Genome-Wide Expression and Alternative Splicing in Domesticated Sunflowers (Helianthus annuus L.) under Flooding Stress
department or school: Science, Faculty of
department or school: Non UBC
department or school: Botany, Department of
data provider: DSpace
identifier citation: Agronomy 11 (1): 92 (2021)
contributor: University of British Columbia. Biodiversity Research Centre
creator: Lee, Joon Seon
creator: Gao, Lexuan
creator: Guzman, Laura Melissa
creator: Rieseberg, Loren H.
issued: 2021-01-29T19:31:31Z
issued: 2021-01-06
description: Approximately 10% of agricultural land is subject to periodic flooding, which reduces the growth, survivorship, and yield of most crops, reinforcing the need to understand and enhance flooding resistance in our crops. Here, we generated RNA-Seq data from leaf and root tissue of domesticated sunflower to explore differences in gene expression and alternative splicing (AS) between a resistant and susceptible cultivar under both flooding and control conditions and at three time points. Using a combination of mixed model and gene co-expression analyses, we were able to separate general responses of sunflower to flooding stress from those that contribute to the greater tolerance of the resistant line. Both cultivars responded to flooding stress by upregulating expression levels of known submergence responsive genes, such as alcohol dehydrogenases, and slowing metabolism-related activities. Differential AS reinforced expression differences, with reduced AS frequencies typically observed for genes with upregulated expression. Significant differences were found between the genotypes, including earlier and stronger upregulation of the alcohol fermentation pathway and a more rapid return to pre-flooding gene expression levels in the resistant genotype. Our results show how changes in the timing of gene expression following both the induction of flooding and release from flooding stress contribute to increased flooding tolerance.
aggregated CHO: https://circle.library.ubc.ca/rest/handle/2429/77220
note: agronomyArticleGenome-Wide Expression and Alternative Splicing inDomesticated Sunflowers (Helianthus annuus L.) underFlooding StressJoon Seon Lee 1,* , Lexuan Gao 2 , Laura Melissa Guzman 3,4 and Loren H. Rieseberg 1Citation: Lee, J.S.; Gao, L.; Guzman,L.M.; Rieseberg, L.H. Genome-WideExpression and Alternative Splicingin Domesticated Sunflowers(Helianthus annuus L.) under FloodingStress. Agronomy 2021, 11, 92.https://doi.org/10.3390/agronomy11010092Received: 4 November 2020Accepted: 2 January 2021Published: 6 January 2021Publisher’s Note: MDPI stays neu-tral with regard to jurisdictional clai-ms in published maps and institutio-nal affiliations.Copyright: © 2021 by the authors. Li-censee MDPI, Basel, Switzerland.This article is an open access articledistributed under the terms and con-ditions of the Creative Commons At-tribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).1 Department of Botany and Biodiversity Research Centre, University of British Columbia,Vancouver, BC V6T 1Z4, Canada; lriesebe@mail.ubc.ca2 CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology,Chinese Academy of Sciences, Shanghai 200032, China; lexuan@sippe.ac.cn3 Evolutionary and Behavioural Ecology Research Group, Department of Biological Sciences,Simon Fraser University, Burnaby, BC V5A 1S6, Canada; guzman@zoology.ubc.ca4 Department of Zoology and Biodiversity Research Centre, University of British Columbia,Vancouver, BC V6T 1Z4, Canada* Correspondence: joon.lee@botany.ubc.ca; Tel.: +1-604-827-3535Abstract: Approximately 10% of agricultural land is subject to periodic flooding, which reducesthe growth, survivorship, and yield of most crops, reinforcing the need to understand and enhanceflooding resistance in our crops. Here, we generated RNA-Seq data from leaf and root tissue ofdomesticated sunflower to explore differences in gene expression and alternative splicing (AS)between a resistant and susceptible cultivar under both flood…
has type: Article
is shown at: 10.14288/1.0395787
language: eng
peer review status: Reviewed
provider: Vancouver : University of British Columbia Library
publisher: Multidisciplinary Digital Publishing Institute
publisher DOI: 10.3390/agronomy11010092
rights: CC BY 4.0
rights URI: https://creativecommons.org/licenses/by/4.0/
scholar level: Faculty
subject: Helianthus annuus L.
subject: crop
subject: abiotic stress
subject: flooding
subject: alcohol dehydrogenase
subject: transcriptomics
subject: alternative splicing
subject: co-expression network
subject: mixed model
subject: fermentation pathway
type: Text
identifier URI: http://hdl.handle.net/2429/77220