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Series GSE165782 Query DataSets for GSE165782
Status Public on Apr 19, 2022
Title Ultrasensitive Ribo-seq reveals translational landscapes during mammalian oocyte-to-embryo transition and pre-implantation development
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary In mammals, translational control plays critical roles during oocyte-to-embryo transition (OET) when transcription ceases. However, the underlying regulatory mechanisms remain challenging to study. Here, using low-input Ribo-seq (Ribo-lite), we investigated translational landscapes during OET using 30-150 mouse oocytes or embryos per stage. Ribo-lite can also accommodate single oocytes. Combining PAIso-seq to interrogate poly(A) tail lengths, we found a global switch of translatome that closely parallels changes of poly(A) tails upon meiotic resumption. Translation activation correlates with polyadenylation and is supported by polyadenylation signal proximal cytoplasmic polyadenylation elements (papCPEs) in 3' untranslated regions. By contrast, translation repression parallels global de-adenylation. The latter includes transcripts containing no CPEs or non-papCPEs, which encode many transcription regulators that are preferentially re-activated before zygotic genome activation. CCR4-NOT, the major de-adenylation complex, and its key adaptor protein BTG4 regulate translation downregulation often independent of RNA decay. BTG4 is not essential for global de-adenylation but is required for selective gene de-adenylation and production of very short-tailed transcripts. In sum, our data reveal intimate interplays among translation, RNA stability and poly(A) tail length regulation underlying mammalian OET.
Overall design By employing Ribo-seq and RNA-seq, we systematically examined the dynamics of translatome and transcriptome of WT oocytes, WT early embryos, Cnot6l/Btg4 KO oocytes and CHX/DRB treated early embryos.
Contributor(s) Xiong Z, Xu K, Lin Z, Kong F, Wang Q, Quan Y, Li L, Xie W
Citation(s) 35697785
Submission date Jan 29, 2021
Last update date Jul 25, 2023
Contact name Zhuqing Xiong
Organization name School of Life Science, Tsinghua Univers
Street address Haidian District
City Beijing
State/province FOREIGN
ZIP/Postal code 100084
Country China
Platforms (2)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
GPL29177 Sequel II (Mus musculus)
Samples (105)
GSM5049825 4cell_Ribo_rep1
GSM5049826 4cell_Ribo_rep2
GSM5049827 8cell_Ribo_rep1
BioProject PRJNA697913
SRA SRP303825

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Supplementary file Size Download File type/resource
GSE165782_E1_singlecell_all_fpkm.txt.gz 1.1 Mb (ftp)(http) TXT
GSE165782_E5_Btg4_ribo_RNA_fpkm.txt.gz 711.9 Kb (ftp)(http) TXT
GSE165782_E6_polyAtaillength_merge.txt.gz 131.0 Kb (ftp)(http) TXT 14.6 Mb (ftp)(http) BW 8.3 Mb (ftp)(http) BW 19.1 Mb (ftp)(http) BW 18.7 Mb (ftp)(http) BW 6.7 Mb (ftp)(http) BW 8.0 Mb (ftp)(http) BW 18.8 Mb (ftp)(http) BW 17.3 Mb (ftp)(http) BW
GSE165782_RAW.tar 452.3 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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