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Title: Whole-transcriptome sequencing of the goat primary mammary epithelial cell line after challenge with Mycoplasma agalactiae      
dateReleased:
01-01-2013
description:
Whole-transcriptome sequencing of luminal epithelial cells was performed in order to profile the transcriptomic response to infection and to elucidate the immune response signaling capability of milk producing epithelial cells. Primary goat mammary epithelial cell (pgMEC) culture model, mimicking the function of luminal cells in vivo, was established and infected with Mycoplasma agalactiae (Ma). After infection total RNA was extracted from the cells at different time-points post infection (PI) and sequenced using Illumina Gene Analyzer IIx. Four datasets were generated including controls and pgMECs challenged for 3 h, 12 h, and 24 h. The obtained 50 bp sequences were mapped against the bovine reference transcriptome. In addition to analysing individual genes for differential expression (DEG), we performed functional annotation of regulated genes to assess kinetics of the immune response on a more global scale. The DEGs were analysed for representative gene ontology (GO) enrichement terms, and biological processes as well as pathways regulated in response to Ma infection using different bioinformatic tools. The results show that in response to infection pgMECs are capable to induce genes involved in proinflammatory-cytokine signaling, activation of complement system, and can produce several bactericidal molecules of innate immune response. The pathway analyses revealed that in addition to immune response, the most regulated pathways were associated with lipid metabolism, apoptosis, transcription regulation, and cell cycle regulation. The obtained data is important for assessing the dynamics of the immune response signaling in MECs and opens new possibilities to idenitfy promising candidate genes, which could be beneficial for development of new therapeutic methods and introduction of a marker assisted selection towards enhanced mastitis resistance in breeding schemes. Transcriptome analysis of 12 samples; 3 replicated samples from control cells, and from cells 3 h, 12 h, and 24 h post infection.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-30379
refinement:
raw
alternateIdentifiers:
30379
keywords:
functional genomics
dateModified:
05-02-2014
availability:
available
types:
gene expression
name:
Capra hircus
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-30379/E-GEOD-30379.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-30379/E-GEOD-30379.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=GSE30379
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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