Study : Eucalyptus nitens transcriptome under cold stress
Identification
Name
Eucalyptus nitens transcriptome under cold stress
Identifier
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Source
Description
Eucalyptus nitens is a fast-growing species used principally for pulpwood, and solid-wood production. Due to its cold hardiness is preferred over other Eucalyptus species at higher elevations, due to its frost tolerance. This study presents a transcriptome analysis of mRNA libraries, to identify differentially expressed genes involved in the first (chilling temperature) and the second stage (freezing temperature) of cold acclimation and a deacclimation process in E. nitens. From mRNA-Seq libraries, 180 million reads were mapped to the Eucalyptus grandis reference genome allowing to identify 18,119 unique transcripts. The differential expression analysis allowed to identify 1,600 significant unique genes of which 1,088 and 1,071 were identified in cold-acclimated and deacclimated, respectively. The gene ontology analysis revealed that differentially expressed genes (DEG) were significantly enriched in response to stimulus, response to abiotic stimulus, membrane, catalytic activity and cell periphery. The biochemical pathways analysis revealed a large number of DEG represented in flavonoid biosynthesis, biosynthesis of phenylpropanoids, photosynthesis, glycolisis/gluconeogenesis, nitrogen metabolism and carotenoid biosynthesis. A total of 115 DEG corresponding to transcription factors were identified, being the most represented families AP2, MYB and WRKY. Additionally, two reference genes were identified as the most stable for the normalization of six cold acclimation responsive genes by quantitative real time PCR to validate in silico gene expression analysis. This transcriptome analysis revealed valuable information about the dynamic and complex nature of gene expression occurring during cold acclimation.
Genotype
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