Reduction of microbial diversity in grassland soil is driven by long-term climate warming

Wu, Linwei; Zhang, Ya; Guo, Xue; Ning, Daliang; Zhou, Xishu; Feng, Jiajie; Yuan, Mengting Maggie; Liu, Suo; Guo, Jiajing; Gao, Zhipeng; Ma, Jie; Kuang, Jialiang; Jian, Siyang; Han, Shun; Yang, Zhifeng; Ouyang, Yang; Fu, Ying; Xiao, Naijia; Liu, Xueduan; Wu, Liyou; Zhou, Aifen; Yang, Yunfeng; Tiedje, James M.; Zhou, Jizhong

doi:10.1038/s41564-022-01147-3

Reduction of microbial diversity in grassland soil is driven by long-term climate warming

Journal Article · Mon Jun 13 00:00:00 EDT 2022 · Nature Microbiology

DOI:https://doi.org/10.1038/s41564-022-01147-3· OSTI ID:1961820

Wu, Linwei ^[1]; Zhang, Ya ^[2]; Guo, Xue ^[3]; ^[2]; Zhou, Xishu ^[4]; Feng, Jiajie ^[2]; ^[5]; Liu, Suo ^[3]; Guo, Jiajing ^[6]; Gao, Zhipeng ^[7]; Ma, Jie ^[8]; ^[2]; ^[2]; Han, Shun ^[2]; Yang, Zhifeng ^[2]; Ouyang, Yang ^[2]; Fu, Ying ^[2]; Xiao, Naijia ^[2]; Liu, Xueduan ^[9]; Wu, Liyou ^[2] more »

Peking Univ., Beijing (China); Univ. of Oklahoma, Norman, OK (United States)
Univ. of Oklahoma, Norman, OK (United States)
Tsinghua Univ., Beijing (China)
Univ. of Oklahoma, Norman, OK (United States); Central South University (China)
Univ. of Oklahoma, Norman, OK (United States); Univ. of California, Berkeley, CA (United States)
Univ. of Oklahoma, Norman, OK (United States); Hunan Academy of Agricultural Sciences (China)
Univ. of Oklahoma, Norman, OK (United States); Hunan Agricultural University (China)
Univ. of Oklahoma, Norman, OK (United States); China University of Geosciences (Wuhan) (CUG), (China)
Central South University (China)
Michigan State Univ., East Lansing, MI (United States)
Univ. of Oklahoma, Norman, OK (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Anthropogenic climate change threatens ecosystem functioning. Soil biodiversity is essential for maintaining the health of terrestrial systems, but how climate change affects the richness and abundance of soil microbial communities remains unresolved. Here, we examined the effects of warming, altered precipitation and annual biomass removal on grassland soil bacterial, fungal and protistan communities over 7 years to determine how these representative climate changes impact microbial biodiversity and ecosystem functioning. We show that experimental warming and the concomitant reductions in soil moisture play a predominant role in shaping microbial biodiversity by decreasing the richness of bacteria (9.6%), fungi (14.5%) and protists (7.5%). Our results also show positive associations between microbial biodiversity and ecosystem functional processes, such as gross primary productivity and microbial biomass. We conclude that the detrimental effects of biodiversity loss might be more severe in a warmer world.

View Accepted Manuscript (DOE)

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

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

Grant/Contract Number:: AC02-05CH11231; SC0004601; SC0010715

OSTI ID:: 1961820

Journal Information:: Nature Microbiology, Journal Name: Nature Microbiology Journal Issue: 7 Vol. 7; ISSN 2058-5276

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: English

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Monthly variation in the probability of presence of adult Culicoides populations in nine European countries and the implications for targeted surveillance Cuéllar, Ana Carolina; Jung Kjær, Lene; Baum, Andreas Parasites & Vectors, Vol. 11, Issue 1 https://doi.org/10.1186/s13071-018-3182-0	journal	November 2018
Peripheral blood epi-signature of Claes-Jensen syndrome enables sensitive and specific identification of patients and healthy carriers with pathogenic mutations in KDM5C Schenkel, Laila C.; Aref-Eshghi, Erfan; Skinner, Cindy Clinical Epigenetics, Vol. 10, Issue 1 https://doi.org/10.1186/s13148-018-0453-8	journal	February 2018
osFP: a web server for predicting the oligomeric states of fluorescent proteins Simeon, Saw; Shoombuatong, Watshara; Anuwongcharoen, Nuttapat Journal of Cheminformatics, Vol. 8, Issue 1 https://doi.org/10.1186/s13321-016-0185-8	journal	December 2016
ChemSAR: an online pipelining platform for molecular SAR modeling Dong, Jie; Yao, Zhi-Jiang; Zhu, Min-Feng Journal of Cheminformatics, Vol. 9, Issue 1 https://doi.org/10.1186/s13321-017-0215-1	journal	May 2017
Open-source QSAR models for pKa prediction using multiple machine learning approaches Mansouri, Kamel; Cariello, Neal F.; Korotcov, Alexandru Journal of Cheminformatics, Vol. 11, Issue 1 https://doi.org/10.1186/s13321-019-0384-1	journal	September 2019
A multiple classifier system identifies novel cannabinoid CB2 receptor ligands Ruano-Ordás, David; Burggraaff, Lindsey; Liu, Rongfang Journal of Cheminformatics, Vol. 11, Issue 1 https://doi.org/10.1186/s13321-019-0389-9	journal	November 2019
A mass-market appraisal of the English housing rental market using a diverse range of modelling techniques Clark, Stephen D.; Lomax, Nik Journal of Big Data, Vol. 5, Issue 1 https://doi.org/10.1186/s40537-018-0154-3	journal	November 2018
Metabolite profile of a mouse model of Charcot–Marie–Tooth type 2D neuropathy: implications for disease mechanisms and interventions Bais, Preeti; Beebe, Kirk; Morelli, Kathryn H. Biology Open, Vol. 5, Issue 7 https://doi.org/10.1242/bio.019273	journal	June 2016
exprso: an R-package for the rapid implementation of machine learning algorithms Quinn, Thomas; Tylee, Daniel; Glatt, Stephen F1000Research, Vol. 5 https://doi.org/10.12688/f1000research.9893.1	journal	October 2016
Model Comparison for Breast Cancer Prognosis Based on Clinical Data Boughorbel, Sabri; Al-Ali, Rashid; Elkum, Naser PLOS ONE, Vol. 11, Issue 1 https://doi.org/10.1371/journal.pone.0146413	journal	January 2016
Mucopolysaccharidosis type II detection by Naïve Bayes Classifier: An example of patient classification for a rare disease using electronic medical records from the Canadian Primary Care Sentinel Surveillance Network Ehsani-Moghaddam, Behrouz; Queenan, John A.; MacKenzie, Jennifer PLOS ONE, Vol. 13, Issue 12 https://doi.org/10.1371/journal.pone.0209018	journal	December 2018
Towards a new osteometric method for sexing ancient cremated human remains. Analysis of Late Bronze Age and Iron Age samples from Italy with gendered grave goods Cavazzuti, Claudio; Bresadola, Benedetta; d’Innocenzo, Chiara PLOS ONE, Vol. 14, Issue 1 https://doi.org/10.1371/journal.pone.0209423	journal	January 2019
Development of a long non-coding RNA signature for prediction of response to neoadjuvant chemoradiotherapy in locally advanced rectal adenocarcinoma Ferrando, Lorenzo; Cirmena, Gabriella; Garuti, Anna PLOS ONE, Vol. 15, Issue 2 https://doi.org/10.1371/journal.pone.0226595	journal	February 2020
The Human Cytomegalovirus UL38 protein drives mTOR-independent metabolic flux reprogramming by inhibiting TSC2 Rodríguez-Sánchez, Irene; Schafer, Xenia L.; Monaghan, Morgan PLOS Pathogens, Vol. 15, Issue 1 https://doi.org/10.1371/journal.ppat.1007569	journal	January 2019
Linking the effects of helminth infection, diet and the gut microbiota with human whole-blood signatures Lee, Soo Ching; Tang, Mei San; Easton, Alice V. PLOS Pathogens, Vol. 15, Issue 12 https://doi.org/10.1371/journal.ppat.1008066	journal	December 2019
Multi-parametric and multi-regional histogram analysis of MRI: modality integration reveals imaging phenotypes of glioblastoma. Li, Chao; Wang, Shuo; Serra, Angela Springer Science and Business Media LLC https://doi.org/10.17863/cam.37196	journalarticle	January 2019
Development of a four-gene prognostic model for pancreatic cancer based on transcriptome dysregulation Yan, Jie; Wu, Liangcai; Jia, Congwei Aging, Vol. 12, Issue 4 https://doi.org/10.18632/aging.102844	journal	February 2020
Classification and Regression Tree and Computer Adaptive Testing in Cardiac Rehabilitation: Instrument Validation Study Peute, Linda; Scheeve, Thom; Jaspers, Monique Journal of Medical Internet Research, Vol. 22, Issue 1 https://doi.org/10.2196/12509	journal	January 2020
Measuring Regional Quality of Health Care Using Unsolicited Online Data: Text Analysis Study Hendrikx, Roy Johannus Petrus; Drewes, Hanneke Wil-Trees; Spreeuwenberg, Marieke JMIR Medical Informatics, Vol. 7, Issue 4 https://doi.org/10.2196/13053	journal	December 2019
Designed Surface Topographies Control ICAM-1 Expression in Tonsil-Derived Human Stromal Cells Vasilevich, Aliaksei S.; Mourcin, Frédéric; Mentink, Anouk Frontiers in Bioengineering and Biotechnology, Vol. 6 https://doi.org/10.3389/fbioe.2018.00087	journal	June 2018
The Interactomic Analysis Reveals Pathogenic Protein Networks in Phomopsis longicolla Underlying Seed Decay of Soybean Li, Shuxian; Musungu, Bryan; Lightfoot, David Frontiers in Genetics, Vol. 9 https://doi.org/10.3389/fgene.2018.00104	journal	April 2018
Pan-Cancer and Single-Cell Modeling of Genomic Alterations Through Gene Expression Mercatelli, Daniele; Ray, Forest; Giorgi, Federico M. Frontiers in Genetics, Vol. 10 https://doi.org/10.3389/fgene.2019.00671	journal	July 2019
Differentiating Patients at the Memory Clinic With Simple Reaction Time Variables: A Predictive Modeling Approach Using Support Vector Machines and Bayesian Optimization Wallert, John; Westman, Eric; Ulinder, Johnny Frontiers in Aging Neuroscience, Vol. 10 https://doi.org/10.3389/fnagi.2018.00144	journal	May 2018
Predicting Age From Brain EEG Signals—A Machine Learning Approach Al Zoubi, Obada; Ki Wong, Chung; Kuplicki, Rayus T. Frontiers in Aging Neuroscience, Vol. 10 https://doi.org/10.3389/fnagi.2018.00184	journal	July 2018
Machine Learning and Feature Selection Methods for Disease Classification With Application to Lung Cancer Screening Image Data Delzell, Darcie A. P.; Magnuson, Sara; Peter, Tabitha Frontiers in Oncology, Vol. 9 https://doi.org/10.3389/fonc.2019.01393	journal	December 2019
Decision Tree for Early Detection of Cognitive Impairment by Community Pharmacists Climent, Maria Teresa; Pardo, Juan; Muñoz-Almaraz, Francisco Javier Frontiers in Pharmacology, Vol. 9 https://doi.org/10.3389/fphar.2018.01232	journal	October 2018
Genetic Correlation, Genome-Wide Association and Genomic Prediction of Portable NIRS Predicted Carotenoids in Cassava Roots Ikeogu, Ugochukwu N.; Akdemir, Deniz; Wolfe, Marnin D. Frontiers in Plant Science, Vol. 10 https://doi.org/10.3389/fpls.2019.01570	journal	December 2019
Cross-Validation Approaches for Replicability in Psychology Koul, Atesh; Becchio, Cristina; Cavallo, Andrea Frontiers in Psychology, Vol. 9 https://doi.org/10.3389/fpsyg.2018.01117	journal	July 2018
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Using Machine Learning to Predict Swine Movements within a Regional Program to Improve Control of Infectious Diseases in the US Valdes-Donoso, Pablo; VanderWaal, Kimberly; Jarvis, Lovell S. Frontiers in Veterinary Science, Vol. 4 https://doi.org/10.3389/fvets.2017.00002	journal	January 2017
Personalized Prediction of Acquired Resistance to EGFR-Targeted Inhibitors Using a Pathway-Based Machine Learning Approach Kim, Young; Kim, Yong; Lee, Suh Cancers, Vol. 11, Issue 1 https://doi.org/10.3390/cancers11010045	journal	January 2019
Metabolomic Profiling of Cerebral Palsy Brain Tissue Reveals Novel Central Biomarkers and Biochemical Pathways Associated with the Disease: A Pilot Study Alpay Savasan, Zeynep; Yilmaz, Ali; Ugur, Zafer Metabolites, Vol. 9, Issue 2 https://doi.org/10.3390/metabo9020027	journal	February 2019
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Comparative Performance Analysis of Support Vector Machine, Random Forest, Logistic Regression and k-Nearest Neighbours in Rainbow Trout (Oncorhynchus Mykiss) Classification Using Image-Based Features Saberioon, Mohammadmehdi; Císař, Petr; Labbé, Laurent Sensors, Vol. 18, Issue 4 https://doi.org/10.3390/s18041027	journal	March 2018
Spectral Identification of Disease in Weeds Using Multilayer Perceptron with Automatic Relevance Determination Tamouridou, Afroditi; Pantazi, Xanthoula; Alexandridis, Thomas Sensors, Vol. 18, Issue 9 https://doi.org/10.3390/s18092770	journal	August 2018
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Application of the Intermittency Ratio Metric for the Classification of Urban Sites Based on Road Traffic Noise Events Brambilla, Giovanni; Confalonieri, Chiara; Benocci, Roberto Sensors, Vol. 19, Issue 23 https://doi.org/10.3390/s19235136	journal	November 2019
A 21‑gene Support Vector Machine classifier and a 10‑gene risk score system constructed for patients with gastric cancer Jiang, Hui; Gu, Jiming; Du, Jun Molecular Medicine Reports https://doi.org/10.3892/mmr.2019.10841	journal	November 2019
The evolution of the vestibular apparatus in apes and humans Urciuoli, Alessandro; Zanolli, Clément; Beaudet, Amélie eLife, Vol. 9 https://doi.org/10.7554/elife.51261	journal	March 2020
voomDDA: discovery of diagnostic biomarkers and classification of RNA-seq data Zararsiz, Gokmen; Goksuluk, Dincer; Klaus, Bernd PeerJ, Vol. 5 https://doi.org/10.7717/peerj.3890	journal	January 2017
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Non-H3 CDR template selection in antibody modeling through machine learning Long, Xiyao; Jeliazkov, Jeliazko R.; Gray, Jeffrey J. PeerJ, Vol. 7 https://doi.org/10.7717/peerj.6179	journal	January 2019
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