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Series GSE73545 Query DataSets for GSE73545
Status Public on Nov 17, 2019
Title The evolution of DNA methylation inheritance and programming in animals
Organisms Apis mellifera; Strongylocentrotus purpuratus; Nematostella vectensis; Ciona savignyi
Experiment type Methylation profiling by high throughput sequencing
Summary DNA methylation has been found throughout animal kingdom, but it is still unclear whether this epigenetic mechanism affects the evolution of genomic elements in animals. Here, we compare the DNA methylomes of gametes and embryos from 7 representative animal species. We find that parental methylomes are propagated to the progeny without significant changes during embryogenesis in cnidarians and insects, but undergo substantial reprogramming in echinoderms, and the reprogramming become more dramatic during deuterostome evolution. Interestingly, young gene promoters in mammals tend to be reprogrammed, usually have low CpG density, don’t contain CpG Islands (CGIs) and are hypermethylated, and the hypermethylated status correlates to lower transcription. Unexpectedly, an evolutionary trend of CpG accumulation in promoters is observed only during vertebrate evolution. Most of ancient gene promoters in mammals form CGIs, which are generally unmethylated and associate with higher transcription. Thus, to gain unmethylated pattern to facilitate transcription, nature selection should be in favor of the formation of CGIs in promoters. Our data suggest that the formation of CGIs in promoters is driven by DNA methylation during mammalian evolution.
 
Overall design MethylC-seq were performed with gametes and early developmental embryos in four species, including honey bee, sea anemone, sea urchin and ciona. We compared the inheritance and programming of parental CpG methylation of animal species including cnidarian, protostome and deuterostome.
 
Contributor(s) Xu X, Li G, Li C, Zhang J, Liu J
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Submission date Sep 29, 2015
Last update date Nov 19, 2019
Contact name jiang liu
E-mail(s) liuj@big.ac.cn
Phone +8613621376393
Organization name Beijing Institute of Genomics, Chinese Academy of Sciences
Street address NO.1 Beichen West Road, Chaoyang District
City beijing
ZIP/Postal code 100101
Country China
 
Platforms (4)
GPL16097 Illumina HiSeq 2000 (Apis mellifera)
GPL17090 Illumina HiSeq 2000 (Nematostella vectensis)
GPL20965 Illumina HiSeq 2500 (Strongylocentrotus purpuratus)
Samples (22)
GSM1897577 sea_anemone_sperm_FL
GSM1897578 sea_anemone_sperm_MA
GSM1897579 sea_anemone_oocyte_FL
Relations
BioProject PRJNA297286
SRA SRP064299

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
GSE73545_RAW.tar 1.4 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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