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Series GSE101117 Query DataSets for GSE101117
Status Public on Aug 01, 2018
Title Dynamic immune gene expression in young foals
Organism Equus caballus
Experiment type Expression profiling by high throughput sequencing
Summary This study was undertaken to obtain a global view of the temporal changes in equine immune gene expression between from the neonatal stage to adulthood. To this end, transcriptome analysis of peripheral blood mononuclear cells (PBMCs) from foals on the day of birth and again 6 weeks later was performed and contrasted with those of adult PBMCs. Differential gene expression analysis identified 2,280 genes with ≥2 fold change between PBMCs sampled on day 1 and 42 (p≤0.01). Approximately 1,000 genes differed between either day 1 or day 42 PBMC and adult PBMC. Progressive increases in expression of genes involved in adaptive and cell-mediated immunity were documented between days 1, 42, and adulthood. New insights of natural killer cell-specific genes were obtained, many of which increased expression levels between days 1 and 42 (p≤0.0005), when adult levels were achieved. Transcriptome data also demonstrated the profile of T cell receptor delta (TCRD) transcripts, representative of gamma delta T cells, which peaked in day 42 PBMCs (p=0.0136) although TCRD expression was equivalent between day 1 and adult PBMCs (p>0.05). Transcriptome data further revealed several aspects that may impair robust immune responses in the neonatal period. TLR3 gene expression was lowest in day 1 PBMC (p<0.0001) and this may contribute to viral susceptibility. Increased expression of IL27, IL13RA1, IREM-1, LAIR-1, SIRL-1, and SIRPalpha was observed in day 1 PBMC (p≤0.0198) compared to day 42 PBMC; these immunosuppressive molecules may dampen immune responses in early life. These results provide insight to the unique attributes of the equine neonatal and young immune system, and offer many avenues of future investigation.
 
Overall design Peripheral blood mononuclear cell mRNA profiles of foals on day 1 of life, day 42 of life, and adult mares (n=4 per group) were obtained by sequencing Illumina TruSeq Stranded mRNA Libraries on an Illumina NextSeq500.
 
Contributor(s) Tallmadge RL, Sun Q, Wang M, Felippe MB
Citation(s) 30183726
Submission date Jul 10, 2017
Last update date May 15, 2019
Contact name Wojciech Pawlowski
E-mail(s) mw729@cornell.edu
Organization name Cornell University
Department Plant Breeding and Genetics
Street address Bradfield Hall, Room 403
City Ithaca
State/province NY
ZIP/Postal code 14853
Country USA
 
Platforms (1)
GPL21401 Illumina NextSeq 500 (Equus caballus)
Samples (12)
GSM2699487 Day 1 Inga foal
GSM2699488 Day 1 Wild Rose foal
GSM2699489 Day 1 Konstance foal
Relations
BioProject PRJNA393733
SRA SRP111488

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
GSE101117_D1_raw_counts.txt.gz 198.8 Kb (ftp)(http) TXT
GSE101117_D42_raw_counts.txt.gz 199.5 Kb (ftp)(http) TXT
GSE101117_MARE_raw_counts.txt.gz 201.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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