Xiong et al. 2022 (PRJNA697913)

General Details

Title Ultrasensitive Ribo-seq reveals translational landscapes during mammalian oocyte-to-embryo transition and pre-implantation development
Organism
Number of Samples 72
Release Date 2021/01/29 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP303825
ENA SRP303825
GEO GSE165782
BioProject PRJNA697913

Publication

Title
Authors Xiong Z,Xu K,Lin Z,Kong F,Wang Q,Quan Y,Sha QQ,Li F,Zou Z,Liu L,Ji S,Chen Y,Zhang H,Fang J,Yu G,Liu B,Wang L,Wang H,Deng H,Yang X,Fan HY,Li L,Xie W
Journal Nature cell biology
Publication Date 2022 Jun
Abstract 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. © 2022. The Author(s), under exclusive licence to Springer Nature Limited.
PMC
PMID 35697785
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR13577564 PRJNA697913 Mus musculus Ribo-Seq
SRR13577565 PRJNA697913 Mus musculus Ribo-Seq
SRR13577566 PRJNA697913 Mus musculus Ribo-Seq
SRR13577567 PRJNA697913 Mus musculus Ribo-Seq
SRR13577568 PRJNA697913 Mus musculus Ribo-Seq
SRR13577569 PRJNA697913 Mus musculus Ribo-Seq
SRR13577572 PRJNA697913 Mus musculus Ribo-Seq
SRR13577573 PRJNA697913 Mus musculus Ribo-Seq
SRR13577574 PRJNA697913 Mus musculus Ribo-Seq
SRR13577575 PRJNA697913 Mus musculus Ribo-Seq
SRR13577576 PRJNA697913 Mus musculus Ribo-Seq
SRR13577577 PRJNA697913 Mus musculus Ribo-Seq
SRR13577580 PRJNA697913 Mus musculus Ribo-Seq
SRR13577581 PRJNA697913 Mus musculus Ribo-Seq
SRR13577582 PRJNA697913 Mus musculus Ribo-Seq
SRR13577583 PRJNA697913 Mus musculus Ribo-Seq
SRR13577584 PRJNA697913 Mus musculus Ribo-Seq
SRR13577585 PRJNA697913 Mus musculus Ribo-Seq
SRR13577596 PRJNA697913 Mus musculus Ribo-Seq
SRR13577598 PRJNA697913 Mus musculus Ribo-Seq
SRR13577600 PRJNA697913 Mus musculus Ribo-Seq
SRR13577602 PRJNA697913 Mus musculus Ribo-Seq
SRR13577616 PRJNA697913 Mus musculus Ribo-Seq
SRR13577617 PRJNA697913 Mus musculus Ribo-Seq
SRR18677066 PRJNA697913 Mus musculus Ribo-Seq
SRR18677067 PRJNA697913 Mus musculus Ribo-Seq
SRR18677068 PRJNA697913 Mus musculus Ribo-Seq
SRR18677069 PRJNA697913 Mus musculus Ribo-Seq
SRR18677070 PRJNA697913 Mus musculus Ribo-Seq
SRR18677071 PRJNA697913 Mus musculus Ribo-Seq
SRR18677072 PRJNA697913 Mus musculus Ribo-Seq
SRR18677073 PRJNA697913 Mus musculus Ribo-Seq
SRR18677074 PRJNA697913 Mus musculus Ribo-Seq
SRR18677075 PRJNA697913 Mus musculus Ribo-Seq
SRR18677076 PRJNA697913 Mus musculus Ribo-Seq
SRR18677077 PRJNA697913 Mus musculus Ribo-Seq
SRR18677078 PRJNA697913 Mus musculus Ribo-Seq
SRR18677079 PRJNA697913 Mus musculus Ribo-Seq
SRR18677080 PRJNA697913 Mus musculus Ribo-Seq
SRR18677081 PRJNA697913 Mus musculus Ribo-Seq
SRR18677098 PRJNA697913 Mus musculus Ribo-Seq
SRR18677099 PRJNA697913 Mus musculus Ribo-Seq
SRR18677100 PRJNA697913 Mus musculus Ribo-Seq
SRR18677101 PRJNA697913 Mus musculus Ribo-Seq
SRR18677102 PRJNA697913 Mus musculus Ribo-Seq
SRR18677103 PRJNA697913 Mus musculus Ribo-Seq
SRR18677082 PRJNA697913 Mus musculus Ribo-Seq
SRR18677083 PRJNA697913 Mus musculus Ribo-Seq
SRR18677084 PRJNA697913 Mus musculus Ribo-Seq
SRR18677085 PRJNA697913 Mus musculus Ribo-Seq
SRR18677086 PRJNA697913 Mus musculus Ribo-Seq
SRR18677087 PRJNA697913 Mus musculus Ribo-Seq
SRR18677088 PRJNA697913 Mus musculus Ribo-Seq
SRR18677089 PRJNA697913 Mus musculus Ribo-Seq
SRR18677119 PRJNA697913 Mus musculus Ribo-Seq
SRR18677120 PRJNA697913 Mus musculus Ribo-Seq
SRR18677121 PRJNA697913 Mus musculus Ribo-Seq
SRR18677122 PRJNA697913 Mus musculus Ribo-Seq
SRR18677090 PRJNA697913 Mus musculus Ribo-Seq
SRR18677091 PRJNA697913 Mus musculus Ribo-Seq
SRR18677092 PRJNA697913 Mus musculus Ribo-Seq
SRR18677093 PRJNA697913 Mus musculus Ribo-Seq
SRR18677094 PRJNA697913 Mus musculus Ribo-Seq
SRR18677095 PRJNA697913 Mus musculus Ribo-Seq
SRR18677096 PRJNA697913 Mus musculus Ribo-Seq
SRR18677097 PRJNA697913 Mus musculus Ribo-Seq
SRR18677109 PRJNA697913 Mus musculus Ribo-Seq
SRR18677110 PRJNA697913 Mus musculus Ribo-Seq
SRR18677111 PRJNA697913 Mus musculus Ribo-Seq
SRR18677112 PRJNA697913 Mus musculus Ribo-Seq
SRR18677113 PRJNA697913 Mus musculus Ribo-Seq
SRR18677114 PRJNA697913 Mus musculus Ribo-Seq
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

ⓘ For more Information on the columns shown here see: About