Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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RNA-seq-based analysis of the pathogen-induced defense transcriptome in Arabidopsis

ABSTRACT: Pathogen infection triggers transcriptional reprogramming in host plants, however we still know little about the dynamics of the pathogen-induced defense transcriptome. The goal of this study was to investigate the dynamic reprogramming of the defense transcriptome in response to Fusarium oxysporum infection in Arabidopsis using RNA-seq technology and to provide a comprehensive analysis of genes underlying the innate immune response against the fungal pathogen. Our results suggest that the Arabidopsis transcriptome is reprogrammed to co-ordinately express multiple positive and negative regulators following pathogen infection to modulate defense gene expression and disease resistance. Our study identified a number of novel genes responsive to pathogen infection and provided a rich source of pathogen responsive genes for further functional characterization. Four samples (M1DPI, M6DPI, F1DPI and F6DPI; M=mock treated; F=Fusarium oxysporum infected; DPI=day post inoculation) were sequenced to identify pathogen responsive genes in each time point. Each sample was sequenced once, i.e. without biological replicate.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Stuart Stephen 

PROVIDER: E-GEOD-34241 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Characterization of the defense transcriptome responsive to Fusarium oxysporum-infection in Arabidopsis using RNA-seq.

Zhu Qian-Hao QH   Stephen Stuart S   Kazan Kemal K   Jin Gulei G   Fan Longjiang L   Taylor Jennifer J   Dennis Elizabeth S ES   Helliwell Chris A CA   Wang Ming-Bo MB  

Gene 20121027 2

We analyzed the dynamic defense transcriptome responsive to Fusarium oxysporum infection in Arabidopsis using a strand-specific RNA-sequencing approach. Following infection, 177 and 571 genes were up-regulated, 30 and 125 genes were down-regulated at 1 day-post-inoculation (1DPI) and 6DPI, respectively. Of these genes, 116 were up-regulated and seven down-regulated at both time points, suggesting that most genes up-regulated at the early stage of infection tended to be constantly up-regulated at  ...[more]

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