://doi.org/10.1093/femsec/fiw177	journal	August 2016
Predation by Bdellovibrio bacteriovorus significantly reduces viability and alters the microbial community composition of activated sludge flocs and granules Feng, Shugeng; Tan, Chuan Hao; Constancias, Florentin FEMS Microbiology Ecology, Vol. 93, Issue 4 https://doi.org/10.1093/femsec/fix020	journal	February 2017
Rethinking cell growth models Kafri, Moshe; Metzl-Raz, Eyal; Jonas, Felix FEMS Yeast Research, Vol. 16, Issue 7 https://doi.org/10.1093/femsyr/fow081	journal	September 2016
dbCAN: a web resource for automated carbohydrate-active enzyme annotation Yin, Yanbin; Mao, Xizeng; Yang, Jincai Nucleic Acids Research, Vol. 40, Issue W1 https://doi.org/10.1093/nar/gks479	journal	May 2012
KEGG as a reference resource for gene and protein annotation Kanehisa, Minoru; Sato, Yoko; Kawashima, Masayuki Nucleic Acids Research, Vol. 44, Issue D1 https://doi.org/10.1093/nar/gkv1070	journal	October 2015
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation O'Leary, Nuala A.; Wright, Mathew W.; Brister, J. Rodney Nucleic Acids Research, Vol. 44, Issue D1 https://doi.org/10.1093/nar/gkv1189	journal	November 2015
Trophic complexity in aqueous systems: bacterial species richness and protistan predation regulate dissolved organic carbon and dissolved total nitrogen removal Saleem, Muhammad; Fetzer, Ingo; Harms, Hauke Proceedings of the Royal Society B: Biological Sciences, Vol. 283, Issue 1825 https://doi.org/10.1098/rspb.2015.2724	journal	February 2016
Capturing phenotypes for precision medicine Robinson, Peter N.; Mungall, Christopher J.; Haendel, Melissa Molecular Case Studies, Vol. 1, Issue 1 https://doi.org/10.1101/mcs.a000372	journal	September 2015
FragGeneScan-plus for scalable high-throughput short-read open reading frame prediction Kim, Dongjae; Hahn, Aria S.; Wu, Shang-Ju 2015 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) https://doi.org/10.1109/CIBCB.2015.7300341	conference	August 2015
Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter: Seasonal dynamics of a soil microbial community Žifčáková, Lucia; Větrovský, Tomáš; Howe, Adina Environmental Microbiology, Vol. 18, Issue 1 https://doi.org/10.1111/1462-2920.13026	journal	October 2015
Using plant, microbe, and soil fauna traits to improve the predictive power of biogeochemical models Fry, Ellen L.; De Long, Jonathan R.; Álvarez Garrido, Lucía Methods in Ecology and Evolution, Vol. 10, Issue 1 https://doi.org/10.1111/2041-210X.13092	journal	October 2018
Soil carbon cycling proxies: Understanding their critical role in predicting climate change feedbacks Bailey, Vanessa L.; Bond‐Lamberty, Ben; DeAngelis, Kristen Global Change Biology, Vol. 24, Issue 3 https://doi.org/10.1111/gcb.13926	journal	November 2017
Scaling environmental change through the community-level: a trait-based response-and-effect framework for plants Suding, Katharine N.; Lavorel, Sandra; Chapin, F. S. Global Change Biology, Vol. 14, Issue 5 https://doi.org/10.1111/j.1365-2486.2008.01557.x	journal	May 2008
Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes Ramirez, Kelly S.; Craine, Joseph M.; Fierer, Noah Global Change Biology, Vol. 18, Issue 6 https://doi.org/10.1111/j.1365-2486.2012.02639.x	journal	February 2012
Multivariate dispersion as a measure of beta diversity Anderson, Marti J.; Ellingsen, Kari E.; McArdle, Brian H. Ecology Letters, Vol. 9, Issue 6 https://doi.org/10.1111/j.1461-0248.2006.00926.x	journal	June 2006
Assembly history dictates ecosystem functioning: evidence from wood decomposer communities: Carbon dynamics and fungal community assembly Fukami, Tadashi; Dickie, Ian A.; Paula Wilkie, J. Ecology Letters, Vol. 13, Issue 6 https://doi.org/10.1111/j.1461-0248.2010.01465.x	journal	April 2010
Phylogenetic diversity and the functioning of ecosystems Srivastava, Diane S.; Cadotte, Marc W.; MacDonald, A. Andrew M. Ecology Letters, Vol. 15, Issue 7 https://doi.org/10.1111/j.1461-0248.2012.01795.x	journal	May 2012
Common bacterial responses in six ecosystems exposed to 10 years of elevated atmospheric carbon dioxide: Soil bacterial response in six ecosystems Dunbar, John; Eichorst, Stephanie A.; Gallegos-Graves, La Verne Environmental Microbiology, Vol. 14, Issue 5 https://doi.org/10.1111/j.1462-2920.2011.02695.x	journal	January 2012
Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure: Metaproteomic insights associated to human obesity Ferrer, Manuel; Ruiz, Alicia; Lanza, Francesca Environmental Microbiology, Vol. 15, Issue 1 https://doi.org/10.1111/j.1462-2920.2012.02845.x	journal	August 2012
Distance-Based Tests for Homogeneity of Multivariate Dispersions Anderson, Marti J. Biometrics, Vol. 62, Issue 1 https://doi.org/10.1111/j.1541-0420.2005.00440.x	journal	October 2005
Transformation of Quercus petraea litter: successive changes in litter chemistry are reflected in differential enzyme activity and changes in the microbial community composition: Transformation of Quercus petraea litter Šnajdr, Jaroslav; Cajthaml, Tomáš; Valášková, Vendula FEMS Microbiology Ecology, Vol. 75, Issue 2 https://doi.org/10.1111/j.1574-6941.2010.00999.x	journal	November 2010
Initial colonization, community assembly and ecosystem function: fungal colonist traits and litter biochemistry mediate decay rate Cline, Lauren C.; Zak, Donald R. Molecular Ecology, Vol. 24, Issue 19 https://doi.org/10.1111/mec.13361	journal	September 2015
Life in leaf litter: novel insights into community dynamics of bacteria and fungi during litter decomposition Purahong, Witoon; Wubet, Tesfaye; Lentendu, Guillaume Molecular Ecology, Vol. 25, Issue 16 https://doi.org/10.1111/mec.13739	journal	August 2016
The core gut microbiome, energy balance and obesity: The core gut microbiome, energy balance and obesity Turnbaugh, Peter J.; Gordon, Jeffrey I. The Journal of Physiology, Vol. 587, Issue 17 https://doi.org/10.1113/jphysiol.2009.174136	journal	August 2009
Host-Bacterial Mutualism in the Human Intestine Backhed, F. Science, Vol. 307, Issue 5717 https://doi.org/10.1126/science.1104816	journal	March 2005
Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy Wang, Q.; Garrity, G. M.; Tiedje, J. M. Applied and Environmental Microbiology, Vol. 73, Issue 16 https://doi.org/10.1128/AEM.00062-07	journal	June 2007
Short-Term Transcriptional Response of Microbial Communities to Nitrogen Fertilization in a Pine Forest Soil Albright, Michaeline B. N.; Johansen, Renee; Lopez, Deanna Applied and Environmental Microbiology, Vol. 84, Issue 15 https://doi.org/10.1128/AEM.00598-18	journal	May 2018
Response of the Soil Microbial Community to Changes in Precipitation in a Semiarid Ecosystem Cregger, Melissa A.; Schadt, Christopher W.; McDowell, Nate G. Applied and Environmental Microbiology, Vol. 78, Issue 24 https://doi.org/10.1128/AEM.02050-12	journal	September 2012
Soil Microbial Community Responses to Multiple Experimental Climate Change Drivers Castro, H. F.; Classen, A. T.; Austin, E. E. Applied and Environmental Microbiology, Vol. 76, Issue 4 https://doi.org/10.1128/AEM.02874-09	journal	December 2009
Dynamics and Characterization of Refractory Dissolved Organic Matter Produced by a Pure Bacterial Culture in an Experimental Predator-Prey System Gruber, D. F.; Simjouw, J. -P.; Seitzinger, S. P. Applied and Environmental Microbiology, Vol. 72, Issue 6 https://doi.org/10.1128/AEM.02882-05	journal	June 2006
Human gut microbiome: hopes, threats and promises Cani, Patrice D. Gut, Vol. 67, Issue 9 https://doi.org/10.1136/gutjnl-2018-316723	journal	June 2018
Viruses in Soil Ecosystems: An Unknown Quantity Within an Unexplored Territory Williamson, Kurt E.; Fuhrmann, Jeffry J.; Wommack, K. Eric Annual Review of Virology, Vol. 4, Issue 1 https://doi.org/10.1146/annurev-virology-101416-041639	journal	September 2017
Enzymatic "Combustion": The Microbial Degradation of Lignin Kirk, T. K.; Farrell, R. L. Annual Review of Microbiology, Vol. 41, Issue 1, p. 465-501 https://doi.org/10.1146/annurev.mi.41.100187.002341	journal	October 1987
The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes Meyer, F.; Paarmann, D.; D'Souza, M. BMC Bioinformatics, Vol. 9, Issue 1 https://doi.org/10.1186/1471-2105-9-386	journal	September 2008
Identifying disease mutations in genomic medicine settings: current challenges and how to accelerate progress Lyon, Gholson J.; Wang, Kai Genome Medicine, Vol. 4, Issue 7 https://doi.org/10.1186/gm359	journal	January 2012
Feed in summer, rest in winter: microbial carbon utilization in forest topsoil Žifčáková, Lucia; Větrovský, Tomáš; Lombard, Vincent Microbiome, Vol. 5, Issue 1 https://doi.org/10.1186/s40168-017-0340-0	journal	September 2017
Accelerated Profile HMM Searches Eddy, Sean R. PLoS Computational Biology, Vol. 7, Issue 10 https://doi.org/10.1371/journal.pcbi.1002195	journal	October 2011
Machine learning to predict microbial community functions: An analysis of dissolved organic carbon from litter decomposition Thompson, Jaron; Johansen, Renee; Dunbar, John PLOS ONE, Vol. 14, Issue 7 https://doi.org/10.1371/journal.pone.0215502	journal	July 2019
Effects of initial microbial biomass abundance on respiration during pine litter decomposition Albright, Michaeline B. N.; Runde, Andreas; Lopez, Deanna PLOS ONE, Vol. 15, Issue 2 https://doi.org/10.1371/journal.pone.0224641	journal	February 2020
Interactions of Bacteria and Fungi on Decomposing Litter: Differential Extracellular Enzyme Activities Romaní, Anna M.; Fischer, Helmut; Mille-Lindblom, Cecilia Ecology, Vol. 87, Issue 10 https://doi.org/10.1890/0012-9658(2006)87[2559:IOBAFO]2.0.CO;2	journal	October 2006
Testing the functional significance of microbial community composition Strickland, Michael S.; Lauber, Christian; Fierer, Noah Ecology, Vol. 90, Issue 2 https://doi.org/10.1890/08-0296.1	journal	February 2009
Associations between species and groups of sites: indices and statistical inference Cáceres, Miquel De; Legendre, Pierre Ecology, Vol. 90, Issue 12 https://doi.org/10.1890/08-1823.1	journal	December 2009
Microbial composition alters the response of litter decomposition to environmental change Matulich, Kristin L.; Martiny, Jennifer B. H. Ecology, Vol. 96, Issue 1 https://doi.org/10.1890/14-0357.1	journal	January 2015
Global Change and the Soil Microbiome: A Human-Health Perspective Ochoa-Hueso, Raúl Frontiers in Ecology and Evolution, Vol. 5 https://doi.org/10.3389/fevo.2017.00071	journal	July 2017
Advances and Challenges in Metatranscriptomic Analysis Shakya, Migun; Lo, Chien-Chi; Chain, Patrick S. G. Frontiers in Genetics, Vol. 10 https://doi.org/10.3389/fgene.2019.00904	journal	September 2019
Environmental and Gut Bacteroidetes: The Food Connection Thomas, François; Hehemann, Jan-Hendrik; Rebuffet, Etienne Frontiers in Microbiology, Vol. 2 https://doi.org/10.3389/fmicb.2011.00093	journal	January 2011
Microbial control over carbon cycling in soil Schimel, Joshua P.; Schaeffer, Sean M. Frontiers in Microbiology, Vol. 3 https://doi.org/10.3389/fmicb.2012.00348	journal	January 2012
Microbial monoterpene transformationsâ€”a review Marmulla, Robert; Harder, Jens Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00346	journal	July 2014
Long-term forest soil warming alters microbial communities in temperate forest soils DeAngelis, Kristen M.; Pold, Grace; TopÃ§uoÄŸlu, BegÃ¼m D. Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00104	journal	February 2015
Forest floor community metatranscriptomes identify fungal and bacterial responses to N deposition in two maple forests Hesse, Cedar N.; Mueller, Rebecca C.; Vuyisich, Momchilo Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00337	journal	April 2015
Soil microbial responses to nitrogen addition in arid ecosystems Sinsabaugh, Robert L.; Belnap, Jayne; Rudgers, Jennifer Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00819	journal	August 2015
Representing life in the Earth system with soil microbial functional traits in the MIMICS model Wieder, W. R.; Grandy, A. S.; Kallenbach, C. M. Geoscientific Model Development, Vol. 8, Issue 6 https://doi.org/10.5194/gmd-8-1789-2015	journal	January 2015

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