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Status |
Public on May 03, 2022 |
Title |
Spontaneous and ART-induced large offspring syndrome: similarities and differences in DNA methylome |
Organism |
Bos taurus |
Experiment type |
Methylation profiling by high throughput sequencing
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Summary |
Large/abnormal offspring syndrome (LOS/AOS) is a congenital overgrowth syndrome reported in ruminants produced by assisted reproduction (ART-LOS) which exhibit global disruption of the epigenome and transcriptome. LOS/AOS shares phenotypes and epigenotypes with the human congenital overgrowth condition Beckwith-Wiedemann syndrome. We have reported that LOS occurs spontaneously (SLOS), however, to date, no study has been conducted to determine if SLOS has the same methylome epimutations as ART-LOS. In this study, we performed whole genome bisulfite sequencing to examine global DNA methylation in SLOS and ART-LOS tissues. We observed unique patterns of global distribution of differentially methylated regions (DMRs) over different genomic contexts, such as promoters, CpG islands and surrounding regions, and repetitive sequences from different treatment groups. In addition, we identified hundreds of LOS-vulnerable DMRs across different cattle breeds when analyzing four idependent LOS experiments together. Specifically, there are 25 highly vulnerable DMRs that could potentially serve as molecular markers for the diagnosis of LOS, including at the promoters of DMRT2 and TBX18, at the imprinted gene bodies of IGF2R, PRDM8, and BLCAP/NNAT, and at multiple CpG islands. We also observed tissue-specific DNA methylation patterns between muscle and blood, and conservation of ART-induced DNA methylation changes between muscle and blood. We conclude that as in ART-LOS, alterations of the epigenome are involved in the etiology of SLOS. In addition, SLOS and ART-LOS share some similarities in methylome epimutations.
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Overall design |
Whole genome bisulfite sequencing (WGBS) for tissues (mainly blood and muscle) of bovine calves from control and treatment groups. Animals from the US include three from the control group, eight from the SLOS group, and three which are relatives to one SLOS animal. Animals from Spain (ES) include three from the control group, four from the ART group, three from the reproductive fluid (RF) group, and two from the RF_necropsy group.
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Contributor(s) |
Li Y, Sena Lopes J, Coy Fuster P, Rivera RM |
Citation(s) |
35466858 |
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Submission date |
Mar 21, 2022 |
Last update date |
Aug 02, 2022 |
Contact name |
RocĂo Melissa Rivera |
E-mail(s) |
riverarm@missouri.edu
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Organization name |
University of Missouri, Columbia
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Department |
Division of Animal Sciences
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Street address |
920 East Campus Drive
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City |
Columbia |
State/province |
MO |
ZIP/Postal code |
65211 |
Country |
USA |
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Platforms (1) |
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Samples (38)
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Relations |
BioProject |
PRJNA818312 |
Supplementary file |
Size |
Download |
File type/resource |
GSE199084_RAW.tar |
10.8 Gb |
(http)(custom) |
TAR (of BEDGRAPH) |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
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