Plant compartment and genetic variation drive microbiome composition in switchgrass roots
Abstract
Switchgrass (Panicum virgatum) is a promising biofuel crop native to the United States with genotypes that are adapted to a wide range of distinct ecosystems. Various plants have been shown to undergo symbioses with plant growth-promoting bacteria and fungi, however, plant-associated microbial communities of switchgrass have not been extensively studied to date. We present 16S ribosomal RNA gene and internal transcribed spacer (ITS) data of rhizosphere and root endosphere compartments of four switchgrass genotypes to test the hypothesis that host selection of its root microbiota prevails after transfer to non-native soil. We show that differences in bacterial, archaeal and fungal community composition and diversity are strongly driven by plant compartment and switchgrass genotypes and ecotypes. Plant-associated microbiota show an enrichment in Alphaproteobacteria and Actinobacteria as well as Sordariales and Pleosporales compared with the surrounding soil. Root associated compartments display low-complexity communities dominated and enriched in Actinobacteria, in particular Streptomyces, in the lowland genotypes, and in Alphaproteobacteria, specifically Sphingobium, in the upland genotypes. Our comprehensive root analysis serves as a snapshot of host-specific bacterial and fungal associations of switchgrass in the field and confirms that host-selected microbiomes persist after transfer to non-native soil.
- Authors:
-
[1];
- Department of Energy Joint Genome Institute Walnut Creek CA USA
- Department of Integrative Biology, University of Texas Austin Austin TX USA
- School of Integrative Plant Science, Cornell University Ithaca NY USA
- Publication Date:
- Research Org.:
- Univ. of Texas, Austin, TX (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Office of Science (SC), Basic Energy Sciences (BES). Scientific User Facilities Division
- OSTI Identifier:
- 1501730
- Alternate Identifier(s):
- OSTI ID: 1511072; OSTI ID: 1591807; OSTI ID: 1594754
- Grant/Contract Number:
- SC0014156; AC02‐05CH11231
- Resource Type:
- Published Article
- Journal Name:
- Environmental Microbiology Reports
- Additional Journal Information:
- Journal Name: Environmental Microbiology Reports Journal Volume: 11 Journal Issue: 2; Journal ID: ISSN 1758-2229
- Publisher:
- Wiley-Blackwell
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES
Citation Formats
Singer, Esther, Bonnette, Jason, Kenaley, Shawn C., Woyke, Tanja, and Juenger, Thomas E. Plant compartment and genetic variation drive microbiome composition in switchgrass roots. United States: N. p., 2019.
Web. doi:10.1111/1758-2229.12727.
Singer, Esther, Bonnette, Jason, Kenaley, Shawn C., Woyke, Tanja, & Juenger, Thomas E. Plant compartment and genetic variation drive microbiome composition in switchgrass roots. United States. https://doi.org/10.1111/1758-2229.12727
Singer, Esther, Bonnette, Jason, Kenaley, Shawn C., Woyke, Tanja, and Juenger, Thomas E. Thu .
"Plant compartment and genetic variation drive microbiome composition in switchgrass roots". United States. https://doi.org/10.1111/1758-2229.12727.
@article{osti_1501730,
title = {Plant compartment and genetic variation drive microbiome composition in switchgrass roots},
author = {Singer, Esther and Bonnette, Jason and Kenaley, Shawn C. and Woyke, Tanja and Juenger, Thomas E.},
abstractNote = {Switchgrass (Panicum virgatum) is a promising biofuel crop native to the United States with genotypes that are adapted to a wide range of distinct ecosystems. Various plants have been shown to undergo symbioses with plant growth-promoting bacteria and fungi, however, plant-associated microbial communities of switchgrass have not been extensively studied to date. We present 16S ribosomal RNA gene and internal transcribed spacer (ITS) data of rhizosphere and root endosphere compartments of four switchgrass genotypes to test the hypothesis that host selection of its root microbiota prevails after transfer to non-native soil. We show that differences in bacterial, archaeal and fungal community composition and diversity are strongly driven by plant compartment and switchgrass genotypes and ecotypes. Plant-associated microbiota show an enrichment in Alphaproteobacteria and Actinobacteria as well as Sordariales and Pleosporales compared with the surrounding soil. Root associated compartments display low-complexity communities dominated and enriched in Actinobacteria, in particular Streptomyces, in the lowland genotypes, and in Alphaproteobacteria, specifically Sphingobium, in the upland genotypes. Our comprehensive root analysis serves as a snapshot of host-specific bacterial and fungal associations of switchgrass in the field and confirms that host-selected microbiomes persist after transfer to non-native soil.},
doi = {10.1111/1758-2229.12727},
journal = {Environmental Microbiology Reports},
number = 2,
volume = 11,
place = {United States},
year = {Thu Jan 31 00:00:00 EST 2019},
month = {Thu Jan 31 00:00:00 EST 2019}
}
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https://doi.org/10.1111/1758-2229.12727
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