Mechanisms of lncRNA biogenesis as revealed by nascent transcriptomics

T Nojima, NJ Proudfoot - Nature reviews Molecular cell biology, 2022 - nature.com
Mammalian genomes express two principal gene categories through RNA polymerase II-
mediated transcription: protein-coding transcription units and non-coding RNA transcription …

R-loops as Janus-faced modulators of DNA repair

A Marnef, G Legube - Nature cell biology, 2021 - nature.com
R-loops are non-B DNA structures with intriguing dual consequences for gene expression
and genome stability. In addition to their recognized roles in triggering DNA double-strand …

[HTML][HTML] Driving forces behind phase separation of the carboxy-terminal domain of RNA polymerase II

D Flores-Solis, IP Lushpinskaia, AA Polyansky… - Nature …, 2023 - nature.com
Eukaryotic gene regulation and pre-mRNA transcription depend on the carboxy-terminal
domain (CTD) of RNA polymerase (Pol) II. Due to its highly repetitive, intrinsically disordered …

[HTML][HTML] Histone recycling by FACT and Spt6 during transcription prevents the scrambling of histone modifications

C Jeronimo, C Poitras, F Robert - Cell reports, 2019 - cell.com
Genomic DNA is framed by additional layers of information, referred to as the epigenome.
Epigenomic marks such as DNA methylation, histone modifications, and histone variants are …

[HTML][HTML] FACT is recruited to the+ 1 nucleosome of transcribed genes and spreads in a Chd1-dependent manner

C Jeronimo, A Angel, VQ Nguyen, JM Kim, C Poitras… - Molecular cell, 2021 - cell.com
The histone chaperone FACT occupies transcribed regions where it plays prominent roles in
maintaining chromatin integrity and preserving epigenetic information. How it is targeted to …

[HTML][HTML] RNA Pol II length and disorder enable cooperative scaling of transcriptional bursting

P Quintero-Cadena, TL Lenstra, PW Sternberg - Molecular cell, 2020 - cell.com
Summary RNA polymerase II (RNA Pol II) contains a disordered C-terminal domain (CTD)
whose length enigmatically correlates with genome size. The CTD is crucial to eukaryotic …

[HTML][HTML] PIP2-Effector protein MPRIP regulates RNA polymerase II condensation and transcription

C Balaban, M Sztacho, L Antiga, A Miladinović… - Biomolecules, 2023 - mdpi.com
The specific post-translational modifications of the C-terminal domain (CTD) of the Rpb1
subunit of RNA polymerase II (RNAPII) correlate with different stages of transcription. The …

Transcription-coupled DNA double-strand break repair

S Guha, SR Bhaumik - DNA repair, 2022 - Elsevier
The genomic DNA is constantly under attack by cellular and/or environmental factors.
Fortunately, the cell is armed to safeguard its genome by various mechanisms such as …

Pervasive transcription: a controlled risk

T Villa, O Porrua - The FEBS Journal, 2023 - Wiley Online Library
Transcriptome‐wide interrogation of eukaryotic genomes has unveiled the pervasive nature
of RNA polymerase II transcription. Virtually, any DNA region with an accessible chromatin …

Coevolution of the Ess1-CTD axis in polar fungi suggests a role for phase separation in cold tolerance

RJ Palumbo, N McKean, E Leatherman… - Science …, 2022 - science.org
Most of the world's biodiversity lives in cold (− 2° to 4° C) and hypersaline environments. To
understand how cells adapt to such conditions, we isolated two key components of the …