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Series GSE54874 Query DataSets for GSE54874
Status Public on Jun 30, 2014
Title Transcriptome sequencing at early stage infection of the wheat pathogen Zymoseptoria tritici reveals chromosomal differences in transcription patterns and host specific gene expression.
Organism Zymoseptoria tritici
Experiment type Expression profiling by high throughput sequencing
Summary We have applied whole transcriptome profiling to infer genetic determinants of pathogenicity and host specialization in Z. tritici. Our data includes RNAseq data from early infection stages of a compatible (wheat) and a non-compatible host (Brachypodium distachyon). Overall transcription of AC genes is remarkably lower than genes on core chromosomes (CC) and only 40% of the genes are transcribed. We identify 31 AC and 1069 CC genes showing plant specific expression. In addition 21 CC genes are only upregulated in wheat supporting functional relevance in host specificity. We further explore the genomic composition and distribution of unique and paralogous genes in Z. tritici focusing on the evolutionary origin of AC genes. In contrast to previous studies we show that ACs mainly encode unique genes. Phylogenetic analyses suggest that rare duplication events in the Z. tritici genome precede diversification of Zymoseptoria species and demonstrate that ACs have been maintained in the genome of Zymoseptoria over long evolutionary times.
Overall design Examination of gene expression at 3 different growth condition of the wheat pathogen Z. tritici.
Contributor(s) Kellner R, Stukenbrock EH
Citation(s) 24920004
Submission date Feb 11, 2014
Last update date May 15, 2019
Contact name Ronny Kellner
Organization name MPI for Terrestrial Microbiology
Lab Fungal Biodiversity Group
Street address Karl-von-Frischstrasse 10
City Marburg
ZIP/Postal code 35043
Country Germany
Platforms (1)
GPL18273 Illumina HiSeq 2000 (Zymoseptoria tritici)
Samples (3)
GSM1325466 IPO323_YMS
GSM1325467 IPO323_Ta
GSM1325468 IPO323_Bd
BioProject PRJNA237967
SRA SRP037578

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE54874_RAW.tar 3.0 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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