67 results found
    1. Chromosomes and Gene Expression

    Human promoter directionality is determined by transcriptional initiation and the opposing activities of INTS11 and CDK9

    Joshua D Eaton, Jessica Board ... Steven West
    High-resolution mapping of RNA polymerase II transcripts shows that the directionality of mammalian promoters is determined by preferential transcriptional initiation and the opposing activities of Integrator and CDK9.
    Version of Record
    Short Report
    • Important
    • Compelling
    1. Structural Biology and Molecular Biophysics

    Complete dissection of transcription elongation reveals slow translocation of RNA polymerase II in a linear ratchet mechanism

    Manchuta Dangkulwanich, Toyotaka Ishibashi ... Carlos J Bustamante
    Quantification of all the major on- and off-pathway kinetic parameters in the transcription elongation cycle reveals that RNA polymerase II translocates slowly in a linear, non-branched Brownian ratchet mechanism.
    1. Biochemistry and Chemical Biology
    2. Chromosomes and Gene Expression

    Chemical perturbation of an intrinsically disordered region of TFIID distinguishes two modes of transcription initiation

    Zhengjian Zhang, Zarko Boskovic ... Robert Tjian
    An inorganic tin oxochloride cluster specifically binds to an intrinsically disordered, histidine-rich, low complexity protein region and arrests de novo transcription initiation without affecting reinitiation.
    1. Structural Biology and Molecular Biophysics
    2. Cell Biology

    Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus

    Ignacio Izeddin, Vincent Récamier ... Xavier Darzacq
    While the transcription factor c-Myc explores the space in the nucleus in an unrestricted manner, the elongation factor P-TEFb's sampling of the nucleus is constrained to a complex domain with fractal characteristics.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    SON and SRRM2 are essential for nuclear speckle formation

    İbrahim Avşar Ilik, Michal Malszycki ... Tuğçe Aktaş
    Re-characterization of the targets of a commonly used nuclear speckle marker unexpectedly leads to the discovery of the elusive core of the nuclear speckles.
    1. Biochemistry and Chemical Biology
    2. Genetics and Genomics

    Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

    Iris Jonkers, Hojoong Kwak, John T Lis
    The elongation rate of RNA Polymerase II varies greatly between and along genes, as this enzyme accelerates from stable pausing to rapid elongation within genes, and is influenced by CG-content, exons and chromatin.
    1. Genetics and Genomics

    Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage

    Carla Gonçalves, Jennifer H Wisecaver ... Paula Gonçalves
    Comparative genomics coupled with genetic and biochemical studies show that central carbon metabolism in fungi can be remodeled by genes originating from bacteria.
    1. Biochemistry and Chemical Biology

    Lack of activity of recombinant HIF prolyl hydroxylases (PHDs) on reported non-HIF substrates

    Matthew E Cockman, Kerstin Lippl ... Peter J Ratcliffe
    Assays using recombinant HIF prolyl hydroxylases did not support hydroxylation of more than 20 reported non-HIF substrates under conditions where robust HIF hydroxylation was observed.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Mitotically heritable, RNA polymerase II-independent H3K4 dimethylation stimulates INO1 transcriptional memory

    Bethany Sump, Donna G Brickner ... Jason H Brickner
    During epigenetic transcriptional memory in budding yeast, histone H3 lysine 4 dimethylation - dependent on Nup1000 and independent of RNA polymerase II - regulates binding of a critical transcription factor and, once established, is mitotically heritable for at least four cell divisions.
    1. Cell Biology

    Transcriptional activator TAp63 is upregulated in muscular atrophy during ALS and induces the pro-atrophic ubiquitin ligase Trim63

    Yannick von Grabowiecki, Paula Abreu ... Christian Gaiddon
    Atrophic muscles of patients and animal models developing amyotrophic lateral sclerosis show an upregulation of TAp63 that stimulates the expression of a pro-atrophic ubiquitin ligase.

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