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Series GSE241107 Query DataSets for GSE241107
Status Public on Feb 15, 2024
Title Control of poly(A)-tail length and translation in vertebrate oocytes and early embryos
Organisms Danio rerio; Xenopus laevis; Mus musculus; synthetic construct
Experiment type Other
Summary During oocyte maturation and early embryonic development, poly(A)-tail lengths strongly influence mRNA translation. However, how tail lengths are controlled at different developmental stages has been unclear. Here, we performed tail-length and translational profiling of mRNA reporter libraries (each with > 10 million 3สน-UTR sequence variants) in frog oocytes and embryos, and fish embryos. These analyses revealed that the UUUUA motif specifies cytoplasmic polyadenylation and identified diverse context features that modulate the activity of this 5-mer. Additional sequence motifs drive stage-specific deadenylation in embryos, and UUUUA and C-rich motifs drive tail-length-independent translational repression in oocytes. A neural network model accurately predicts tail-length change during oocyte maturation in frogs, mice, and humans. Analyses of human sequence variants showed that those predicted to disrupt tail-length control have been under negative selection, implying that our insights into control of poly(A)-tail length and translation have implications for human health and fertility.
 
Overall design Sythetic mRNA reporter libraries with random 3'-UTR sequences under four different sequence contexts were injected into frog oocytes and embryos and fish embryos. Poly(A)-tail lengths were measured to at different developmental stages to examine sequence motifs that caused tail-length changes. At the same time, poly(A)-tail lengths of endogenous mRNAs from frog oocytes and embryos, fish embryos, and mouse oocytes were measured to investiage how their tail lengths were controlled.
 
Contributor(s) Xiang K, Ly J, Bartel DP
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NIH grant(s)
Grant ID Grant title Affiliation Name
HHMI_Bartel_D Investigator Bartel, David David Bartel
R35 GM118135 Post-transcriptional gene regulation WHITEHEAD INSTITUTE FOR BIOMEDICAL RESEARCH David P Bartel
Submission date Aug 17, 2023
Last update date Feb 16, 2024
Contact name Kehui Xiang
E-mail(s) kxiang@wi.mit.edu
Organization name Whitehead Institute
Street address 455 Main Street
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (4)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL18413 Illumina HiSeq 2500 (Danio rerio)
GPL18936 Illumina HiSeq 2500 (Xenopus laevis)
Samples (83)
GSM7716793 N60_CPEmos_library_frog_oocyte_uninjected_Tail_seq
GSM7716794 N60_CPEmos_library_frog_oocyte_progesterone_1hr_Tail_seq
GSM7716795 N60_CPEmos_library_frog_oocyte_progesterone_3hr_Tail_seq
Relations
BioProject PRJNA1006406

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
GSE241107_RAW.tar 11.9 Gb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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