Yuichi Shichino

The paper introduces a method to quantify tRNA in low-input samples using RNA-dependent RNA amplification with T7 polymerase, showing reproducible and quantitative results.

The paper uses optogenetic stimulation and Ribo-seq in Drosophila to show that neuronal activity triggers two phases of translation: one for synaptic factors and another for ribosomal proteins, regulated by TOP motifs and La-related protein.

This study identifies NudC as a novel regulator of ribosome biogenesis and homeostasis in Drosophila polyploid cells, independent of its known role in dynein regulation.

The paper identifies translational regulation of GAD1 in the mouse SCN using Ribo-seq and RNA-seq, showing light-induced ribosome binding without mRNA changes.

The paper shows how mimiviruses create a subcellular environment to overcome codon-tRNA mismatch by localizing viral mRNAs and proteins at the periphery of a viral factory.

The paper develops a semi-automated Ribo-Seq and Disome-Seq platform to analyze translation status across many samples, identifying factors regulating translation and revealing links between stop codon readthrough and mitochondrial translation deficiency in COVID-19.

APEX-Ribo-Seq maps local translation across organelles and identifies compartment-specific transcripts, revealing sequence features and dynamics of subcellular translation.

This study shows that eIF4G2 is essential for intestinal stem cell maintenance and differentiation by facilitating the translation of histone modifiers.

This study identifies EIF3D as a key regulator of primed pluripotency through selective translational control of signaling pathways and p53 regulators.

The paper examines translation variation across yeast genetic backgrounds and identifies a post-transcriptional buffering signature that affects essential genes and low-transcribed genes.

The paper shows that translational regulation, particularly through 5' leader uORFs, enhances cell-type distinction in the Drosophila nervous system by preferentially translating neuronal proteins in neurons.

This paper identifies pateamine A as a small-molecule compound that selectively represses mRNA translation by anchoring eIF4A and DDX3 to GNG motifs.

This study develops a high-resolution mitochondrial ribosome profiling technique to analyze translation dynamics and regulation in mammals.

The paper investigates how Znf598-mediated no-go decay (NGD) degrades mRNAs encoding C2H2-ZF domains during zebrafish development, preventing ribosome collisions and maintaining translational homeostasis.

This paper introduces methods to absolute quantify ribosome flux on transcripts, revealing ribosome allocation under stress, aging, and across cell types.

CRISPRδ uses dCas13 to specifically block translation without affecting mRNA stability, achieving high gene knockdown specificity in mammalian cells.

The paper shows that gravity and mechanical forces influence mitochondrial translation by affecting signaling pathways and malonylation of the translational machinery.

Thor-Ribo-Seq enables ribosome profiling on low-input samples using RNA-dependent RNA amplification to assess ribosome traversal with codon resolution.

The paper identifies a fungal mutation that allows survival on plants producing toxic rocaglates by altering eIF4A, a target of these compounds.

This study identifies SFSV NSs as a viral protein that suppresses the integrated stress response by binding to eIF2B and preventing eIF2(P) from inhibiting nucleotide exchange.

The paper shows that eIF4A1, not eIF4A2, facilitates LARP1-mediated translation repression during mTORC1 inhibition by preferentially binding TOP mRNAs.

This study identifies Fbl's role in driving the developmental clock of neural stem cells through translational control of H3K27me3 modifiers.

The paper identifies genome-wide ribosome collision sites in humans and zebrafish, revealing their sequence motifs and functional roles in protein synthesis.

The paper shows that codon bias affects mRNA stability in humans through ILF2, with GC3 codons stabilizing and AT3 codons destabilizing mRNA.