skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Exploring the roles of microbes in facilitating plant adaptation to climate change

Abstract

Plants benefit from their close association with soil microbes which assist in their response to abiotic and biotic stressors. Yet much of what we know about plant stress responses is based on studies where the microbial partners were uncontrolled and unknown. Under climate change, the soil microbial community will also be sensitive to and respond to abiotic and biotic stressors. Thus, facilitating plant adaptation to climate change will require a systems-based approach that accounts for the multi-dimensional nature of plant–microbe–environment interactions. In this perspective, we highlight some of the key factors influencing plant–microbe interactions under stress as well as new tools to facilitate the controlled study of their molecular complexity, such as fabricated ecosystems and synthetic communities. When paired with genomic and biochemical methods, these tools provide researchers with more precision, reproducibility, and manipulability for exploring plant–microbe–environment interactions under a changing climate.

Authors:
 [1]; ORCiD logo [1]
  1. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1855211
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Biochemical Journal
Additional Journal Information:
Journal Volume: 479; Journal Issue: 3; Journal ID: ISSN 0264-6021
Publisher:
Biochemical Society
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; climate change; fabricated ecosystems; microbiome; plant biology; plant–microbe interactions; synthetic communities

Citation Formats

Barnes, Elle M., and Tringe, Susannah G. Exploring the roles of microbes in facilitating plant adaptation to climate change. United States: N. p., 2022. Web. doi:10.1042/bcj20210793.
Barnes, Elle M., & Tringe, Susannah G. Exploring the roles of microbes in facilitating plant adaptation to climate change. United States. https://doi.org/10.1042/bcj20210793
Barnes, Elle M., and Tringe, Susannah G. 2022. "Exploring the roles of microbes in facilitating plant adaptation to climate change". United States. https://doi.org/10.1042/bcj20210793. https://www.osti.gov/servlets/purl/1855211.
@article{osti_1855211,
title = {Exploring the roles of microbes in facilitating plant adaptation to climate change},
author = {Barnes, Elle M. and Tringe, Susannah G.},
abstractNote = {Plants benefit from their close association with soil microbes which assist in their response to abiotic and biotic stressors. Yet much of what we know about plant stress responses is based on studies where the microbial partners were uncontrolled and unknown. Under climate change, the soil microbial community will also be sensitive to and respond to abiotic and biotic stressors. Thus, facilitating plant adaptation to climate change will require a systems-based approach that accounts for the multi-dimensional nature of plant–microbe–environment interactions. In this perspective, we highlight some of the key factors influencing plant–microbe interactions under stress as well as new tools to facilitate the controlled study of their molecular complexity, such as fabricated ecosystems and synthetic communities. When paired with genomic and biochemical methods, these tools provide researchers with more precision, reproducibility, and manipulability for exploring plant–microbe–environment interactions under a changing climate.},
doi = {10.1042/bcj20210793},
url = {https://www.osti.gov/biblio/1855211}, journal = {Biochemical Journal},
issn = {0264-6021},
number = 3,
volume = 479,
place = {United States},
year = {Fri Feb 04 00:00:00 EST 2022},
month = {Fri Feb 04 00:00:00 EST 2022}
}

Works referenced in this record:

Feed Your Friends: Do Plant Exudates Shape the Root Microbiome?
journal, January 2018


Scientists’ warning to humanity: microorganisms and climate change
journal, June 2019


Design of synthetic bacterial communities for predictable plant phenotypes
journal, February 2018


Climate Disruption of Plant-Microbe Interactions
journal, November 2020


Cheating fosters species co-existence in well-mixed bacterial communities
journal, January 2017


Plant-microbe Cross-talk in the Rhizosphere: Insight and Biotechnological Potential
journal, March 2015


The RootChip: An Integrated Microfluidic Chip for Plant Science
journal, December 2011


Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass
journal, January 2019


Root exudates: from plant to rhizosphere and beyond
journal, July 2019


Climate Change, Aboveground-Belowground Interactions, and Species' Range Shifts
journal, December 2012


Ecosystem Fabrication (EcoFAB) Protocols for The Construction of Laboratory Ecosystems Designed to Study Plant-microbe Interactions
journal, January 2018


Genomes OnLine database (GOLD) v.7: updates and new features
journal, October 2018


Prolonged drought imparts lasting compositional changes to the rice root microbiome
journal, July 2021


High-throughput generation, optimization and analysis of genome-scale metabolic models
journal, August 2010


Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly
journal, March 2018


Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival
journal, November 2018


Unraveling the sugar code: the role of microbial extracellular glycans in plant–microbe interactions
journal, September 2020


Climate-smart crops with enhanced photosynthesis
journal, May 2018


Arbuscular mycorrhizal fungi reduce decomposition of woody plant litter while increasing soil aggregation
journal, February 2015


MAGI: A Method for Metabolite Annotation and Gene Integration
journal, March 2019


Editorial: Novel Insights Into the Response of the Plant Microbiome to Abiotic Factors
journal, May 2021


The BioCyc collection of microbial genomes and metabolic pathways
journal, August 2017


Dealing with the unknown: Metabolomics and Metabolite Atlases
journal, September 2010


Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria
journal, May 2011


Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change
journal, September 2019


Flavonoids and Strigolactones in Root Exudates as Signals in Symbiotic and Pathogenic Plant-Fungus Interactions
journal, July 2007


Drought dampens microbiome development
journal, July 2021


Elevated CO2 stimulates grassland soil respiration by increasing carbon inputs rather than by enhancing soil moisture
journal, July 2011


EcoFABs: advancing microbiome science through standardized fabricated ecosystems
journal, June 2019


The plant microbiome explored: implications for experimental botany
journal, November 2015


Biochemistry and genetics of ACC deaminase: a weapon to “stress ethylene” produced in plants
journal, September 2015


Establishing Causality: Opportunities of Synthetic Communities for Plant Microbiome Research
journal, August 2017


Plant root exudation under drought: implications for ecosystem functioning
journal, October 2019


Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0
journal, February 2019


Climate change effects on plant-soil feedbacks and consequences for biodiversity and functioning of terrestrial ecosystems
journal, November 2019


More than words: the chemistry behind the interactions in the plant holobiont
journal, September 2020


Genomic features of bacterial adaptation to plants
journal, December 2017


Microbiota-root-shoot-environment axis and stress tolerance in plants
journal, August 2021


Mechanisms underlying beneficial plant–fungus interactions in mycorrhizal symbiosis
journal, July 2010


Selective Pressure of Temperature on Competition and Cross-Feeding within Denitrifying and Fermentative Microbial Communities
journal, January 2016


Initial soil microbiome composition and functioning predetermine future plant health
journal, September 2019


Microbial interactions within the plant holobiont
journal, March 2018


The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities
journal, October 2020


Bridging the Gap Between Single-Strain and Community-Level Plant-Microbe Chemical Interactions
journal, February 2020


MIBiG 2.0: a repository for biosynthetic gene clusters of known function
journal, October 2019


Root exudates drive interspecific facilitation by enhancing nodulation and N 2 fixation
journal, May 2016


KBase: The United States Department of Energy Systems Biology Knowledgebase
journal, July 2018


From climate chambers to biodiversity chambers
journal, April 2018


Microbial Community Metabolic Modeling: A Community Data-Driven Network Reconstruction: COMMUNITY DATA-DRIVEN METABOLIC NETWORK MODELING
journal, June 2016


Understanding and Engineering Distributed Biochemical Pathways in Microbial Communities
journal, November 2018


Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking
journal, August 2016


Modulation of plant ethylene levels by the bacterial enzyme ACC deaminase
journal, October 2005


Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria
journal, April 2018


Evolutionary history of plant hosts and fungal symbionts predicts the strength of mycorrhizal mutualism
journal, August 2018


Root exudate of Solanum tuberosum is enriched in galactose-containing molecules and impacts the growth of Pectobacterium atrosepticum
journal, July 2016


Structure and Function of the Bacterial Root Microbiota in Wild and Domesticated Barley
journal, March 2015


Polysaccharide Utilization Loci: Fueling Microbial Communities
journal, January 2017


Past and future global transformation of terrestrial ecosystems under climate change
journal, August 2018


The RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum
journal, March 2013


Ecology and Evolution of Plant Microbiomes
journal, September 2019


antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline
journal, April 2019


A database for post-genome analysis
journal, September 1997


Harnessing rhizosphere microbiomes for drought-resilient crop production
journal, April 2020


High-order interactions distort the functional landscape of microbial consortia
journal, December 2019


Dissecting Disease-Suppressive Rhizosphere Microbiomes by Functional Amplicon Sequencing and 10× Metagenomics
journal, June 2021


Cell wall extensins in root–microbe interactions and root secretions
journal, June 2018


High-resolution 3D mapping of rhizosphere glycan patterning using molecular probes in a transparent soil system
journal, December 2021


Mechanisms that promote bacterial fitness in fungal-affected soil microhabitats
journal, February 2010


GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser
journal, December 2021


Plant–microbiome interactions: from community assembly to plant health
journal, August 2020


Host Genotype and Colonist Arrival Order Jointly Govern Plant Microbiome Composition and Function
journal, August 2020


Novel and Emerging Capabilities that Can Provide a Holistic Understanding of the Plant Root Microbiome
journal, January 2021


DNA Stable-Isotope Probing (DNA-SIP)
journal, January 2010


Metabolic dependencies drive species co-occurrence in diverse microbial communities
journal, May 2015


Soil microbiomes and climate change
journal, October 2019


Linking soil biology and chemistry in biological soil crust using isolate exometabolomics
journal, January 2018


Root exudate metabolites drive plant-soil feedbacks on growth and defense by shaping the rhizosphere microbiota
journal, July 2018