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Series GSE74152 Query DataSets for GSE74152
Status Public on Nov 26, 2016
Title Massive dysregulation of genes involved in cell signaling and placental development in cloned cattle conceptus and maternal endometrium
Organism Bos taurus
Experiment type Expression profiling by high throughput sequencing
Summary A major unresolved issue in the cloning of mammals by somatic cell nuclear transfer (SCNT) is the mechanism by which the process fails after embryos are transferred to the uterus of recipients, prior to or during the implantation window. We investigated this problem by using RNA-seq to compare the transcriptomes in cattle conceptuses produced by SCNT and artificial insemination (AI) at d18 (pre-implantation) and d34 (post-implantation) of gestation. In addition, endometrium was profiled in order to identify the communication pathways that might be affected by the presence of a cloned conceptus, ultimately leading to mortality prior to or during the implantation window. At d18, the effects on the transcriptome associated with SCNT were massive, involving more than 5,000 differentially expressed genes (DEGs). Among them are 121 genes that have embryonic lethal phenotypes in mice, cause defects in trophoblast and placental development, and/or affect conceptus survival in mice. In endometria at d18, <0.4% of expressed genes were affected by the presence of a cloned conceptus, whereas at d34, ~36% and <0.7% of genes were differentially expressed in intercaruncular and caruncular tissues, respectively. Functional analysis of DEGs in placental and endometrial tissues suggests a major disruption of signaling between the cloned conceptus and the endometrium, particularly the intercaruncular tissue. Our results support a bottleneck model for cloned conceptus survival during the peri-implantation period determined by gene expression levels in extra-embryonic tissues and the endometrial response to altered signaling from clones.
 
Overall design polyA+ mRNA profiles of 14 samples of day 18 extra-embryonic tissue, 12 samples of day 34 CHO, 9 samples of day 34 ALL, 14 samples of day 18 endometrial CAR, 14 samples of day 18 endometrial ICAR, 12 samples of day 34 endometrial CAR, and 12 samples of day 34 endometrial ICAR
 
Contributor(s) Biase FH, Lewin HA
Citation(s) 27940919
Submission date Oct 19, 2015
Last update date May 15, 2019
Contact name Fernando H Biase
E-mail(s) fbiase@auburn.edu
Phone 334-844-1680
Organization name Auburn University
Department Animal Sciences
Lab Biase lab
Street address 559 Devall Drive
City Auburn
State/province AL
ZIP/Postal code 36849
Country USA
 
Platforms (1)
GPL15749 Illumina HiSeq 2000 (Bos taurus)
Samples (87)
GSM1911703 18_EET_AI_20
GSM1911704 18_EET_AI_13
GSM1911705 18_EET_AI_9
Relations
BioProject PRJNA299183
SRA SRP064974

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
GSE74152_unfiltered_reads_count_EET.txt.gz 913.5 Kb (ftp)(http) TXT
GSE74152_unfiltered_reads_count_END.txt.gz 1.4 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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