Understanding nucleosome dynamics and their links to gene expression and DNA replication

WKM Lai, BF Pugh - Nature reviews Molecular cell biology, 2017 - nature.com
Advances in genomics technology have provided the means to probe myriad chromatin
interactions at unprecedented spatial and temporal resolution. This has led to a profound …

Regulation of ribosomal protein genes: An ordered anarchy

C Petibon, M Malik Ghulam, M Catala… - Wiley Interdisciplinary …, 2021 - Wiley Online Library
Ribosomal protein genes are among the most highly expressed genes in most cell types.
Their products are generally essential for ribosome synthesis, which is the cornerstone for …

A high-resolution protein architecture of the budding yeast genome

MJ Rossi, PK Kuntala, WKM Lai, N Yamada, N Badjatia… - Nature, 2021 - nature.com
The genome-wide architecture of chromatin-associated proteins that maintains chromosome
integrity and gene regulation is not well defined. Here we use chromatin …

Genomic nucleosome organization reconstituted with pure proteins

N Krietenstein, M Wal, S Watanabe, B Park… - Cell, 2016 - cell.com
Chromatin remodelers regulate genes by organizing nucleosomes around promoters, but
their individual contributions are obfuscated by the complex in vivo milieu of factor …

Phase separation directs ubiquitination of gene-body nucleosomes

LD Gallego, M Schneider, C Mittal, A Romanauska… - Nature, 2020 - nature.com
The conserved yeast E3 ubiquitin ligase Bre1 and its partner, the E2 ubiquitin-conjugating
enzyme Rad6, monoubiquitinate histone H2B across gene bodies during the transcription …

Sequence-directed action of RSC remodeler and general regulatory factors modulates+ 1 nucleosome position to facilitate transcription

S Kubik, E O'Duibhir, WJ de Jonge, S Mattarocci… - Molecular cell, 2018 - cell.com
Accessible chromatin is important for RNA polymerase II recruitment and transcription
initiation at eukaryotic promoters. We investigated the mechanistic links between promoter …

Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress

AP Gasch, FB Yu, J Hose, LE Escalante, M Place… - PLoS …, 2017 - journals.plos.org
From bacteria to humans, individual cells within isogenic populations can show significant
variation in stress tolerance, but the nature of this heterogeneity is not clear. To investigate …

Transcriptional control of ribosome biogenesis in yeast: links to growth and stress signals

D Shore, S Zencir, B Albert - Biochemical Society Transactions, 2021 - portlandpress.com
Ribosome biogenesis requires prodigious transcriptional output in rapidly growing yeast
cells and is highly regulated in response to both growth and stress signals. This minireview …

Developmental and housekee** transcriptional programs in Drosophila require distinct chromatin remodelers

O Hendy, L Serebreni, K Bergauer, F Muerdter… - Molecular cell, 2022 - cell.com
Gene transcription is a highly regulated process in all animals. In Drosophila, two major
transcriptional programs, housekee** and developmental, have promoters with distinct …

What do transcription factors interact with?

H Chen, BF Pugh - Journal of molecular biology, 2021 - Elsevier
Although we have made significant progress, we still possess a limited understanding of
how genomic and epigenomic information directs gene expression programs through …