The Promises, Challenges, and Opportunities of Omics for Studying the Plant Holobiont

Dana L. Carper; Manasa R. Appidi; Sameer Mudbhari; Him K. Shrestha; Robert L. Hettich; Paul E. Abraham

doi:10.3390/microorganisms10102013

The Promises, Challenges, and Opportunities of Omics for Studying the Plant Holobiont

Dana L. Carper, Manasa R. Appidi, Sameer Mudbhari, Him K. Shrestha, Robert L. Hettich, Paul E. Abraham

Bioanalytical Mass Spectrometry

Research output: Contribution to journal › Article › peer-review

3 Scopus citations

Abstract

Microorganisms are critical drivers of biological processes that contribute significantly to plant sustainability and productivity. In recent years, emerging research on plant holobiont theory and microbial invasion ecology has radically transformed how we study plant–microbe interactions. Over the last few years, we have witnessed an accelerating pace of advancements and breadth of questions answered using omic technologies. Herein, we discuss how current state-of-the-art genomics, transcriptomics, proteomics, and metabolomics techniques reliably transcend the task of studying plant–microbe interactions while acknowledging existing limitations impeding our understanding of plant holobionts.

Original language	English
Article number	2013
Journal	Microorganisms
Volume	10
Issue number	10
DOIs	https://doi.org/10.3390/microorganisms10102013
State	Published - Oct 2022

Funding

The manuscript is supported by Secure Ecosystem Engineering and Design (SEED) project funded by the Genomic Science Program of the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research (BER) as part of the Secure Biosystems Design Science Focus Area (SFA) (https://seed-sfa.ornl.gov/, accessed on 15 September 2022), the Plant-Microbe Interfaces Science Focus Area (https://pmiweb.ornl.gov/, accessed on 15 September 2022), and the Center for Bioenergy Innovation (CBI) (https://cbi.ornl.gov/, accessed on 15 September 2022), a U.S. Department of Energy (DOE) Research Center. Oak Ridge National Laboratory is managed by UT-Battelle, LLC for the U.S. Department of Energy under Contract Number DE-AC05-00OR22725. This manuscript has been authored by UT-Battelle, LLC under Contract No. DE-AC05-00OR22725 with the U.S. Department of Energy (DOE). The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a non-exclusive, paid-up, irrevocable, worldwide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes. The DOE will provide public access to these results of federally sponsored research in accordance with the DOE Public Access Plan.

Funders	Funder number
Plant-Microbe Interfaces Science Focus Area
Secure Biosystems Design Science Focus Area
Secure Ecosystem Engineering and Design
U.S. Department of Energy
Office of Science
Biological and Environmental Research
Oak Ridge National Laboratory	DE-AC05-00OR22725
Center for Bioenergy Innovation
Southern Finance Association

Keywords

genomics
metabolomics
plant holobiont
plant–microbe interaction
proteomics
transcriptomics

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.3390/microorganisms10102013

Cite this

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abstract = "Microorganisms are critical drivers of biological processes that contribute significantly to plant sustainability and productivity. In recent years, emerging research on plant holobiont theory and microbial invasion ecology has radically transformed how we study plant–microbe interactions. Over the last few years, we have witnessed an accelerating pace of advancements and breadth of questions answered using omic technologies. Herein, we discuss how current state-of-the-art genomics, transcriptomics, proteomics, and metabolomics techniques reliably transcend the task of studying plant–microbe interactions while acknowledging existing limitations impeding our understanding of plant holobionts.",

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AB - Microorganisms are critical drivers of biological processes that contribute significantly to plant sustainability and productivity. In recent years, emerging research on plant holobiont theory and microbial invasion ecology has radically transformed how we study plant–microbe interactions. Over the last few years, we have witnessed an accelerating pace of advancements and breadth of questions answered using omic technologies. Herein, we discuss how current state-of-the-art genomics, transcriptomics, proteomics, and metabolomics techniques reliably transcend the task of studying plant–microbe interactions while acknowledging existing limitations impeding our understanding of plant holobionts.

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The Promises, Challenges, and Opportunities of Omics for Studying the Plant Holobiont

Abstract

Funding

Keywords

UN SDGs

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