Progressive Microbial Community Networks with Incremental Organic Loading Rates Underlie Higher Anaerobic Digestion Performance

Wu, Linwei; Shan, Xiaoyu; Chen, Si; Zhang, Qiuting; Qi, Qi; Qin, Ziyan; Yin, Huaqun; Zhou, Jizhong; He, Qiang; Yang, Yunfeng; O’Dwyer, James P.

doi:10.1128/msystems.00357-19

Title: Progressive Microbial Community Networks with Incremental Organic Loading Rates Underlie Higher Anaerobic Digestion Performance

Journal Article · Tue Jan 07 00:00:00 UTC 2020 · mSystems

DOI: https://doi.org/10.1128/msystems.00357-19 · OSTI ID:1626182

Wu, Linwei ^[1]; Shan, Xiaoyu ^[2]; Chen, Si ^[3]; Zhang, Qiuting ^[2]; Qi, Qi ^[2]; Qin, Ziyan ^[2];

^[4]; Zhou, Jizhong ^[5]; He, Qiang ^[6];

^[2]; O’Dwyer, James P.

Univ. of Oklahoma, Norman, OK (United States). Inst. for Environmental Genomics; Univ. of Oklahoma, Norman, OK (United States). Dept. of Microbiology and Plant Biology; DOE/OSTI
Tsinghua Univ., Beijing, China. State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment
The Univ. of Tennessee, Knoxville, TN (United States). Dept. of Civil and Environmental Engineering
Central South University, Changsha, China. School of Minerals Processing and Bioengineering
Univ. of Oklahoma, Norman, OK (United States). Inst. for Environmental Genomics; Univ. of Oklahoma, Norman, OK (United States). Dept. of Microbiology and Plant Biology; Tsinghua University, Beijing, China. State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Earth Sciences Division
The Univ. of Tennessee, Knoxville, TN (United States). Dept. of Civil and Environmental Engineering, and the Institute for a Secure and Sustainable Environment,

Although biotic interactions among members of microbial communities have been conceived to be crucial for community assembly, it remains unclear how changes in environmental conditions affect microbial interaction and consequently system performance. Here, we adopted a random matrix theory-based network analysis to explore microbial interactions in triplicate anaerobic digestion (AD) systems, which is widely applied for organic pollutant treatments. The digesters were operated with incremental organic loading rates (OLRs) from 1.0 g volatile solids (VS)/liter/day to 1.3 g VS/liter/day and then to 1.5 g VS/liter/day, which increased VS removal and methane production proportionally. Higher resource availability led to networks with higher connectivity and shorter harmonic geodesic distance, suggestive of more intense microbial interactions and quicker responses to environmental changes. Strikingly, a number of topological properties of microbial network showed significant (P< 0.05) correlation with AD performance (i.e., methane production, biogas production, and VS removal). When controlling for environmental parameters (e.g., total ammonia, pH, and the VS load), node connectivity, especially that of the methanogenic archaeal network, still correlated with AD performance. Last, we identified theMethanothermus,Methanobacterium,Chlorobium, andHaloarculataxa and an unclassifiedThaumarchaeotataxon as keystone nodes of the network.

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

Sponsoring Organization:: National Science Foundation of China; Office of the Vice President for Research at the University of Oklahoma; Science Alliance—Tennessee Center of Excellence; U.S. Environmental Protection Agency (EPA); USDOE Office of Science (SC); the Institute for a Secure and Sustainable Environment

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1626182

Journal Information:: mSystems, Journal Name: mSystems Journal Issue: 1 Vol. 5; ISSN 2379-5077

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

References (93)

Co-occurence of Crenarchaeota, Thermoplasmata and methanogens in anaerobic sludge digesters Chouari, Rakia; Guermazi, Sonda; Sghir, Abdelghani World Journal of Microbiology and Biotechnology, Vol. 31, Issue 5 https://doi.org/10.1007/s11274-015-1834-1	journal	March 2015
Robustness of archaeal populations in anaerobic co-digestion of dairy and poultry wastes Zhang, Yan; Zamudio Cañas, Esteban M.; Zhu, Zhenwei Bioresource Technology, Vol. 102, Issue 2 https://doi.org/10.1016/j.biortech.2010.08.104	journal	January 2011
Molecular characterization of anaerobic digester microbial communities identifies microorganisms that correlate to reactor performance Town, Jennifer R.; Links, Matthew G.; Fonstad, Terrance A. Bioresource Technology, Vol. 151 https://doi.org/10.1016/j.biortech.2013.10.070	journal	January 2014
Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing Zakrzewski, Martha; Goesmann, Alexander; Jaenicke, Sebastian Journal of Biotechnology, Vol. 158, Issue 4 https://doi.org/10.1016/j.jbiotec.2012.01.020	journal	April 2012
Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation Hanreich, Angelika; Schimpf, Ulrike; Zakrzewski, Martha Systematic and Applied Microbiology, Vol. 36, Issue 5 https://doi.org/10.1016/j.syapm.2013.03.006	journal	July 2013
Enhanced biogas production from anaerobic codigestion of solid waste by sonolysis Cesaro, Alessandra; Naddeo, Vincenzo; Amodio, Valeria Ultrasonics Sonochemistry, Vol. 19, Issue 3 https://doi.org/10.1016/j.ultsonch.2011.09.002	journal	May 2012
Long-term successional dynamics of microbial association networks in anaerobic digestion processes Wu, Linwei; Yang, Yunfeng; Chen, Si Water Research, Vol. 104 https://doi.org/10.1016/j.watres.2016.07.072	journal	November 2016
Solids removal in upflow anaerobic reactors, a review Mahmoud, Nidal; Zeeman, Grietje; Gijzen, Huub Bioresource Technology, Vol. 90, Issue 1 https://doi.org/10.1016/s0960-8524(03)00095-6	journal	October 2003
Coherent dynamics and association networks among lake bacterioplankton taxa Eiler, Alexander; Heinrich, Friederike; Bertilsson, Stefan The ISME Journal, Vol. 6, Issue 2 https://doi.org/10.1038/ismej.2011.113	journal	September 2011
The microbe-mediated mechanisms affecting topsoil carbon stock in Tibetan grasslands Yue, Haowei; Wang, Mengmeng; Wang, Shiping The ISME Journal, Vol. 9, Issue 9 https://doi.org/10.1038/ismej.2015.19	journal	February 2015
Correlation detection strategies in microbial data sets vary widely in sensitivity and precision Weiss, Sophie; Van Treuren, Will; Lozupone, Catherine The ISME Journal, Vol. 10, Issue 7 https://doi.org/10.1038/ismej.2015.235	journal	February 2016
Geographic patterns of co-occurrence network topological features for soil microbiota at continental scale in eastern China Ma, Bin; Wang, Haizhen; Dsouza, Melissa The ISME Journal, Vol. 10, Issue 8 https://doi.org/10.1038/ismej.2015.261	journal	January 2016
Microbial functional trait of rRNA operon copy numbers increases with organic levels in anaerobic digesters Wu, Linwei; Yang, Yunfeng; Chen, Si The ISME Journal, Vol. 11, Issue 12 https://doi.org/10.1038/ismej.2017.135	journal	August 2017
Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling Wu, Linwei; Yang, Yunfeng; Wang, Shiping The ISME Journal, Vol. 11, Issue 9 https://doi.org/10.1038/ismej.2017.75	journal	May 2017
Microbial interactions: from networks to models Faust, Karoline; Raes, Jeroen Nature Reviews Microbiology, Vol. 10, Issue 8 https://doi.org/10.1038/nrmicro2832	journal	July 2012
Use and abuse of correlation analyses in microbial ecology Carr, Alex; Diener, Christian; Baliga, Nitin S. The ISME Journal, Vol. 13, Issue 11 https://doi.org/10.1038/s41396-019-0459-z	journal	June 2019
Horizontal gene transfer enables programmable gene stability in synthetic microbiota Wang, Teng; Weiss, Andrea; Aqeel, Ammara Nature Chemical Biology, Vol. 18, Issue 11 https://doi.org/10.1038/s41589-022-01114-3	journal	September 2022
A study of associations between CUBN, HNF1A, and LIPC gene polymorphisms and coronary artery disease Park, Han Sung; Kim, In Jai; Kim, Eun Gyo Scientific Reports, Vol. 10, Issue 1 https://doi.org/10.1038/s41598-020-73048-6	journal	October 2020
Network structure and biodiversity loss in food webs: robustness increases with connectance Dunne, Jennifer A.; Williams, Richard J.; Martinez, Neo D. Ecology Letters, Vol. 5, Issue 4 https://doi.org/10.1046/j.1461-0248.2002.00354.x	journal	July 2002
The modularity of pollination networks Olesen, J. M.; Bascompte, J.; Dupont, Y. L. Proceedings of the National Academy of Sciences, Vol. 104, Issue 50 https://doi.org/10.1073/pnas.0706375104	journal	December 2007
A latitudinal diversity gradient in planktonic marine bacteria Fuhrman, J. A.; Steele, J. A.; Hewson, I. Proceedings of the National Academy of Sciences, Vol. 105, Issue 22 https://doi.org/10.1073/pnas.0803070105	journal	May 2008
The interactive effects of soil transplant into colder regions and cropping on soil microbiology and biogeochemistry: Effects of northward soil transplant and cropping Liu, Shanshan; Wang, Feng; Xue, Kai Environmental Microbiology, Vol. 17, Issue 3 https://doi.org/10.1111/1462-2920.12398	journal	February 2014
454 pyrosequencing analyses of bacterial and archaeal richness in 21 full-scale biogas digesters Sundberg, Carina; Al-Soud, Waleed A.; Larsson, Madeleine FEMS Microbiology Ecology, Vol. 85, Issue 3 https://doi.org/10.1111/1574-6941.12148	journal	June 2013
mcrA Gene abundance correlates with hydrogenotrophic methane production rates in full-scale anaerobic waste treatment systems Morris, R. L.; Tale, V. P.; Mathai, P. P. Letters in Applied Microbiology, Vol. 62, Issue 2 https://doi.org/10.1111/lam.12515	journal	December 2015
Soil organic matter quantity and quality shape microbial community compositions of subtropical broadleaved forests Ding, Junjun; Zhang, Yuguang; Wang, Mengmeng Molecular Ecology, Vol. 24, Issue 20 https://doi.org/10.1111/mec.13384	journal	October 2015
Divergent taxonomic and functional responses of microbial communities to field simulation of aeolian soil erosion and deposition Ma, Xingyu; Zhao, Cancan; Gao, Ying Molecular Ecology, Vol. 26, Issue 16 https://doi.org/10.1111/mec.14194	journal	July 2017
Illuminating Microbial Dark Matter in Meromictic Sakinaw Lake Gies, Esther A.; Konwar, Kishori M.; Beatty, J. Thomas Applied and Environmental Microbiology, Vol. 80, Issue 21 https://doi.org/10.1128/aem.01774-14	journal	August 2014
Phylogeny of All Recognized Species of Ammonia Oxidizers Based on Comparative 16S rRNA and amoA Sequence Analysis: Implications for Molecular Diversity Surveys Purkhold, U.; Pommerening-Roser, A.; Juretschko, S. Applied and Environmental Microbiology, Vol. 66, Issue 12 https://doi.org/10.1128/aem.66.12.5368-5382.2000	journal	December 2000
Phylogenetic Molecular Ecological Network of Soil Microbial Communities in Response to Elevated CO2 Zhou, Jizhong; Deng, Ye; Luo, Feng mBio, Vol. 2, Issue 4 https://doi.org/10.1128/mbio.00122-11	journal	July 2011
Functional Molecular Ecological Networks Zhou, Jizhong; Deng, Ye; Luo, Feng mBio, Vol. 1, Issue 4 https://doi.org/10.1128/mbio.00169-10	journal	October 2010
Zonal Soil Type Determines Soil Microbial Responses to Maize Cropping and Fertilization Zhao, Mengxin; Sun, Bo; Wu, Linwei mSystems, Vol. 1, Issue 4 https://doi.org/10.1128/msystems.00075-16	journal	July 2016
Molecular ecological network analyses Deng, Ye; Jiang, Yi-Huei; Yang, Yunfeng BMC Bioinformatics, Vol. 13, Issue 1 https://doi.org/10.1186/1471-2105-13-113	journal	January 2012
Constructing gene co-expression networks and predicting functions of unknown genes by random matrix theory Luo, Feng; Yang, Yunfeng; Zhong, Jianxin BMC Bioinformatics, Vol. 8, Issue 1 https://doi.org/10.1186/1471-2105-8-299	journal	January 2007
Snapshot of iron response in Shewanella oneidensis by gene network reconstruction Yang, Yunfeng; Harris, Daniel P.; Luo, Feng BMC Genomics, Vol. 10, Issue 1 https://doi.org/10.1186/1471-2164-10-131	journal	January 2009
The core populations and co-occurrence patterns of prokaryotic communities in household biogas digesters Rui, Junpeng; Li, Jiabao; Zhang, Shiheng Biotechnology for Biofuels, Vol. 8, Issue 1 https://doi.org/10.1186/s13068-015-0339-3	journal	September 2015
Bacteriophage–prokaryote dynamics and interaction within anaerobic digestion processes across time and space Zhang, Junyu; Gao, Qun; Zhang, Qiuting Microbiome, Vol. 5, Issue 1 https://doi.org/10.1186/s40168-017-0272-8	journal	May 2017
Microbial interspecies interactions: recent findings in syntrophic consortia Kouzuma, Atsushi; Kato, Souichiro; Watanabe, Kazuya Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00477	journal	May 2015
Sparse and compositionally robust inference of microbial ecological networks Kurtz, Zachary D.; Mueller, Christian L.; Miraldi, Emily R. arXiv https://doi.org/10.48550/arxiv.1408.4158	text	January 2014
A global network of coexisting microbes from environmental and whole-genome sequence data Chaffron, S.; Rehrauer, H.; Pernthaler, J. Cold Spring Harbor Laboratory Press https://doi.org/10.5167/uzh-34788	text	January 2010
Fundamental contradictions among observational and experimental estimates of non-trophic species interactions Barner, Allison K.; Coblentz, Kyle E.; Hacker, Sally D. Ecology, Vol. 99, Issue 3 https://doi.org/10.1002/ecy.2133	journal	January 2018
Co-occurence of Crenarchaeota, Thermoplasmata and methanogens in anaerobic sludge digesters Chouari, Rakia; Guermazi, Sonda; Sghir, Abdelghani World Journal of Microbiology and Biotechnology, Vol. 31, Issue 5 https://doi.org/10.1007/s11274-015-1834-1	journal	March 2015
Robustness of archaeal populations in anaerobic co-digestion of dairy and poultry wastes Zhang, Yan; Zamudio Cañas, Esteban M.; Zhu, Zhenwei Bioresource Technology, Vol. 102, Issue 2 https://doi.org/10.1016/j.biortech.2010.08.104	journal	January 2011
Molecular characterization of anaerobic digester microbial communities identifies microorganisms that correlate to reactor performance Town, Jennifer R.; Links, Matthew G.; Fonstad, Terrance A. Bioresource Technology, Vol. 151 https://doi.org/10.1016/j.biortech.2013.10.070	journal	January 2014
Microbial communities in anaerobic digestion processes for waste and wastewater treatment: a microbiological update Narihiro, Takashi; Sekiguchi, Yuji Current Opinion in Biotechnology, Vol. 18, Issue 3 https://doi.org/10.1016/j.copbio.2007.04.003	journal	June 2007
Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing Zakrzewski, Martha; Goesmann, Alexander; Jaenicke, Sebastian Journal of Biotechnology, Vol. 158, Issue 4 https://doi.org/10.1016/j.jbiotec.2012.01.020	journal	April 2012
Outlining microbial community dynamics during temperature drop and subsequent recovery period in anaerobic co-digestion systems Regueiro, Leticia; Carballa, Marta; Lema, Juan M. Journal of Biotechnology, Vol. 192 https://doi.org/10.1016/j.jbiotec.2014.10.007	journal	December 2014
Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation Hanreich, Angelika; Schimpf, Ulrike; Zakrzewski, Martha Systematic and Applied Microbiology, Vol. 36, Issue 5 https://doi.org/10.1016/j.syapm.2013.03.006	journal	July 2013
Enhanced biogas production from anaerobic codigestion of solid waste by sonolysis Cesaro, Alessandra; Naddeo, Vincenzo; Amodio, Valeria Ultrasonics Sonochemistry, Vol. 19, Issue 3 https://doi.org/10.1016/j.ultsonch.2011.09.002	journal	May 2012
Long-term successional dynamics of microbial association networks in anaerobic digestion processes Wu, Linwei; Yang, Yunfeng; Chen, Si Water Research, Vol. 104 https://doi.org/10.1016/j.watres.2016.07.072	journal	November 2016
Solids removal in upflow anaerobic reactors, a review Mahmoud, Nidal; Zeeman, Grietje; Gijzen, Huub Bioresource Technology, Vol. 90, Issue 1 https://doi.org/10.1016/s0960-8524(03)00095-6	journal	October 2003
Coherent dynamics and association networks among lake bacterioplankton taxa Eiler, Alexander; Heinrich, Friederike; Bertilsson, Stefan The ISME Journal, Vol. 6, Issue 2 https://doi.org/10.1038/ismej.2011.113	journal	September 2011
Crenarchaeal heterotrophy in salt marsh sediments Seyler, Lauren M.; McGuinness, Lora M.; Kerkhof, Lee J. The ISME Journal, Vol. 8, Issue 7 https://doi.org/10.1038/ismej.2014.15	journal	February 2014
The microbe-mediated mechanisms affecting topsoil carbon stock in Tibetan grasslands Yue, Haowei; Wang, Mengmeng; Wang, Shiping The ISME Journal, Vol. 9, Issue 9 https://doi.org/10.1038/ismej.2015.19	journal	February 2015
Correlation detection strategies in microbial data sets vary widely in sensitivity and precision Weiss, Sophie; Van Treuren, Will; Lozupone, Catherine The ISME Journal, Vol. 10, Issue 7 https://doi.org/10.1038/ismej.2015.235	journal	February 2016
Geographic patterns of co-occurrence network topological features for soil microbiota at continental scale in eastern China Ma, Bin; Wang, Haizhen; Dsouza, Melissa The ISME Journal, Vol. 10, Issue 8 https://doi.org/10.1038/ismej.2015.261	journal	January 2016
Microbial functional trait of rRNA operon copy numbers increases with organic levels in anaerobic digesters Wu, Linwei; Yang, Yunfeng; Chen, Si The ISME Journal, Vol. 11, Issue 12 https://doi.org/10.1038/ismej.2017.135	journal	August 2017
Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling Wu, Linwei; Yang, Yunfeng; Wang, Shiping The ISME Journal, Vol. 11, Issue 9 https://doi.org/10.1038/ismej.2017.75	journal	May 2017
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
Microbial interactions: from networks to models Faust, Karoline; Raes, Jeroen Nature Reviews Microbiology, Vol. 10, Issue 8 https://doi.org/10.1038/nrmicro2832	journal	July 2012
Use and abuse of correlation analyses in microbial ecology Carr, Alex; Diener, Christian; Baliga, Nitin S. The ISME Journal, Vol. 13, Issue 11 https://doi.org/10.1038/s41396-019-0459-z	journal	June 2019
Biogeographical patterns and mechanisms of microbial community assembly that underlie successional biocrusts across northern China Li, Yuanlong; Hu, Chunxiang npj Biofilms and Microbiomes, Vol. 7, Issue 1 https://doi.org/10.1038/s41522-021-00188-6	journal	February 2021
The microbiome beyond the horizon of ecological and evolutionary theory Koskella, Britt; Hall, Lindsay J.; Metcalf, C. Jessica E. Nature Ecology & Evolution, Vol. 1, Issue 11 https://doi.org/10.1038/s41559-017-0340-2	journal	October 2017
Network structure and biodiversity loss in food webs: robustness increases with connectance Dunne, Jennifer A.; Williams, Richard J.; Martinez, Neo D. Ecology Letters, Vol. 5, Issue 4 https://doi.org/10.1046/j.1461-0248.2002.00354.x	journal	July 2002
The modularity of pollination networks Olesen, J. M.; Bascompte, J.; Dupont, Y. L. Proceedings of the National Academy of Sciences, Vol. 104, Issue 50 https://doi.org/10.1073/pnas.0706375104	journal	December 2007
A latitudinal diversity gradient in planktonic marine bacteria Fuhrman, J. A.; Steele, J. A.; Hewson, I. Proceedings of the National Academy of Sciences, Vol. 105, Issue 22 https://doi.org/10.1073/pnas.0803070105	journal	May 2008
FLASH: fast length adjustment of short reads to improve genome assemblies Magoc, T.; Salzberg, S. L. Bioinformatics, Vol. 27, Issue 21 https://doi.org/10.1093/bioinformatics/btr507	journal	September 2011
Adaptive linear step-up procedures that control the false discovery rate Benjamini, Yoav; Krieger, Abba M.; Yekutieli, Daniel Biometrika, Vol. 93, Issue 3 https://doi.org/10.1093/biomet/93.3.491	journal	September 2006
From hairballs to hypotheses–biological insights from microbial networks Röttjers, Lisa; Faust, Karoline FEMS Microbiology Reviews, Vol. 42, Issue 6 https://doi.org/10.1093/femsre/fuy030	journal	July 2018
A global network of coexisting microbes from environmental and whole-genome sequence data Chaffron, S.; Rehrauer, H.; Pernthaler, J. Genome Research, Vol. 20, Issue 7 https://doi.org/10.1101/gr.104521.109	journal	May 2010
Application of random matrix theory to microarray data for discovering functional gene modules Luo, Feng; Zhong, Jianxin; Yang, Yunfeng Physical Review E, Vol. 73, Issue 3 https://doi.org/10.1103/PhysRevE.73.031924	journal	March 2006
The interactive effects of soil transplant into colder regions and cropping on soil microbiology and biogeochemistry: Effects of northward soil transplant and cropping Liu, Shanshan; Wang, Feng; Xue, Kai Environmental Microbiology, Vol. 17, Issue 3 https://doi.org/10.1111/1462-2920.12398	journal	February 2014
454 pyrosequencing analyses of bacterial and archaeal richness in 21 full-scale biogas digesters Sundberg, Carina; Al-Soud, Waleed A.; Larsson, Madeleine FEMS Microbiology Ecology, Vol. 85, Issue 3 https://doi.org/10.1111/1574-6941.12148	journal	June 2013
mcrA Gene abundance correlates with hydrogenotrophic methane production rates in full-scale anaerobic waste treatment systems Morris, R. L.; Tale, V. P.; Mathai, P. P. Letters in Applied Microbiology, Vol. 62, Issue 2 https://doi.org/10.1111/lam.12515	journal	December 2015
Soil organic matter quantity and quality shape microbial community compositions of subtropical broadleaved forests Ding, Junjun; Zhang, Yuguang; Wang, Mengmeng Molecular Ecology, Vol. 24, Issue 20 https://doi.org/10.1111/mec.13384	journal	October 2015
Divergent taxonomic and functional responses of microbial communities to field simulation of aeolian soil erosion and deposition Ma, Xingyu; Zhao, Cancan; Gao, Ying Molecular Ecology, Vol. 26, Issue 16 https://doi.org/10.1111/mec.14194	journal	July 2017
Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla Wrighton, K. C.; Thomas, B. C.; Sharon, I. Science, Vol. 337, Issue 6102 https://doi.org/10.1126/science.1224041	journal	September 2012
Illuminating Microbial Dark Matter in Meromictic Sakinaw Lake Gies, Esther A.; Konwar, Kishori M.; Beatty, J. Thomas Applied and Environmental Microbiology, Vol. 80, Issue 21 https://doi.org/10.1128/AEM.01774-14	journal	August 2014
Phylogeny of All Recognized Species of Ammonia Oxidizers Based on Comparative 16S rRNA and amoA Sequence Analysis: Implications for Molecular Diversity Surveys Purkhold, U.; Pommerening-Roser, A.; Juretschko, S. Applied and Environmental Microbiology, Vol. 66, Issue 12 https://doi.org/10.1128/aem.66.12.5368-5382.2000	journal	December 2000
Phylogenetic Molecular Ecological Network of Soil Microbial Communities in Response to Elevated CO2 Zhou, Jizhong; Deng, Ye; Luo, Feng mBio, Vol. 2, Issue 4 https://doi.org/10.1128/mBio.00122-11	journal	July 2011
Functional Molecular Ecological Networks Zhou, Jizhong; Deng, Ye; Luo, Feng mBio, Vol. 1, Issue 4 https://doi.org/10.1128/mBio.00169-10	journal	October 2010
Zonal Soil Type Determines Soil Microbial Responses to Maize Cropping and Fertilization Zhao, Mengxin; Sun, Bo; Wu, Linwei mSystems, Vol. 1, Issue 4 https://doi.org/10.1128/mSystems.00075-16	journal	July 2016
Molecular ecological network analyses Deng, Ye; Jiang, Yi-Huei; Yang, Yunfeng BMC Bioinformatics, Vol. 13, Issue 1 https://doi.org/10.1186/1471-2105-13-113	journal	January 2012
Constructing gene co-expression networks and predicting functions of unknown genes by random matrix theory Luo, Feng; Yang, Yunfeng; Zhong, Jianxin BMC Bioinformatics, Vol. 8, Issue 1 https://doi.org/10.1186/1471-2105-8-299	journal	January 2007
Snapshot of iron response in Shewanella oneidensis by gene network reconstruction Yang, Yunfeng; Harris, Daniel P.; Luo, Feng BMC Genomics, Vol. 10, Issue 1 https://doi.org/10.1186/1471-2164-10-131	journal	January 2009
Succession of endophytic fungi and arbuscular mycorrhizal fungi associated with the growth of plant and their correlation with secondary metabolites in the roots of plants Dang, Hanli; Zhang, Tao; Wang, Zhongke BMC Plant Biology, Vol. 21, Issue 1 https://doi.org/10.1186/s12870-021-02942-6	journal	April 2021
The core populations and co-occurrence patterns of prokaryotic communities in household biogas digesters Rui, Junpeng; Li, Jiabao; Zhang, Shiheng Biotechnology for Biofuels, Vol. 8, Issue 1 https://doi.org/10.1186/s13068-015-0339-3	journal	September 2015
Bacteriophage–prokaryote dynamics and interaction within anaerobic digestion processes across time and space Zhang, Junyu; Gao, Qun; Zhang, Qiuting Microbiome, Vol. 5, Issue 1 https://doi.org/10.1186/s40168-017-0272-8	journal	May 2017
Sparse and Compositionally Robust Inference of Microbial Ecological Networks Kurtz, Zachary D.; Müller, Christian L.; Miraldi, Emily R. PLOS Computational Biology, Vol. 11, Issue 5 https://doi.org/10.1371/journal.pcbi.1004226	journal	May 2015
Microbial interspecies interactions: recent findings in syntrophic consortia Kouzuma, Atsushi; Kato, Souichiro; Watanabe, Kazuya Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00477	journal	May 2015
Sparse and compositionally robust inference of microbial ecological networks Kurtz, Zachary D.; Mueller, Christian L.; Miraldi, Emily R. arXiv https://doi.org/10.48550/arxiv.1408.4158	text	January 2014
A global network of coexisting microbes from environmental and whole-genome sequence data Chaffron, S.; Rehrauer, H.; Pernthaler, J. Cold Spring Harbor Laboratory Press https://doi.org/10.5167/uzh-34788	text	January 2010
The core populations and co-occurrence patterns of prokaryotic communities in household biogas digesters Rui, Junpeng; Li, Jiabao; Zhang, Shiheng Figshare https://doi.org/10.6084/m9.figshare.c.3637112	collection	January 2015
Bacteriophage–prokaryote dynamics and interaction within anaerobic digestion processes across time and space Zhang, Junyu; Gao, Qun; Zhang, Qiuting figshare https://doi.org/10.6084/m9.figshare.c.3792211	collection	January 2017

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