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Series GSE43667 Query DataSets for GSE43667
Status Public on Mar 07, 2013
Title Deep Sequencing of the Porcine Endometrial Transcriptome on Day 14 of Pregnancy
Organism Sus scrofa
Experiment type Expression profiling by high throughput sequencing
Summary In pigs, conceptus attachment to the uterine surface epithelium starts around day 14 of pregnancy preceded by a pronounced vascularization at the implantation zones, initiating the epitheliochorial placentation. To characterize the complex transcriptome changes in the endometrium in the course of initial conceptus attachment deep sequencing of endometrial RNA samples of pregnant animals (n=4) and corresponding cyclic controls (n=4) was performed using Illumina RNA-Seq. The obtained sequence reads were mapped to the porcine genome and relative expression values were calculated for the analysis of differential gene expression. Statistical analysis revealed 1,933 differentially expressed genes (FDR 1%), 1,229 with higher and 704 with lower mRNA concentration in the samples from pregnant animals. Expression of selected genes was validated by the use of quantitative real-time RT-PCR. The RNA-Seq data were compared to results of a microarray study of bovine endometrium on day 18 of pregnancy and additional related data sets. Bioinformatics analysis revealed for the genes with higher mRNA concentration in pregnant samples strong overrepresentation particularly for immune-related functional terms but also for apoptosis and cell adhesion. Overrepresented terms for the genes with lower mRNA concentration in pregnant samples were related to extracellular region, ion transport, cell adhesion and lipid and steroid metabolic process. In conclusion, RNA-Seq analysis revealed comprehensive transcriptome differences in porcine endometrium between day 14 of pregnancy and corresponding cyclic endometrium and highlighted new processes and pathways probably involved in regulation of non-invasive implantation in the pig.
 
Overall design In total, 8 samples were analyzed, 4 biological replicates for pregnant animals (samples from 4 different animals) and 4 biological replicates for cyclic controls (samples from 4 different animals)
 
Contributor(s) Samborski A, Graf A, Krebs S, Kessler B, Bauersachs S
Citation(s) 23426436
Submission date Jan 22, 2013
Last update date May 15, 2019
Contact name Stefan Michael Bauersachs
E-mail(s) stefan.bauersachs@uzh.ch
Organization name University of Zurich
Department Department for Farm Animals
Lab Genetics and Functional Genomics
Street address Eschikon 27 EHB 23.1
City Lindau
State/province Zurich
ZIP/Postal code 8315
Country Switzerland
 
Platforms (1)
GPL15064 Illumina Genome Analyzer IIx (Sus scrofa)
Samples (8)
GSM1067871 Day 14 non-pregnant control, biological replicate 1
GSM1067872 Day 14 non-pregnant control, biological replicate 2
GSM1067873 Day 14 non-pregnant control, biological replicate 3
Relations
BioProject PRJNA186961
SRA SRP018102

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
GSE43667_Cuffmerge_merged_transcripts.gtf.gz 3.1 Mb (ftp)(http) GTF
GSE43667_RAW.tar 2.5 Mb (http)(custom) TAR (of TXT)
GSE43667_Ssc10_2_EntrezGene.gtf.gz 1.9 Mb (ftp)(http) GTF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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