An update to database TraVA: organ-specific cold stress response in Arabidopsis thaliana

BMC Plant Biology
Anna V KlepikovaAleksey A Penin

Abstract

Transcriptome map is a powerful tool for a variety of biological studies; transcriptome maps that include different organs, tissues, cells and stages of development are currently available for at least 30 plants. Some of them include samples treated by environmental or biotic stresses. However, most studies explore only limited set of organs and developmental stages (leaves or seedlings). In order to provide broader view of organ-specific strategies of cold stress response we studied expression changes that follow exposure to cold (+ 4 °C) in different aerial parts of plant: cotyledons, hypocotyl, leaves, young flowers, mature flowers and seeds using RNA-seq. The results on differential expression in leaves are congruent with current knowledge on stress response pathways, in particular, the role of CBF genes. In other organs, both essence and dynamics of gene expression changes are different. We show the involvement of genes that are confined to narrow expression patterns in non-stress conditions into stress response. In particular, the genes that control cell wall modification in pollen, are activated in leaves. In seeds, predominant pattern is the change of lipid metabolism. Stress response is highly organ-specific; different...Continue Reading

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Citations

Feb 25, 2020·Journal of Animal Physiology and Animal Nutrition·Bin XuLi Zhen
Mar 1, 2019·BMC Plant Biology·Yuriy L OrlovAlex V Kochetov

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Datasets Mentioned

BETA
CS70000
PRJNA411947

Methods Mentioned

BETA
dissection
transgenic
RNA-seq
GTPases
nucleotide exchange
nucleotide exchanger

Software Mentioned

CLC Genomics Workbench
R package “ DESeq2 ”
TraVa
DAVID gene functional
R package “ stats ”
ampDAP

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