Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species

Singer, Esther; Bonnette, Jason; Woyke, Tanja; Juenger, Thomas E.

doi:10.3389/fmicb.2019.02181

Title: Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species

Journal Article · 27 September 2019 · Frontiers in Microbiology

DOI: https://doi.org/10.3389/fmicb.2019.02181 · OSTI ID:1580863

Singer, Esther ^[1]; Bonnette, Jason ^[2]; Woyke, Tanja ^[1]; Juenger, Thomas E. ^[2]

USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
Univ. of Texas, Austin, TX (United States)

Panicum represents a large genus of many North American prairie grass species. These include switchgrass (Panicum virgatum), a biofuel crop candidate with wide geographic range, as well as Panicum hallii, a close relative to switchgrass, which serves as a model system for the study of Panicum genetics due to its diploid genome and short growth cycles. For the advancement of switchgrass as a biofuel crop, it is essential to understand host microbiome interactions, which can be impacted by plant genetics and environmental factors inducing ecotype-specific phenotypic traits. We here compared rhizosphere and root endosphere bacterial communities of upland and lowland P. virgatum and P. hallii genotypes planted at two sites in Texas. Our analysis shows that sampling site predominantly contributed to bacterial community variance in the rhizosphere, however, impacted root endosphere bacterial communities much less. Instead we observed a relatively large core endophytic microbiome dominated by ubiquitously root-colonizing bacterial genera Streptomyces, Pseudomonas, and Bradyrhizobium. Endosphere communities displayed comparable diversity and conserved community structures across genotypes of both Panicum species. Functional insights into interactions between P. hallii and its root endophyte microbiome could hence inform testable hypotheses that are relevant for the improvement of switchgrass as a biofuel crop.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States); University of Texas at Austin

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23). Biological Systems Science Division

Grant/Contract Number:: AC02-05CH11231; SC0014156

OSTI ID:: 1580863

Journal Information:: Frontiers in Microbiology, Journal Name: Frontiers in Microbiology Journal Issue: SEP Vol. 10; ISSN 1664-302X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

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Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling Piao, Hailan; Lachman, Medora; Malfatti, Stephanie Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00307	journal	July 2014
Plant growth promotion induced by phosphate solubilizing endophytic Pseudomonas isolates Oteino, Nicholas; Lally, Richard D.; Kiwanuka, Samuel Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00745	journal	July 2015
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Ecological diversity and co-occurrence patterns of bacterial community through soil profile in response to long-term switchgrass cultivation He, Shubin; Guo, Lixiang; Niu, Mengying Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/s41598-017-03778-7	journal	June 2017
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Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species Coleman-Derr, Devin; Desgarennes, Damaris; Fonseca-Garcia, Citlali New Phytologist, Vol. 209, Issue 2 https://doi.org/10.1111/nph.13697	journal	October 2015
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One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation Chen, Huaihai; Yang, Zamin K.; Yip, Dan PLOS ONE, Vol. 14, Issue 6 https://doi.org/10.1371/journal.pone.0211310	journal	June 2019
Host genotype and age shape the leaf and root microbiomes of a wild perennial plant S., Lundberg, Derek; L., Dangl, Jeffery; G., Del Rio, Tijana The University of North Carolina at Chapel Hill University Libraries https://doi.org/10.17615/18y1-ek17	text	January 2016
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Bioactive secondary metabolites produced by microorganisms associated with plants Firáková, Silvia; Šturdíková, Mária; Múčková, Marta Biologia, Vol. 62, Issue 3 https://doi.org/10.2478/s11756-007-0044-1	journal	January 2007
Temporal dynamics of fibrolytic and methanogenic rumen microorganisms during in situ incubation of switchgrass determined by 16S rRNA gene profiling Piao, Hailan; Lachman, Medora; Malfatti, Stephanie Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00307	journal	July 2014
Plant growth promotion induced by phosphate solubilizing endophytic Pseudomonas isolates Oteino, Nicholas; Lally, Richard D.; Kiwanuka, Samuel Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00745	journal	July 2015
Primer and platform effects on 16S rRNA tag sequencing Tremblay, Julien; Singh, Kanwar; Fern, Alison Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00771	journal	August 2015
The Cacti Microbiome: Interplay between Habitat-Filtering and Host-Specificity Fonseca-García, Citlali; Coleman-Derr, Devin; Garrido, Etzel Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.00150	journal	February 2016
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Title: Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species

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