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2 Publications

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    09/02/21 | Spatiotemporal coordination of transcription preinitiation complex assembly in live cells.
    Nguyen VQ, Ranjan A, Liu S, Tang X, Ling YH, Wisniewski J, Mizuguchi G, Li KY, Jou V, Zheng Q, Lavis LD, Lionnet T, Wu C
    Molecular Cell. 2021 Sep 02;81(17):3560-3575. doi: 10.1016/j.molcel.2021.07.022

    Transcription initiation by RNA polymerase II (RNA Pol II) requires preinitiation complex (PIC) assembly at gene promoters. In the dynamic nucleus, where thousands of promoters are broadly distributed in chromatin, it is unclear how multiple individual components converge on any target to establish the PIC. Here we use live-cell, single-molecule tracking in S. cerevisiae to visualize constrained exploration of the nucleoplasm by PIC components and Mediator's key role in guiding this process. On chromatin, TFIID/TATA-binding protein (TBP), Mediator, and RNA Pol II instruct assembly of a short-lived PIC, which occurs infrequently but efficiently within a few seconds on average. Moreover, PIC exclusion by nucleosome encroachment underscores regulated promoter accessibility by chromatin remodeling. Thus, coordinated nuclear exploration and recruitment to accessible targets underlies dynamic PIC establishment in yeast. Our study provides a global spatiotemporal model for transcription initiation in live cells.

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    09/01/21 | Direct detection of SARS-CoV-2 RNA using high-contrast pH-sensitive dyes.
    Timothy A. Brown , Katherine S. Schaefer , Arthur Tsang , Hyun Ah Yi , Jonathan B. Grimm , Andrew L. Lemire , Fadi M. Jradi , Charles Kim , Kevin McGowan , Kimberly Ritola , Derek T. Armstrong , Heba H. Mostafa , Wyatt Korff , Ronald D. Vale , Luke D. Lavis
    Journal of Biomolecular Techniques. 2021 Sep 01;32(3):121-133. doi: https://doi.org/10.1101/2020.12.26.20248878

    The worldwide COVID-19 pandemic has had devastating effects on health, healthcare infrastructure, social structure, and economics. One of the limiting factors in containing the spread of this virus has been the lack of widespread availability of fast, inexpensive, and reliable methods for testing of individuals. Frequent screening for infected and often asymptomatic people is a cornerstone of pandemic management plans. Here, we introduce two pH sensitive ‘LAMPshade’ dyes as novel readouts in an isothermal RT- LAMP amplification assay for SARS-CoV-2 RNA. The resulting JaneliaLAMP (jLAMP) assay is robust, simple, inexpensive, has low technical requirements and we describe its use and performance in direct testing of contrived and clinical samples without RNA extraction.

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