skip to main content

DOE PAGESDOE PAGES

Title: Promises and challenges of eco-physiological genomics in the field: tests of drought responses in switchgrass

Identifying the physiological and genetic basis of stress tolerance in plants has proven to be critical to understanding adaptation in both agricultural and natural systems. However, many discoveries were initially made in the controlled conditions of greenhouses or laboratories, not in the field. To test the comparability of drought responses across field and greenhouse environments, we undertook three independent experiments using the switchgrass reference genotype Alamo AP13. We analyzed physiological and gene expression variation across four locations, two sampling times, and three years. Relatively similar physiological responses and expression coefficients of variation across experiments masked highly dissimilar gene expression responses to drought. Critically, a drought experiment utilizing small pots in the greenhouse elicited nearly identical physiological changes as an experiment conducted in the field, but an order of magnitude more differentially expressed genes. However, we were able to define a suite of several hundred genes that were differentially expressed across all experiments. This list was strongly enriched in photosynthesis, water status, and reactive oxygen species responsive genes. The strong across-experiment correlations between physiological plasticity—but not differential gene expression—highlight the complex and diverse genetic mechanisms that can produce phenotypically similar responses to various soil water deficits.
Authors:
 [1] ;  [1] ;  [2] ;  [3] ;  [4] ;  [5] ;  [2] ;  [2] ;  [2] ;  [6] ;  [2]
  1. Univ. of Texas, Austin, TX (United States); Kazan Federal Univ. (Russian Federation)
  2. Univ. of Texas, Austin, TX (United States)
  3. Michigan State Univ., East Lansing, MI (United States)
  4. Univ. of Western Sydney, NSW (Australia). Hawkesbury Inst. for the Environment
  5. Keene State College, NH (United States)
  6. USDA-ARS Grassland Soil and Water Research Lab., Temple, TX (United States)
Publication Date:
Grant/Contract Number:
SC0008451
Type:
Accepted Manuscript
Journal Name:
Plant Physiology (Bethesda)
Additional Journal Information:
Journal Name: Plant Physiology (Bethesda); Journal Volume: 172; Journal Issue: 2; Journal ID: ISSN 0032-0889
Publisher:
American Society of Plant Biologists
Research Org:
Univ. of Texas, Austin, TX (United States)
Sponsoring Org:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23). Biological Systems Science Division
Country of Publication:
United States
Language:
English
Subject:
54 ENVIRONMENTAL SCIENCES; Ecophysiology
OSTI Identifier:
1423765

Lovell, John T., Shakirov, Eugene V., Schwartz, Scott, Lowry, David Bryant, Aspinwall, Michael J., Taylor, Samuel H., Bonnette, Jason, Palacio-Mejia, Juan Diego, Hawkes, Christine V., Fay, Philip A., and Juenger, Thomas. Promises and challenges of eco-physiological genomics in the field: tests of drought responses in switchgrass. United States: N. p., Web. doi:10.1104/pp.16.00545.
Lovell, John T., Shakirov, Eugene V., Schwartz, Scott, Lowry, David Bryant, Aspinwall, Michael J., Taylor, Samuel H., Bonnette, Jason, Palacio-Mejia, Juan Diego, Hawkes, Christine V., Fay, Philip A., & Juenger, Thomas. Promises and challenges of eco-physiological genomics in the field: tests of drought responses in switchgrass. United States. doi:10.1104/pp.16.00545.
Lovell, John T., Shakirov, Eugene V., Schwartz, Scott, Lowry, David Bryant, Aspinwall, Michael J., Taylor, Samuel H., Bonnette, Jason, Palacio-Mejia, Juan Diego, Hawkes, Christine V., Fay, Philip A., and Juenger, Thomas. 2016. "Promises and challenges of eco-physiological genomics in the field: tests of drought responses in switchgrass". United States. doi:10.1104/pp.16.00545. https://www.osti.gov/servlets/purl/1423765.
@article{osti_1423765,
title = {Promises and challenges of eco-physiological genomics in the field: tests of drought responses in switchgrass},
author = {Lovell, John T. and Shakirov, Eugene V. and Schwartz, Scott and Lowry, David Bryant and Aspinwall, Michael J. and Taylor, Samuel H. and Bonnette, Jason and Palacio-Mejia, Juan Diego and Hawkes, Christine V. and Fay, Philip A. and Juenger, Thomas},
abstractNote = {Identifying the physiological and genetic basis of stress tolerance in plants has proven to be critical to understanding adaptation in both agricultural and natural systems. However, many discoveries were initially made in the controlled conditions of greenhouses or laboratories, not in the field. To test the comparability of drought responses across field and greenhouse environments, we undertook three independent experiments using the switchgrass reference genotype Alamo AP13. We analyzed physiological and gene expression variation across four locations, two sampling times, and three years. Relatively similar physiological responses and expression coefficients of variation across experiments masked highly dissimilar gene expression responses to drought. Critically, a drought experiment utilizing small pots in the greenhouse elicited nearly identical physiological changes as an experiment conducted in the field, but an order of magnitude more differentially expressed genes. However, we were able to define a suite of several hundred genes that were differentially expressed across all experiments. This list was strongly enriched in photosynthesis, water status, and reactive oxygen species responsive genes. The strong across-experiment correlations between physiological plasticity—but not differential gene expression—highlight the complex and diverse genetic mechanisms that can produce phenotypically similar responses to various soil water deficits.},
doi = {10.1104/pp.16.00545},
journal = {Plant Physiology (Bethesda)},
number = 2,
volume = 172,
place = {United States},
year = {2016},
month = {5}
}