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View article: Ultra-parallel ribosome profiling platform with RNA-dependent RNA amplification
Ultra-parallel ribosome profiling platform with RNA-dependent RNA amplification Open
Translation regulation plays a pivotal role in the diversification of gene expression and the response to intra- and extracellular environmental cues. Ribosome profiling (or Ribo-Seq) serves as a sensitive, quantitative, comprehensive, and…
View article: eIF4G2-Mediated Translation Initiation of Histone Modifiers Is Essential for Intestinal Stem Cell Maintenance and Differentiation
eIF4G2-Mediated Translation Initiation of Histone Modifiers Is Essential for Intestinal Stem Cell Maintenance and Differentiation Open
Summary eIF4G2 (also known as NAT1, p97, or DAP5) is an evolutionally conserved protein homologous to the C-terminal two-thirds portion of eukaryotic translation initiation factor (eIF) 4G. Despite its abundant and ubiquitous expression, t…
View article: Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and out-of-frame contexts
Mitochondrial translation termination, recycling, reinitiation, and rescue for in-frame and out-of-frame contexts Open
Because mitochondria diverged from a bacterial ancestor during evolution, the mitochondrial protein synthesis system includes both mRNAs and translation factors with unique characteristics. However, the molecular mechanisms underlying tran…
View article: EIF3D safeguards the homeostasis of key signaling pathways in human primed pluripotency
EIF3D safeguards the homeostasis of key signaling pathways in human primed pluripotency Open
Although pluripotent stem cell (PSC) properties, such as differentiation and infinite proliferation, have been well documented within the frameworks of transcription factor networks, epigenomes, and signal transduction, they remain unclear…
View article: Translation of zinc finger domains induces ribosome collision and Znf598-dependent mRNA decay in zebrafish
Translation of zinc finger domains induces ribosome collision and Znf598-dependent mRNA decay in zebrafish Open
Quality control of translation is crucial for maintaining cellular and organismal homeostasis. Obstacles in translation elongation induce ribosome collision, which is monitored by multiple sensor mechanisms in eukaryotes. The E3 ubiquitin …
View article: Giant virus creates subcellular environment to overcome codon– tRNA mismatch
Giant virus creates subcellular environment to overcome codon– tRNA mismatch Open
Codon usage consonant with the cellular tRNA pool is important for efficient translation. However, many eukaryotic viruses, including amoeba-infecting mimiviruses, have codon usage that is largely deviated from that of their host, despite …
View article: Sense codon-misassociated eRF1 elicits ribosome stalling and induction of quality control
Sense codon-misassociated eRF1 elicits ribosome stalling and induction of quality control Open
The rescue pathway of stalled ribosomes and ribosome-associated quality control (RQC) serves as a surveillance system for aberrant translation that senses ribosome collisions. Although the molecular mechanism has been extensively studied, …
View article: Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts
Calibrated ribosome profiling assesses the dynamics of ribosomal flux on transcripts Open
View article: Translational regulation enhances distinction of cell types in the nervous system
Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Author response: Translational regulation enhances distinction of cell types in the nervous system
Author response: Translational regulation enhances distinction of cell types in the nervous system Open
View article: Reviewer #1 (Public Review): Translational regulation enhances distinction of cell types in the nervous system
Reviewer #1 (Public Review): Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Author response: Translational regulation enhances distinction of cell types in the nervous system
Author response: Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Reviewer #3 (Public Review): Translational regulation enhances distinction of cell types in the nervous system
Reviewer #3 (Public Review): Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Translational regulation enhances distinction of cell types in the nervous system
Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Selective Translation Orchestrates Key Signaling Pathways in Primed Pluripotency
Selective Translation Orchestrates Key Signaling Pathways in Primed Pluripotency Open
Pluripotent stem cell (PSC) identities, such as differentiation and infinite proliferation, have long been understood within the frameworks of transcription factor networks, epigenomes, and signal transduction, yet remain unclear and fragm…
View article: Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast
Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast Open
Gene expression is known to vary among individuals, and this variability can impact the phenotypic diversity observed in natural populations. While the transcriptome and proteome have been extensively studied, little is known about the tra…
View article: Data and codes for the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast" paper
Data and codes for the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast" paper Open
This repository contains the codes used to analyse the RNA-seq and Ribo-seq data pulbished in the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast". The main analysis were perfor…
View article: Data and codes for the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast" paper
Data and codes for the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast" paper Open
<p>This repository contains the codes used to analyse the RNA-seq and Ribo-seq data pulbished in the "Translation variation across genetic backgrounds reveals a post-transcriptional buffering signature in yeast".</p>\n<p>…
View article: Reviewer #2 (Public Review): Translational regulation enhances distinction of cell types in the nervous system
Reviewer #2 (Public Review): Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cells with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profiles rem…
View article: Reviewer #1 (Public Review): Translational regulation enhances distinction of cell types in the nervous system
Reviewer #1 (Public Review): Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cells with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profiles rem…
View article: Translational regulation enhances distinction of cell types in the nervous system
Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: Translational regulation enhances distinction of cell types in the nervous system
Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cells with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profiles rem…
View article: The complexity and dynamics of<i>in organello</i>translation assessed by high-resolution mitochondrial ribosome profiling
The complexity and dynamics of<i>in organello</i>translation assessed by high-resolution mitochondrial ribosome profiling Open
Since mitochondrial translation serves the essential subunits of the OXPHOS complex that produces ATP, exhaustive, quantitative, and high-resolution delineation of mitoribosome traversal is needed. Here, we developed a technique for high-r…
View article: Absolute calibration of ribosome profiling assesses the dynamics of ribosomal flux on transcripts
Absolute calibration of ribosome profiling assesses the dynamics of ribosomal flux on transcripts Open
Ribosome profiling, which is based on deep sequencing of ribosome footprints, has served as a powerful tool for elucidating the regulatory mechanism of protein synthesis. However, the current method has substantial issues: contamination by…
View article: Translational regulation enhances distinction of cell types in the nervous system
Translational regulation enhances distinction of cell types in the nervous system Open
Multicellular organisms are composed of specialized cell types with distinct proteomes. While recent advances in single-cell transcriptome analyses have revealed differential expression of mRNAs, cellular diversity in translational profile…
View article: ILF3 prion-like domain regulates gene expression and fear memory under chronic stress
ILF3 prion-like domain regulates gene expression and fear memory under chronic stress Open
View article: Gravitational and mechanical forces drive mitochondrial translation
Gravitational and mechanical forces drive mitochondrial translation Open
Life on Earth has evolved in a form suitable for the gravitational force of 1 × g . Although the pivotal role of gravity in gene expression has been revealed by multiomics approaches in space-flown samples and astronauts, the molecular det…
View article: Thor-Ribo-Seq: ribosome profiling tailored for low input with RNA-dependent RNA amplification
Thor-Ribo-Seq: ribosome profiling tailored for low input with RNA-dependent RNA amplification Open
Translation regulation plays a pivotal role in the diversification of gene expression and the response to intra- and extracellular environmental cues. Ribosome profiling (or Ribo-Seq) serves as a sensitive, quantitative, comprehensive, and…
View article: A parasitic fungus employs mutated eIF4A to survive on rocaglate-synthesizing Aglaia plants
A parasitic fungus employs mutated eIF4A to survive on rocaglate-synthesizing Aglaia plants Open
Plants often generate secondary metabolites as defense mechanisms against parasites. Although some fungi may potentially overcome the barrier presented by antimicrobial compounds, only a limited number of examples and molecular mechanisms …
View article: Author response: A parasitic fungus employs mutated eIF4A to survive on rocaglate-synthesizing Aglaia plants
Author response: A parasitic fungus employs mutated eIF4A to survive on rocaglate-synthesizing Aglaia plants Open
Article Figures and data Abstract Editor's evaluation eLife digest Introduction Results Discussion Materials and methods Appendix 1 Data availability References Decision letter Author response Article and author information Metrics Abstrac…