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 »
- Authors:
- 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}
}
Web of Science
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