skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought

Abstract

BACKGROUND: Sorghum bicolor is the fifth most commonly grown cereal worldwide and is remarkable for its drought and abiotic stress tolerance. For these reasons and the large size of biomass varieties, it has been proposed as a bioenergy crop. However, little is known about the genes underlying sorghum's abiotic stress tolerance and biomass yield. RESULTS:To uncover the genetic basis of drought tolerance in sorghum at a genome-wide level, we undertook a high-density phenomics genome wide association study (GWAS) in which 648 diverse sorghum lines were phenotyped at two locations in California once per week by drone over the course of a growing season. Biomass, height, and leaf area were measured by drone for individual field plots, subjected to two drought treatments and a well-watered control. The resulting dataset of ~ 171,000 phenotypic data-points was analyzed along with 183,989 genotype by sequence markers to reveal 213 high-quality, replicated, and conserved GWAS associations.CONCLUSIONS: The genomic intervals defined by the associations include many strong candidate genes, including those encoding heat shock proteins, antifreeze proteins, and other domains recognized as important to plant stress responses. The markers identified by our study can be used for marker assisted selection for drought tolerance and biomass. Inmore » addition, our results are a significant step toward identifying specific sorghum genes controlling drought tolerance and biomass yield.« less

Authors:
; ; ; ; ; ; ; ; ORCiD logo
Publication Date:
Research Org.:
Pacific Northwest National Laboratory (PNNL), Richland, WA (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Advanced Research Projects Agency - Energy (ARPA-E); USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1618569
Alternate Identifier(s):
OSTI ID: 1489292; OSTI ID: 1559146
Report Number(s):
PNNL-SA-131382
Journal ID: ISSN 1471-2164; 679; PII: 5055
Grant/Contract Number:  
14/CJ000/09/02; AC02-05CH1123; AC05-76RL01830; AC02-05CH11231
Resource Type:
Journal Article: Published Article
Journal Name:
BMC Genomics
Additional Journal Information:
Journal Name: BMC Genomics Journal Volume: 19 Journal Issue: 1; Journal ID: ISSN 1471-2164
Publisher:
Springer Science + Business Media
Country of Publication:
United Kingdom
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Spindel, Jennifer E., Dahlberg, Jeffery, Colgan, Matthew, Hollingsworth, Joy, Sievert, Julie, Staggenborg, Scott H., Hutmacher, Robert, Jansson, Christer, and Vogel, John P. Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought. United Kingdom: N. p., 2018. Web. doi:10.1186/s12864-018-5055-5.
Spindel, Jennifer E., Dahlberg, Jeffery, Colgan, Matthew, Hollingsworth, Joy, Sievert, Julie, Staggenborg, Scott H., Hutmacher, Robert, Jansson, Christer, & Vogel, John P. Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought. United Kingdom. https://doi.org/10.1186/s12864-018-5055-5
Spindel, Jennifer E., Dahlberg, Jeffery, Colgan, Matthew, Hollingsworth, Joy, Sievert, Julie, Staggenborg, Scott H., Hutmacher, Robert, Jansson, Christer, and Vogel, John P. 2018. "Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought". United Kingdom. https://doi.org/10.1186/s12864-018-5055-5.
@article{osti_1618569,
title = {Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought},
author = {Spindel, Jennifer E. and Dahlberg, Jeffery and Colgan, Matthew and Hollingsworth, Joy and Sievert, Julie and Staggenborg, Scott H. and Hutmacher, Robert and Jansson, Christer and Vogel, John P.},
abstractNote = {BACKGROUND: Sorghum bicolor is the fifth most commonly grown cereal worldwide and is remarkable for its drought and abiotic stress tolerance. For these reasons and the large size of biomass varieties, it has been proposed as a bioenergy crop. However, little is known about the genes underlying sorghum's abiotic stress tolerance and biomass yield. RESULTS:To uncover the genetic basis of drought tolerance in sorghum at a genome-wide level, we undertook a high-density phenomics genome wide association study (GWAS) in which 648 diverse sorghum lines were phenotyped at two locations in California once per week by drone over the course of a growing season. Biomass, height, and leaf area were measured by drone for individual field plots, subjected to two drought treatments and a well-watered control. The resulting dataset of ~ 171,000 phenotypic data-points was analyzed along with 183,989 genotype by sequence markers to reveal 213 high-quality, replicated, and conserved GWAS associations.CONCLUSIONS: The genomic intervals defined by the associations include many strong candidate genes, including those encoding heat shock proteins, antifreeze proteins, and other domains recognized as important to plant stress responses. The markers identified by our study can be used for marker assisted selection for drought tolerance and biomass. In addition, our results are a significant step toward identifying specific sorghum genes controlling drought tolerance and biomass yield.},
doi = {10.1186/s12864-018-5055-5},
url = {https://www.osti.gov/biblio/1618569}, journal = {BMC Genomics},
issn = {1471-2164},
number = 1,
volume = 19,
place = {United Kingdom},
year = {Mon Sep 17 00:00:00 EDT 2018},
month = {Mon Sep 17 00:00:00 EDT 2018}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record at https://doi.org/10.1186/s12864-018-5055-5

Citation Metrics:
Cited by: 26 works
Citation information provided by
Web of Science

Save / Share:

Works referenced in this record:

Quantitative trait loci influencing drought tolerance in grain sorghum (Sorghum bicolor L. Moench)
journal, August 2001


Physiological roles of plant glycoside hydrolases
journal, November 2007


Diurnal Oscillations of Soybean Circadian Clock and Drought Responsive Genes
journal, January 2014


Genome-wide association analysis of seedling traits in diverse Sorghum germplasm under thermal stress
journal, January 2017


Genetic analysis of post-flowering drought tolerance and components of grain development in Sorghum bicolor (L.) Moench
journal, January 1997


Population genomic and genome-wide association studies of agroclimatic traits in sorghum
journal, December 2012


TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline
journal, February 2014


Genome-wide efficient mixed-model analysis for association studies
journal, June 2012


Increased Power To Dissect Adaptive Traits in Global Sorghum Diversity Using a Nested Association Mapping Population
journal, June 2017


Association mapping of maturity and plant height using SNP markers with the sorghum mini core collection
journal, May 2013


Retrospective genomic analysis of sorghum adaptation to temperate-zone grain production
journal, June 2013


Climate Trends and Global Crop Production Since 1980
journal, May 2011


Expansion and Function of Repeat Domain Proteins During Stress and Development in Plants
journal, January 2016


Conversion of Alien Sorghums to Early Combine Genotypes1
journal, January 1967


Novel Methods to Optimize Genotypic Imputation for Low-Coverage, Next-Generation Sequence Data in Crop Plants
journal, January 2014


Designing sorghum as a dedicated bioenergy feedstock
journal, October 2007


WD40‐REPEAT 5a functions in drought stress tolerance by regulating nitric oxide accumulation in Arabidopsis
journal, January 2016


A High-Throughput, Field-Based Phenotyping Technology for Tall Biomass Crops
journal, June 2017


Oxidative stress, antioxidants and stress tolerance
journal, September 2002


Yield Trends Are Insufficient to Double Global Crop Production by 2050
journal, June 2013


Post-Flowering Drought Tolerance Using Managed Stress Trials, Adjustment to Flowering, and Mini Core Collection in Sorghum
journal, January 2017


A Genomic Resource for the Development, Improvement, and Exploitation of Sorghum for Bioenergy
journal, June 2016


Discovery of a Dhurrin QTL in Sorghum: Co-localization of Dhurrin Biosynthesis and a Novel Stay-green QTL
journal, January 2016


Remote, aerial phenotyping of maize traits with a mobile multi-sensor approach
journal, January 2015


Multiparental Mapping of Plant Height and Flowering Time QTL in Partially Isogenic Sorghum Families
journal, September 2014


APE: Analyses of Phylogenetics and Evolution in R language
journal, January 2004


Sorghum Dw2 Encodes a Protein Kinase Regulator of Stem Internode Length
journal, July 2017


A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species
journal, May 2011


Identification of Quantitative Trait Loci Associated with Pre-Flowering Drought Tolerance in Sorghum
journal, January 1996


Genome-environment associations in sorghum landraces predict adaptive traits
journal, July 2015


Genetic architecture of photosynthesis in Sorghum bicolor under non-stress and cold stress conditions
journal, July 2017


Comprehensive Expression Analysis of Rice Armadillo Gene Family During Abiotic Stress and Development
journal, January 2014


Community Resources and Strategies for Association Mapping in Sorghum
journal, January 2008


Genome-Wide Association Study for Nine Plant Architecture Traits in Sorghum
journal, January 2016


Registration of RTx430 Sorghum Parental Line
journal, January 1984


Works referencing / citing this record: