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Title: Transcriptomic alterations in a myoblast cell line infected with four distinct strains of Trypanosoma cruzi      
dateReleased:
09-22-2009
description:
We examined the extent to which different Trypanosoma cruzi strains induce transcriptomic changes in cultured L6E9 myoblasts 72 hours or 48 hours after infection with four strains of the parasite [Brazil (TCI); Y, CL and Tulahuen (TC II) strains]. Expression of 6,289 distinct fully annotated unigenes was quantified with 27k rat oligonucleotide arrays in each of the four replicas of all control and infected RNA samples. Considering changes >1.5-fold and p-val<0.05, the Tulahuen strain was the most disruptive to host transcriptome, with (17% significantly altered genes), while in Y strain altered only 6% of the genes were altered. The significantly altered genes in the infected cells were largely different among the four strains, with only 21 genes changed in the same direction being similarly changed by all four strains. However, when expression ratios of all genes were compared, myoblasts infected with different strains showed proportional overall genbe expression alterations. These results indicate that infection with different parasite strains modulates similar but not identical pathways in the host cells. 20 µg total RNA extracted in Trizol from each of the 20 cell culture dishes containing control or infected with (Y, CL, Tulahuen or Brazil) Trypanosoma cruzi strains (4 dishes for each strain) was reverse transcribed in the presence of fluorescent Alexa Fluor®_647 or Alexa Fluor®_555-aha-dUTPs (Invitrogen, CA) to obtain labeled cDNAs. Red and green-labeled samples of biological replicas were then co-hybridized (“multiple yellow” strategy) overnight at 50°C with Operon v3.0 Rat 27k oligonucleotide arrays printed by Duke University (GPL9207). After washing (0.1% SDS and 1% SSC) to remove the non-hybridized cDNA, each array was scanned with GenePix 4000B scanner (MDS, Toronto, Canada) and images were primarily analyzed with GenePixPro 6.0 (Axon Instruments, CA).
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-18175
refinement:
raw
alternateIdentifiers:
18175
keywords:
functional genomics
dateModified:
03-05-2012
availability:
available
types:
gene expression
name:
Rattus norvegicus
ID:
A-GEOD-9207
name:
Duke Operon Rat 27k V3.0 printed oligonucleotide array
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18175/E-GEOD-18175.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-18175/E-GEOD-18175.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE18175
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress
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