Global transcriptome profiling of wild soybean (Glycine soja) roots under NaHCO3 treatment.

BMC Plant Biology
Ying GeHua Cai

Abstract

Plant roots are the primary site of perception and injury for saline-alkaline stress. The current knowledge of saline-alkaline stress transcriptome is mostly focused on saline (NaCl) stress and only limited information on alkaline (NaHCO3) stress is available. Using Affymetrix Soybean GeneChip, we conducted transcriptional profiling on Glycine soja roots subjected to 50 mmol/L NaHCO3 treatment. In a total of 7088 probe sets, 3307 were up-regulated and 5720 were down-regulated at various time points. The number of significantly stress regulated genes increased dramatically after 3 h stress treatment and peaked at 6 h. GO enrichment test revealed that most of the differentially expressed genes were involved in signal transduction, energy, transcription, secondary metabolism, transporter, disease and defence response. We also detected 11 microRNAs regulated by NaHCO3 stress. This is the first comprehensive wild soybean root transcriptome analysis under alkaline stress. These analyses have identified an inventory of genes with altered expression regulated by alkaline stress. The data extend the current understanding of wild soybean alkali stress response by providing a set of robustly selected, differentially expressed genes for fu...Continue Reading

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Datasets Mentioned

BETA
GSE17883
DQ355800

Methods Mentioned

BETA
PCR
electrophoresis
chip

Software Mentioned

Edge
TM4
BLASTn
[UNK] 5 Optical System
Primer3
Affymetrix GCOS
MeV
Mapman
dChip
[UNK] Optical System

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