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Imaging dynamic and selective low-complexity domain interactions that control gene transcription
Live-cell single-molecule imaging revealed that TF LCDs interact to form local high-concentration hubs at both synthetic DNA arrays and endogenous genomic loci, suggesting that under physiological conditions, rapid, reversible, and selective multivalent LCD-LCD interactions occur between TFs and the RNA Pol II machinery to activate transcription.
RNA polymerase II clustering through carboxy-terminal domain phase separation
- M. Boehning, C. Dugast-Darzacq, M. Zweckstetter
- BiologyNature Structural & Molecular Biology
- 20 August 2018
It is reported that human and yeast CTDs undergo cooperative liquid phase separation, with the shorter yeast CTD forming less-stable droplets and that CTD phosphorylation liberates Pol II enzymes from hubs for promoter escape and transcription elongation.
Identification of putative noncoding polyadenylated transcripts in Drosophila melanogaster.
This work curated polyadenylated transcripts with limited protein-coding capacity from intergenic regions of the Drosophila melanogaster genome, using RT-PCR assays, hybridization to RNA blots and whole-mount embryos, and computational analyses to characterize candidate transcripts.
Novel Jun‐ and Fos‐related proteins in Drosophila are functionally homologous to enhancer factor AP‐1.
A homolog of mammalian enhancer binding factor AP‐1 was detected in Drosophila and was purified from embryo nuclear extracts by sequence‐specific DNA affinity chromatography, showing the sequence specificity as well as transcriptional activation properties of mammalianAP‐1.
In vitro analysis of the Antennapedia P2 promoter: identification of a new Drosophila transcription factor.
Investigation of the transcriptional regulation of the Antennapedia P2 (Antp P2) promoter using nuclear extracts prepared from Drosophila embryos reveals the presence of multiple cis-regulatory elements located both upstream and downstream of the start site.
Determining cellular CTCF and cohesin abundances to constrain 3D genome models
The quantification of CTCF and cohesin, two causal regulators of topologically associating domains (TADs) in mammalian cells is reported, and a method to conveniently determine the number of molecules of any Halo-tagged protein in the cell is reported.
An MMP liberates the Ninjurin A ectodomain to signal a loss of cell adhesion.
- Shuning Zhang, G. Dailey, E. Kwan, B. Glasheen, G. E. Sroga, A. Page-McCaw
- BiologyGenes & development
- 15 July 2006
The identification of NijA, a transmembrane protein whose vertebrate homologs regulate cell adhesion, as a two-hybrid binding partner for Mmp1 is reported, suggesting that tracheal cellAdhesion is regulated by a novel mechanism utilizing an MMP and a ninjurin family member.
Open-source RNA extraction and RT-qPCR methods for SARS-CoV-2 detection.
This study evaluates several protocols for RNA extraction and RT-qPCR that are simpler and less expensive than prevailing methods and has the potential to reduce the time and expense of COVID-19 testing.
Structures of three distinct activator-TFIID complexes.
It is suggested that activator contact may induce unique structural features of TFIID, thus providing nanoscale information on activator-dependent TFIIDs assembly and transcription initiation.