Data from: Integrating transcriptional, metabolomic, and physiological responses to drought stress and recovery in switchgrass (Panicum virgatum L.)
| Main Authors: | Meyer, Eli, Aspinwall, Michael J., Lowry, David B., Palacio-Mejía, Juan Diego, Logan, Tierney L., Fay, Philip A., Juenger, Thomas E. |
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| Format: | info dataset Journal |
| Terbitan: |
, 2015
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| Subjects: | |
| Online Access: |
https://zenodo.org/record/4936098 |
Daftar Isi:
- Background: In light of the changes in precipitation and soil water availability expected with climate change, understanding the mechanisms underlying plant responses to water deficit is essential. Toward that end we have conducted an integrative analysis of responses to drought stress in the perennial C4 grass and biofuel crop, Panicum virgatum (switchgrass). Responses to soil drying and re-watering were measured at transcriptional, physiological, and metabolomic levels. To assess the interaction of soil moisture with diel light:dark cycles, we profiled gene expression in drought and control treatments under pre-dawn and mid-day conditions. Results: Soil drying resulted in reduced leaf water potential, gas exchange, and chlorophyll fluorescence along with differential expression of a large fraction of the transcriptome (37%). Many transcripts responded differently depending on time of day (e.g. up-regulation pre-dawn and down-regulation mid-day). Genes associated with C4 photosynthesis were down-regulated during drought, while C4 metabolic intermediates accumulated. Rapid changes in gene expression were observed during recovery from drought, along with increased water use efficiency and chlorophyll fluorescence. Conclusions: Our findings demonstrate that drought responsive gene expression depends strongly on time of day and that gene expression is extensively modified during the first few hours of drought recovery. Analysis of covariation in gene expression, metabolite abundance, and physiology among plants revealed non-linear relationships that suggest critical thresholds in drought stress responses. Future studies may benefit from evaluating these thresholds among diverse accessions of switchgrass and other C4 grasses.
- Annotated FASTA file of custom Panicum virgatum (Alamo AP13) transcriptome assemblyA custom transcriptome assembly produced from publicly available EST data from accession Alamo AP13 (454 data from NCBI's Sequence Read Archive: accessions SRR187765-SRR187775; Sanger sequences from cDNA libraries CFNU, CFNT, and EXTA; Zhang et al., 2013). Reads were quality filtered, screened for adaptor and vector contamination, and assembled in Roche De Novo Assembler v2.6 with the '-cdna' option. This FASTA file has been compressed using the GZIP utility.AlamoAP13_annotated_transcriptome.fasta.gzAlamoAP13_transcriptome_annotationsHomology-based annotations for the custom P. virgatum Alamo AP13 transcriptome. A tab-delimited text file. Column IDs: Seq=sequence identifier; Isogroup=cluster of transcripts thought to originate from the same gene; Len=length in base pairs; Match=accession number of best match; Gene=name of the best match; GO=Gene Ontology terms associated with the best match.