RNA-Seq and Gene Network Analysis Uncover Activation of an ABA-Dependent Signalosome During the Cork Oak Root Response to Drought

Frontiers in Plant Science
Alexandre P MagalhãesHerlânder Azevedo

Abstract

Quercus suber (cork oak) is a West Mediterranean species of key economic interest, being extensively explored for its ability to generate cork. Like other Mediterranean plants, Q. suber is significantly threatened by climatic changes, imposing the need to quickly understand its physiological and molecular adaptability to drought stress imposition. In the present report, we uncovered the differential transcriptome of Q. suber roots exposed to long-term drought, using an RNA-Seq approach. 454-sequencing reads were used to de novo assemble a reference transcriptome, and mapping of reads allowed the identification of 546 differentially expressed unigenes. These were enriched in both effector genes (e.g., LEA, chaperones, transporters) as well as regulatory genes, including transcription factors (TFs) belonging to various different classes, and genes associated with protein turnover. To further extend functional characterization, we identified the orthologs of differentially expressed unigenes in the model species Arabidopsis thaliana, which then allowed us to perform in silico functional inference, including gene network analysis for protein function, protein subcellular localization and gene co-expression, and in silico enrichment...Continue Reading

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Citations

May 23, 2018·Scientific Data·António Marcos RamosSónia Gonçalves
Aug 10, 2019·G3 : Genes - Genomes - Genetics·Silvia MadritschEva M Sehr
May 31, 2020·International Journal of Molecular Sciences·Helena G SilvaM Manuela R Costa
Nov 27, 2019·Journal of Experimental Botany·Maximiliano Estravis-BarcalaMaría Verónica Arana
Dec 10, 2016·Frontiers in Plant Science·Najla KsouriYolanda Gogorcena
Feb 16, 2020·BMC Genomics·Nourolah SoltaniKimberly Gwinn
Dec 6, 2020·Scientific Reports·Le WangGen Hua Yue

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Datasets Mentioned

BETA
SRP055382

Methods Mentioned

BETA
RNA-Seq
PCR

Software Mentioned

Multiple Experiment Viewer ( MeV
ORF Predictor
EST
HIT
Omics
MeV
AtCOECis
in
Retrived
Newbler

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