The effect on the transcriptome of Anemone coronaria following infection with rust (Tranzschelia discolor)

PloS One
Marina LauraAndrea Allavena

Abstract

In order to understand plant/pathogen interaction, the transcriptome of uninfected (1S) and infected (2I) plant was sequenced at 3'end by the GS FLX 454 platform. De novo assembly of high-quality reads generated 27,231 contigs leaving 37,191 singletons in the 1S and 38,393 in the 2I libraries. ESTcalc tool suggested that 71% of the transcriptome had been captured, with 99% of the genes present being represented by at least one read. Unigene annotation showed that 50.5% of the predicted translation products shared significant homology with protein sequences in GenBank. In all 253 differential transcript abundance (DTAs) were in higher abundance and 52 in lower abundance in the 2I library. 128 higher abundance DTA genes were of fungal origin and 49 were clearly plant sequences. A tBLASTn-based search of the sequences using as query the full length predicted polypeptide product of 50 R genes identified 16 R gene products. Only one R gene (PGIP) was up-regulated. The response of the plant to fungal invasion included the up-regulation of several pathogenesis related protein (PR) genes involved in JA signaling and other genes associated with defense response and down regulation of cell wall associated genes, non-race-specific disease...Continue Reading

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Datasets Mentioned

BETA
SRX447797

Methods Mentioned

BETA
RNA-Seq
chip
transgenic
glycosylation
PCR

Software Mentioned

CLC Genomics Workbench
InterPro
Primer 3
BLASTx
Blast2GO
Mira
BLAST
tBLASTn
GraphPad InStat
Clustal Omega

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