Establishment and maintenance of chromatin architecture are promoted independently of transcription by the histone chaperone FACT and H3-K56 acetylation in …

LL McCullough, TH Pham, TJ Parnell, Z Connell… - Genetics, 2019 - academic.oup.com
Using a combination of in vitro biochemistry, genetics, and genomics, McCullough and
Pham et al. explore how the histone: DNA contact at the entry/exit site of nucleosomes …

PKA-chromatin association at stress responsive target genes from Saccharomyces cerevisiae

L Baccarini, F Martínez-Montañés, S Rossi… - … et Biophysica Acta (BBA …, 2015 - Elsevier
Gene expression regulation by intracellular stimulus-activated protein kinases is essential
for cell adaptation to environmental changes. There are three PKA catalytic subunits in …

The transcription factor Spn1 regulates gene expression via a highly conserved novel structural motif

V Pujari, CA Radebaugh, JV Chodaparambil… - Journal of molecular …, 2010 - Elsevier
Spn1/Iws1 plays essential roles in the regulation of gene expression by RNA polymerase II
(RNAPII), and it is highly conserved in organisms ranging from yeast to humans. Spn1 …

The 3-base periodicity and codon usage of coding sequences are correlated with gene expression at the level of transcription elongation

E Trotta - PLoS One, 2011 - journals.plos.org
Background Gene transcription is regulated by DNA transcriptional regulatory elements,
promoters and enhancers that are located outside the coding regions. Here, we examine the …

Advances in S. cerevisiae Engineering for Xylose Fermentation and Biofuel Production: Balancing Growth, Metabolism, and Defense

ER Wagner, AP Gasch - Journal of Fungi, 2023 - mdpi.com
Genetically engineering microorganisms to produce chemicals has changed the
industrialized world. The budding yeast Saccharomyces cerevisiae is frequently used in …

The ribosome assembly gene network is controlled by the feedback regulation of transcription elongation

F Gomez-Herreros, T Margaritis… - Nucleic acids …, 2017 - academic.oup.com
Ribosome assembly requires the concerted expression of hundreds of genes, which are
transcribed by all three nuclear RNA polymerases. Transcription elongation involves …

The peptidyl prolyl isomerase Rrd1 regulates the elongation of RNA polymerase II during transcriptional stresses

J Poschmann, S Drouin, PE Jacques, K El Fadili… - PloS one, 2011 - journals.plos.org
Rapamycin is an anticancer agent and immunosuppressant that acts by inhibiting the TOR
signaling pathway. In yeast, rapamycin mediates a profound transcriptional response for …

External conditions inversely change the RNA polymerase II elongation rate and density in yeast

A Miguel, F Montón, T Li, F Gómez-Herreros… - … et Biophysica Acta (BBA …, 2013 - Elsevier
Elongation speed is a key parameter in RNA polymerase II (RNA pol II) activity. It affects the
transcription rate, while it is conditioned by the physicochemical environment it works in at …

Yeast Crf1p is an activator with different roles in regulation of target genes

S Kumar, M Mashkoor, P Balamurugan, A Grove - Yeast, 2024 - Wiley Online Library
Under stress conditions, ribosome biogenesis is downregulated. This process requires that
expression of ribosomal RNA, ribosomal protein, and ribosome biogenesis genes be …

Plants versus Fungi and Oomycetes: Pathogenesis, Defense and Counter-Defense in the Proteomics Era

A El Hadrami, AF El-Bebany, Z Yao, LR Adam… - International Journal of …, 2012 - mdpi.com
Plant-fungi and plant-oomycete interactions have been studied at the proteomic level for
many decades. However, it is only in the last few years, with the development of new …