Global analysis of switchgrass (Panicum virgatum L.) transcriptomes in response to interactive effects of drought and heat stresses.

Autor: Hayford RK; Molecular Genetics and Epigenomics Laboratory, College of Agriculture, Science and Technology, Delaware State University, Dover, DE, USA.; Center for Bioinformatics and Computational Biology, Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA., Serba DD; USDA-ARS, U.S. Arid Land Agricultural Research Center, Maricopa, AZ, USA., Xie S; Bioinformatics Core, Purdue University, West Lafayette, IN, USA., Ayyappan V; Molecular Genetics and Epigenomics Laboratory, College of Agriculture, Science and Technology, Delaware State University, Dover, DE, USA., Thimmapuram J; Bioinformatics Core, Purdue University, West Lafayette, IN, USA. jyothit@purdue.edu., Saha MC; Noble Research Institute, LLC, Ardmore, OK, USA. msaha06@yahoo.com., Wu CH; Center for Bioinformatics and Computational Biology, Department of Computer and Information Sciences, University of Delaware, Newark, DE, USA., Kalavacharla VK; Molecular Genetics and Epigenomics Laboratory, College of Agriculture, Science and Technology, Delaware State University, Dover, DE, USA. venukalav@gmail.com.; Center for Integrated Biological and Environmental Research, Delaware State University, Dover, DE, USA. venukalav@gmail.com.
Jazyk: angličtina
Zdroj: BMC plant biology [BMC Plant Biol] 2022 Mar 08; Vol. 22 (1), pp. 107. Date of Electronic Publication: 2022 Mar 08.
DOI: 10.1186/s12870-022-03477-0
Abstrakt: Background: Sustainable production of high-quality feedstock has been of great interest in bioenergy research. Despite the economic importance, high temperatures and water deficit are limiting factors for the successful cultivation of switchgrass in semi-arid areas. There are limited reports on the molecular basis of combined abiotic stress tolerance in switchgrass, particularly the combination of drought and heat stress. We used transcriptomic approaches to elucidate the changes in the response of switchgrass to drought and high temperature simultaneously.
Results: We conducted solely drought treatment in switchgrass plant Alamo AP13 by withholding water after 45 days of growing. For the combination of drought and heat effect, heat treatment (35 °C/25 °C day/night) was imposed after 72 h of the initiation of drought. Samples were collected at 0 h, 72 h, 96 h, 120 h, 144 h, and 168 h after treatment imposition, total RNA was extracted, and RNA-Seq conducted. Out of a total of 32,190 genes, we identified 3912, as drought (DT) responsive genes, 2339 and 4635 as, heat (HT) and drought and heat (DTHT) responsive genes, respectively. There were 209, 106, and 220 transcription factors (TFs) differentially expressed under DT, HT and DTHT respectively. Gene ontology annotation identified the metabolic process as the significant term enriched in DTHT genes. Other biological processes identified in DTHT responsive genes included: response to water, photosynthesis, oxidation-reduction processes, and response to stress. KEGG pathway enrichment analysis on DT and DTHT responsive genes revealed that TFs and genes controlling phenylpropanoid pathways were important for individual as well as combined stress response. For example, hydroxycinnamoyl-CoA shikimate/quinate hydroxycinnamoyl transferase (HCT) from the phenylpropanoid pathway was induced by single DT and combinations of DTHT stress.
Conclusion: Through RNA-Seq analysis, we have identified unique and overlapping genes in response to DT and combined DTHT stress in switchgrass. The combination of DT and HT stress may affect the photosynthetic machinery and phenylpropanoid pathway of switchgrass which negatively impacts lignin synthesis and biomass production of switchgrass. The biological function of genes identified particularly in response to DTHT stress could further be confirmed by techniques such as single point mutation or RNAi.
(© 2022. The Author(s).)
Databáze: MEDLINE
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