Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa

Brandon Kristy; Alyssa A. Carrell; Eric Johnston; Jonathan R. Cumming; Dawn M. Klingeman; Kimberly Gwinn; Kimberly C. Syring; Caroline Skalla; Scott Emrich; Melissa A. Cregger

doi:10.1094/PBIOMES-12-21-0076-R

Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa

Brandon Kristy, Alyssa A. Carrell, Eric Johnston, Jonathan R. Cumming, Dawn M. Klingeman, Kimberly Gwinn, Kimberly C. Syring, Caroline Skalla, Scott Emrich, Melissa A. Cregger

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11 Scopus citations

Abstract

Populus trichocarpa is an ecologically important tree species and economically important biofeedstock. Belowground, P. trichocarpa interacts with diverse microorganisms in the rhizosphere and root endosphere. These plant–microbe interactions can bolster a variety of plant processes, ranging from pathogen suppression to drought tolerance, yet we know little about the impact of chronic drought stress on P. trichocarpa’s belowground microbiomes. To investigate the interactive effect of chronic drought on belowground microbial communities across genetically different P. trichocarpa hosts, we assessed archaeal/bacterial and fungal communities within the root endosphere, rhizosphere, and surrounding bulk soil of selected genotypes in a long-term drought experiment in Boardman, OR, U.S.A. We sequenced the 16S ribosomal RNA and internal transcribed spacer 2 gene region on samples collected from 16 distinct P. trichocarpa genotypes in plots with full or reduced irrigation. Eight of these genotypes have been previously identified as drought tolerant while the other eight genotypes were drought susceptible. Although reduced irrigation influenced the composition of every archaeal or bacterial microbiome compartment, fungal communities were only affected in the rhizosphere and bulk soil compartments. Drought-tolerant bacteria such as Actinobacteria were differentially abundant in reduced irrigation across all belowground microbiomes. Host drought tolerance influenced plant-associated microbiome compartments but had little impact on the bulk soil compartment. Drought-tolerant trees were enriched for potential growth-promoting microorganisms in the root endosphere and rhizosphere, including Sphingomonas bacteria and ectomycorrhizal fungi. Overall, associations of growth-promoting microbes in drought-resistant P. trichocarpa genotypes can be leveraged to improve biofeedstock productivity in regions prone to periodic drought.

Original language	English
Pages (from-to)	317-330
Number of pages	14
Journal	Phytobiomes Journal
Volume	6
Issue number	4
DOIs	https://doi.org/10.1094/PBIOMES-12-21-0076-R
State	Published - 2022

Funding

Funding: This study was supported and performed as part of the Center for BioEnergy Innovation (CBI) at Oak Ridge National Laboratory. CBI is a U.S. Department of Energy (DOE) Bioenergy Research Center supported by the Office of Biological and Environmental Research in the DOE Office of Science. B. Kristy was supported, in part, by the U.S. Department of Energy, Office of Science, Office of Workforce Development for Teachers and Scientists under the Science Undergraduate Laboratory Internships program. K. Syring and C. Skalla were supported by the U.S. Department of Agriculture National Institute of Food and Agriculture, Agriculture and Food Research Initiative–Education and Workforce Development (project number TEN2018-05862).

Keywords

Populus
archaea
bacteria
endosphere
fungi
microbiome
rhizosphere

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10.1094/PBIOMES-12-21-0076-R

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Kristy, B., Carrell, A. A., Johnston, E., Cumming, J. R., Klingeman, D. M., Gwinn, K., Syring, K. C., Skalla, C., Emrich, S., & Cregger, M. A. (2022). Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa. Phytobiomes Journal, 6(4), 317-330. https://doi.org/10.1094/PBIOMES-12-21-0076-R

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abstract = "Populus trichocarpa is an ecologically important tree species and economically important biofeedstock. Belowground, P. trichocarpa interacts with diverse microorganisms in the rhizosphere and root endosphere. These plant–microbe interactions can bolster a variety of plant processes, ranging from pathogen suppression to drought tolerance, yet we know little about the impact of chronic drought stress on P. trichocarpa{\textquoteright}s belowground microbiomes. To investigate the interactive effect of chronic drought on belowground microbial communities across genetically different P. trichocarpa hosts, we assessed archaeal/bacterial and fungal communities within the root endosphere, rhizosphere, and surrounding bulk soil of selected genotypes in a long-term drought experiment in Boardman, OR, U.S.A. We sequenced the 16S ribosomal RNA and internal transcribed spacer 2 gene region on samples collected from 16 distinct P. trichocarpa genotypes in plots with full or reduced irrigation. Eight of these genotypes have been previously identified as drought tolerant while the other eight genotypes were drought susceptible. Although reduced irrigation influenced the composition of every archaeal or bacterial microbiome compartment, fungal communities were only affected in the rhizosphere and bulk soil compartments. Drought-tolerant bacteria such as Actinobacteria were differentially abundant in reduced irrigation across all belowground microbiomes. Host drought tolerance influenced plant-associated microbiome compartments but had little impact on the bulk soil compartment. Drought-tolerant trees were enriched for potential growth-promoting microorganisms in the root endosphere and rhizosphere, including Sphingomonas bacteria and ectomycorrhizal fungi. Overall, associations of growth-promoting microbes in drought-resistant P. trichocarpa genotypes can be leveraged to improve biofeedstock productivity in regions prone to periodic drought.",

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AU - Carrell, Alyssa A.

AU - Johnston, Eric

AU - Cumming, Jonathan R.

AU - Klingeman, Dawn M.

AU - Gwinn, Kimberly

AU - Syring, Kimberly C.

AU - Skalla, Caroline

AU - Emrich, Scott

AU - Cregger, Melissa A.

PY - 2022

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N2 - Populus trichocarpa is an ecologically important tree species and economically important biofeedstock. Belowground, P. trichocarpa interacts with diverse microorganisms in the rhizosphere and root endosphere. These plant–microbe interactions can bolster a variety of plant processes, ranging from pathogen suppression to drought tolerance, yet we know little about the impact of chronic drought stress on P. trichocarpa’s belowground microbiomes. To investigate the interactive effect of chronic drought on belowground microbial communities across genetically different P. trichocarpa hosts, we assessed archaeal/bacterial and fungal communities within the root endosphere, rhizosphere, and surrounding bulk soil of selected genotypes in a long-term drought experiment in Boardman, OR, U.S.A. We sequenced the 16S ribosomal RNA and internal transcribed spacer 2 gene region on samples collected from 16 distinct P. trichocarpa genotypes in plots with full or reduced irrigation. Eight of these genotypes have been previously identified as drought tolerant while the other eight genotypes were drought susceptible. Although reduced irrigation influenced the composition of every archaeal or bacterial microbiome compartment, fungal communities were only affected in the rhizosphere and bulk soil compartments. Drought-tolerant bacteria such as Actinobacteria were differentially abundant in reduced irrigation across all belowground microbiomes. Host drought tolerance influenced plant-associated microbiome compartments but had little impact on the bulk soil compartment. Drought-tolerant trees were enriched for potential growth-promoting microorganisms in the root endosphere and rhizosphere, including Sphingomonas bacteria and ectomycorrhizal fungi. Overall, associations of growth-promoting microbes in drought-resistant P. trichocarpa genotypes can be leveraged to improve biofeedstock productivity in regions prone to periodic drought.

AB - Populus trichocarpa is an ecologically important tree species and economically important biofeedstock. Belowground, P. trichocarpa interacts with diverse microorganisms in the rhizosphere and root endosphere. These plant–microbe interactions can bolster a variety of plant processes, ranging from pathogen suppression to drought tolerance, yet we know little about the impact of chronic drought stress on P. trichocarpa’s belowground microbiomes. To investigate the interactive effect of chronic drought on belowground microbial communities across genetically different P. trichocarpa hosts, we assessed archaeal/bacterial and fungal communities within the root endosphere, rhizosphere, and surrounding bulk soil of selected genotypes in a long-term drought experiment in Boardman, OR, U.S.A. We sequenced the 16S ribosomal RNA and internal transcribed spacer 2 gene region on samples collected from 16 distinct P. trichocarpa genotypes in plots with full or reduced irrigation. Eight of these genotypes have been previously identified as drought tolerant while the other eight genotypes were drought susceptible. Although reduced irrigation influenced the composition of every archaeal or bacterial microbiome compartment, fungal communities were only affected in the rhizosphere and bulk soil compartments. Drought-tolerant bacteria such as Actinobacteria were differentially abundant in reduced irrigation across all belowground microbiomes. Host drought tolerance influenced plant-associated microbiome compartments but had little impact on the bulk soil compartment. Drought-tolerant trees were enriched for potential growth-promoting microorganisms in the root endosphere and rhizosphere, including Sphingomonas bacteria and ectomycorrhizal fungi. Overall, associations of growth-promoting microbes in drought-resistant P. trichocarpa genotypes can be leveraged to improve biofeedstock productivity in regions prone to periodic drought.

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KW - archaea

KW - bacteria

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KW - fungi

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VL - 6

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IS - 4

ER -

Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa

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