The Self-Organizing Genome: Principles of Genome Architecture and Function

Cell, Год журнала: 2020, Номер 183(1), С. 28 - 45

Опубликована: Сен. 24, 2020

Язык: Английский

---

Mechanisms of enhancer action: the known and the unknown

Genome biology, Год журнала: 2021, Номер 22(1)

Опубликована: Апрель 15, 2021

Abstract Differential gene expression mechanisms ensure cellular differentiation and plasticity to shape ontogenetic phylogenetic diversity of cell types. A key regulator differential programs are the enhancers, gene-distal cis -regulatory sequences that govern spatiotemporal quantitative dynamics target genes. Enhancers widely believed physically contact promoters effect transcriptional activation. However, our understanding full complement regulatory proteins definitive mechanics enhancer action is incomplete. Here, we review recent findings present some emerging concepts on also outline a set outstanding questions.

Язык: Английский

---

Structure and mechanism of the RNA polymerase II transcription machinery

Genes & Development, Год журнала: 2020, Номер 34(7-8), С. 465 - 488

Опубликована: Апрель 1, 2020

RNA polymerase II (Pol II) transcribes all protein-coding genes and many noncoding RNAs in eukaryotic genomes. Although Pol is a complex, 12-subunit enzyme, it lacks the ability to initiate transcription cannot consistently transcribe through long DNA sequences. To execute these essential functions, an array of proteins protein complexes interact with regulate its activity. In this review, we detail structure mechanism over dozen factors that govern initiation (e.g., TFIID, TFIIH, Mediator), pausing, elongation DSIF, NELF, PAF, P-TEFb). The structural basis for regulation has advanced rapidly past decade, largely due technological innovations cryoelectron microscopy. Here, summarize wealth functional data have enabled deeper understanding mechanisms; also highlight mechanistic questions remain unanswered or controversial.

Язык: Английский

---

Transcription in Living Cells: Molecular Mechanisms of Bursting

Annual Review of Biochemistry, Год журнала: 2020, Номер 89(1), С. 189 - 212

Опубликована: Март 25, 2020

Transcription in several organisms from certain bacteria to humans has been observed be stochastic nature: toggling between active and inactive states. Periods of nascent RNA synthesis known as bursts represent individual gene activation events which multiple polymerases are initiated. Therefore, bursting is the single locus illustration both repression. Although transcriptional was originally decades ago, only recently have technological advances enabled field begin elucidating regulation at single-locus level. In this review, we focus on how biochemical, genomic, single-cell data describe regulatory steps bursts.

Язык: Английский

---

The Mediator complex as a master regulator of transcription by RNA polymerase II

Nature Reviews Molecular Cell Biology, Год журнала: 2022, Номер 23(11), С. 732 - 749

Опубликована: Июнь 20, 2022

Язык: Английский

---

What Is a Transcriptional Burst?

Trends in Genetics, Год журнала: 2020, Номер 36(4), С. 288 - 297

Опубликована: Фев. 5, 2020

Язык: Английский

---

An intrinsically disordered region-mediated confinement state contributes to the dynamics and function of transcription factors

Molecular Cell, Год журнала: 2021, Номер 81(7), С. 1484 - 1498.e6

Опубликована: Фев. 8, 2021

Язык: Английский

---

“Structure”-function relationships in eukaryotic transcription factors: The role of intrinsically disordered regions in gene regulation

Molecular Cell, Год журнала: 2022, Номер 82(21), С. 3970 - 3984

Опубликована: Окт. 19, 2022

Язык: Английский

---

Illuminating RNA biology through imaging

Nature Cell Biology, Год журнала: 2022, Номер 24(6), С. 815 - 824

Опубликована: Июнь 1, 2022

Язык: Английский

---

Transcription factor exchange enables prolonged transcriptional bursts

Molecular Cell, Год журнала: 2024, Номер 84(6), С. 1036 - 1048.e9

Опубликована: Фев. 19, 2024

Язык: Английский

---