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Series GSE272793 Query DataSets for GSE272793
Status Public on Sep 06, 2024
Title An atlas of small non-coding RNAs in Human Preimplantation Development (Mouse embryo RNA-seq)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Our current understanding of the molecular circuitries that govern early embryogenesis remains limited, particularly in the human. Small non-coding RNAs (sncRNAs) regulate gene expression transcriptionally and post-transcriptionally, however, the expression of specific biotypes and their dynamics during preimplantation development remains to be determined. Using Small-seq, we identified the abundance of and dynamic expression of piRNA, rRNA, snoRNA, tRNA, and miRNA in human embryos from day 3 to 7. Among the biotypes, both miRNA and snoRNA displayed distinct associations with developmental time and lineage formation, many of which were found to target key gene expression programs in pluripotency and lineage establishment. We observed an enrichment of the chromosome 19 miRNA cluster (C19MC) in the trophectoderm (TE), and the chromosome 14 miRNA cluster (C14MC) and MEG8-related snoRNAs in the inner cell mass (ICM). Additionally, isomiR analyses suggested miRNAs are modified differentially during blastulation. Finally, six novel miRNAs and their embryo gene targets we identified. Our analyses provide the first comprehensive measure of sncRNA biotypes and their corresponding dynamics throughout human preimplantation development, providing an extensive resource. Elucidating the functional roles of sncRNAs during preimplantation development will provide insight into the establishment of the blastocyst and exit from pluripotency. Further, better understanding the miRNA regulatory programs in human embryogenesis will inform strategies to improve embryo development and outcomes of assisted reproductive technologies. We anticipate broad usage of our data as a resource for studies aimed at understanding embryogenesis, optimising stem cell-based models, assisted reproductive technology, and stem cell biology.
 
Overall design Upon reaching the desired developmental stage (8-cell stage at E2.5 or 32-cell stage at E3.5), several control and mimic-treated mouse embryos (3-5 embryos per group per timepoint) were collected and sequenced to investigate the function of miR-381-3p in mouse preimplantation embryos。
 
Contributor(s) Russell SJ, Zhao C, Biondic S, Menezes K, Hagemann Jensen M, Librach CL, Petropoulos S
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Jul 22, 2024
Last update date Sep 06, 2024
Contact name Cheng Zhao
Organization name Karolinska institute
Department Department of Clinical Science
Street address Solnavägen 1, 171 77 Solna
City Stockholm
ZIP/Postal code 171 77
Country Sweden
 
Platforms (1)
GPL21626 NextSeq 550 (Mus musculus)
Samples (132)
GSM8411224 mouse_mirmOTSTEO_sample_101_b (miR381mimic_treated)
GSM8411225 mouse_mirmOTSTEO_sample_102_b (miR381mimic_treated)
GSM8411226 mouse_mirmOTSTEO_sample_103_b (miR381mimic_treated)
This SubSeries is part of SuperSeries:
GSE249713 An atlas of small non-coding RNAs in Human Preimplantation Development
Relations
BioProject PRJNA1138744

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Supplementary file Size Download File type/resource
GSE272793_mouse.smt2.scRNAseq.counts.tsv.gz 1.8 Mb (ftp)(http) TSV
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