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    1. Developmental Biology
    2. Chromosomes and Gene Expression

    A global change in RNA polymerase II pausing during the Drosophila midblastula transition

    Kai Chen et al.
    The first zygotic genes are transcribed without RNA polymerase II pausing from a TATA-enriched promoter.
    1. Physics of Living Systems

    A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute

    Jonathan Desponds et al.
    Maternal positional information in the fly embryo can be read rapidly in spite of the gene-expression bottleneck and general examples of regulatory architectures that combine speed and accuracy are provided.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Communication between distinct subunit interfaces of the cohesin complex promotes its topological entrapment of DNA

    Vincent Guacci et al.
    The interface formed where Smc3p and Mcd1p bind each other regulates cohesin DNA binding and cohesion by a mechanism independently from its putative role as a DNA exit gate.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Genome plasticity in Candida albicans is driven by long repeat sequences

    Robert T Todd et al.
    Previously uncharacterized long repeat sequences are associated with significant genome variation that can increase fitness and promote antifungal drug resistance in diverse isolates of Candida albicans.
    1. Chromosomes and Gene Expression

    A stable mode of bookmarking by TBP recruits RNA polymerase II to mitotic chromosomes

    Sheila S Teves et al.
    The general transcriptional machinery promotes the efficient reactivation of global transcription following mitosis, and thereby enables maintenance of transcriptional memory through the cell cycle.
    1. Biochemistry and Chemical Biology
    2. Chromosomes and Gene Expression

    Opposing roles for DNA replication initiator proteins ORC1 and CDC6 in control of Cyclin E gene transcription

    Manzar Hossain, Bruce Stillman
    Two related DNA replication initiation proteins contribute to the decision of whether to enter a new round of the cell division cycle or enter into a period of proliferative quiescence.
    1. Chromosomes and Gene Expression

    Promoter nucleosome dynamics regulated by signalling through the CTD code

    Philippe Materne et al.
    Phosphorylation of the C-terminal domain (CTD) of RNA Polymerase II controls nucleosomes dynamics at specific promoters to regulate transcription.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Defining the location of promoter-associated R-loops at near-nucleotide resolution using bisDRIP-seq

    Jason G Dumelie, Samie R Jaffrey
    Genome-wide profiling of R-loops at near single-nucleotide resolution reveals distinct R-loop boundaries depending on the presence and location of the first exon-intron junction.
    1. Genetics and Genomics
    2. Stem Cells and Regenerative Medicine

    Global DNA methylation remodeling during direct reprogramming of fibroblasts to neurons

    Chongyuan Luo et al.
    Induced neuronal cells acquire epigenomic signatures specific to matured neurons.
    1. Chromosomes and Gene Expression
    2. Physics of Living Systems

    DNA sequence encodes the position of DNA supercoils

    Sung Hyun Kim et al.
    Single-molecule experiments reveal that plectonemic supercoils occupy specific positions on DNA and a physical model relates this to the intrinsic curvature, providing an insight into how supercoiling organizes the genome.