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Pseudouridylation of tRNA-Derived Fragments Steers Translational Control in Stem Cells.

Cell | 2018

Pseudouridylation (Ψ) is the most abundant and widespread type of RNA epigenetic modification in living organisms; however, the biological role of Ψ remains poorly understood. Here, we show that a Ψ-driven posttranscriptional program steers translation control to impact stem cell commitment during early embryogenesis. Mechanistically, the Ψ "writer" PUS7 modifies and activates a novel network of tRNA-derived small fragments (tRFs) targeting the translation initiation complex. PUS7 inactivation in embryonic stem cells impairs tRF-mediated translation regulation, leading to increased protein biosynthesis and defective germ layer specification. Remarkably, dysregulation of this posttranscriptional regulatory circuitry impairs hematopoietic stem cell commitment and is common to aggressive subtypes of human myelodysplastic syndromes. Our findings unveil a critical function of Ψ in directing translation control in stem cells with important implications for development and disease.

Pubmed ID: 29628141 RIS Download

Additional research tools detected in this publication

Associated grants

  • Agency: NCI NIH HHS, United States
    Id: K08 CA175154

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This is a list of tools and resources that we have found mentioned in this publication.


NCBI Epigenomics (tool)

RRID:SCR_006151

THIS RESOURCE IS NO LONGER IN SERVICE, documented on January 19, 2022.

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SAM format (tool)

RRID:SCR_012093

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Anti- eIF4E Antibody (antibody)

RRID:AB_823488

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BV605 Mouse Anti-Human CD19 (antibody)

RRID:AB_2722592

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APC anti-human CD45 (antibody)

RRID:AB_314400

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Ribosomal Protein L10a (JK-16) (antibody)

RRID:AB_2285311

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Bmi1 (D42B3) Rabbit mAb (antibody)

RRID:AB_10838137

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c-Myc antibody [Y69] (antibody)

RRID:AB_731658

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RRID:AB_314396

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APC anti-human CD34 (antibody)

RRID:AB_2228972

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PABP1 Antibody (antibody)

RRID:AB_10693595

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YB1 antibody (antibody)

RRID:AB_2219278

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DHX36 Polyclonal Antibody (antibody)

RRID:AB_2551846

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DKK1 antibody (antibody)

RRID:AB_941300

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METRN antibody - Aminoterminal end (antibody)

RRID:AB_881105

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Nanos Homologue 1 (NANOS1) antibody (antibody)

RRID:AB_2150531

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Monoclonal Anti-Actin, α-Smooth Muscle (antibody)

RRID:AB_476701

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eIF4A (C32B4) Rabbit mAb (antibody)

RRID:AB_2097363

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Anti-Puromycin Antibody, clone 12D10 (antibody)

RRID:AB_2566826

This monoclonal targets Puromycin from Streptomyces alboniger

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Anti-TRA-1-60, clone TRA-1-60 (antibody)

RRID:AB_2119183

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POU5F1-human (antibody)

RRID:AB_2167703

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DKC1 Antibody (Center) (antibody)

RRID:AB_10821364

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ImageJ (software resource)

RRID:SCR_003070

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GraphPad Prism (software resource)

RRID:SCR_002798

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BD FACSDiva Software (software resource)

RRID:SCR_001456

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DAVID (software resource)

RRID:SCR_001881

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MaxQuant (software resource)

RRID:SCR_014485

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SAMTOOLS (software resource)

RRID:SCR_002105

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Piranha (software resource)

RRID:SCR_010903

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R Project for Statistical Computing (software resource)

RRID:SCR_001905

Software environment and programming language for statistical computing and graphics. R is integrated suite of software facilities for data manipulation, calculation and graphical display. Can be extended via packages. Some packages are supplied with the R distribution and more are available through CRAN family.It compiles and runs on wide variety of UNIX platforms, Windows and MacOS.

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edgeR (software resource)

RRID:SCR_012802

Bioconductor software package for Empirical analysis of Digital Gene Expression data in R. Used for differential expression analysis of RNA-seq and digital gene expression data with biological replication.

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HTSeq (software resource)

RRID:SCR_005514

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TopHat (software resource)

RRID:SCR_013035

Software tool for fast and high throughput alignment of shotgun cDNA sequencing reads generated by transcriptomics technologies. Fast splice junction mapper for RNA-Seq reads. Aligns RNA-Seq reads to mammalian-sized genomes using ultra high-throughput short read aligner Bowtie, and then analyzes mapping results to identify splice junctions between exons.TopHat2 is accurate alignment of transcriptomes in presence of insertions, deletions and gene fusions.

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Bowtie (software resource)

RRID:SCR_005476

Software ultrafast memory efficient tool for aligning sequencing reads. Bowtie is short read aligner.

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NOD.Cg-Prkdcscid Il2rg/SzJ (organism)

RRID:IMSR_JAX:005557

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HEK293T (cell line)

RRID:CVCL_0063

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WAe009-A-2 (cell line)

RRID:CVCL_C812

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