☆ 4.7 Article

Transcriptional Readthrough Interrupts Boundary Function in Drosophila

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2023)

相关参考文献

注意：仅列出部分参考文献，下载原文获取全部文献信息。

Review Biochemistry & Molecular Biology

Mechanisms of Interaction between Enhancers and Promoters in Three Drosophila Model Systems

Olga Kyrchanova et al.

Summary: In higher eukaryotes, the regulation of developmental gene expression is determined by enhancers, which can be located far away from the promoters they regulate. The architecture of chromosomes and the mechanisms of enhancer-promoter interaction play a crucial role in the development of organisms. Mammals and Drosophila share key architectural proteins and similar mechanisms in chromosome organization. This review discusses the current progress in understanding the formation and regulation of long-range interactions between enhancers and promoters in Drosophila.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2023)

添加到收藏夹

Article Multidisciplinary Sciences

Genome organization controls transcriptional dynamics during development

Philippe J. Batut et al.

Summary: Past studies have provided contradictory claims about the role of genome organization in gene activity regulation. This study demonstrates that the Drosophila genome is organized by two independent classes of regulatory sequences, tethering elements and insulators. These two levels of genome organization operate independently to ensure precise transcriptional dynamics and reliable complex patterning processes.

SCIENCE (2022)

添加到收藏夹

Review Biochemistry & Molecular Biology

Emerging Functions of lncRNA Loci beyond the Transcript Itself

Hober Nelson Nunez-Martinez et al.

Summary: Thousands of long noncoding RNAs (lncRNAs) in mammalian genomes play important regulatory functions, and their functional mechanisms can be achieved through RNA-based or RNA-independent ways, further expanding the understanding of their significance in genome biology.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2022)

添加到收藏夹

Review Genetics & Heredity

Mechanisms of enhancer-promoter communication and chromosomal architecture in mammals and Drosophila

Olga V. Kyrchanova et al.

Summary: The spatial organization of chromosomes plays a crucial role in regulating various intranuclear processes, including gene expression in higher eukaryotes. Drosophila has been used as a model to study gene expression regulation, leading to the discovery of many transcription factors that are homologous to those involved in gene expression regulation in mammals. The current understanding suggests that the architecture of mammalian chromosomes is primarily determined by a cohesin complex, which forms chromatin loops on anchors created by CTCF, a DNA-binding architectural protein. However, the role of the cohesin complex in chromosome architecture in Drosophila is not well understood, and CTCF is just one of many architectural proteins in Drosophila that have the potential to organize specific long-range interactions between regulatory elements in the genome. This review compares the mechanisms responsible for long-range interactions and chromosome architecture between mammals and Drosophila.

FRONTIERS IN GENETICS (2022)

添加到收藏夹

Review Biochemistry & Molecular Biology

Integrated lncRNA function upon genomic and epigenomic regulation

Allison B. Herman et al.

Summary: In the past 25 years, numerous long noncoding RNAs (lncRNAs) with diverse sequences, structures, and functions have been discovered through high-throughput and sensitive technologies. lncRNAs create an additional regulatory dimension by interacting with proteins and nucleic acids, helping to establish robust, nimble, and specific transcriptional and posttranscriptional control over gene expression.

MOLECULAR CELL (2022)

添加到收藏夹

Review Genetics & Heredity

The spatial organization of transcriptional control

Antonina Hafner et al.

Summary: Chromosome tracing has been instrumental in advancing our understanding of 3D chromatin topology and its role in transcriptional regulation. It has helped resolve questions and conflicting models that arose from data generated by sequencing-based approaches. New tools for high-throughput super-resolution imaging have directly visualized the 3D chromatin organization, settling unresolved debates and generating new hypotheses about the role of chromatin structure in transcriptional regulation.

NATURE REVIEWS GENETICS (2022)

添加到收藏夹

Review Biochemistry & Molecular Biology

Mechanisms of Enhancer-Promoter Interactions in Higher Eukaryotes

Olga Kyrchanova et al.

Summary: Enhancers determine gene transcription activation in specific cell types and developmental stages by transforming signals from transcription factors. Developmental genes can be associated with multiple enhancers located at large distances, and the mechanisms underlying specific distance interactions between enhancers and promoters are not well understood.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

添加到收藏夹

Review Cell Biology

Gene regulation by long non-coding RNAs and its biological functions

Luisa Statello et al.

Summary: Recent studies have shed new light on the biogenesis and functions of long non-coding RNAs (lncRNAs), showcasing their diverse roles in gene regulation and signaling pathways, particularly in the contexts of neuronal disorders, immune responses, and cancer. The discovery of unique biogenesis pathways and subcellular localizations of lncRNAs has opened up potential therapeutic avenues for targeting lncRNAs in various biological and pathophysiological conditions.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2021)

添加到收藏夹

Review Cell Biology

To loop or not to loop: what is the role of TADs in enhancer function and gene regulation?

Gabriel R. Cavalheiro et al.

Summary: The past decade has witnessed significant advancements in understanding the three-dimensional properties of the genome, particularly in terms of chromatin structures and their impact on gene expression. However, there is still much to learn about the underlying mechanisms and functional roles of genome topology. Recent studies utilizing genetic manipulations have provided new insights into the relationship between genome topology and gene expression, with a focus on enhancer function.

CURRENT OPINION IN GENETICS & DEVELOPMENT (2021)

添加到收藏夹

Review Cell Biology

Understanding 3D genome organization by multidisciplinary methods

Ivana Jerkovic et al.

Summary: This review discusses various methods for analyzing 3D genome organization, including sequencing, microscopy, and computational approaches, which have significantly advanced our understanding of nuclear architecture and function.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2021)

添加到收藏夹

Article Genetics & Heredity

Mechanism and functional role of the interaction between CP190 and the architectural protein Pita in Drosophila melanogaster

Marat Sabirov et al.

Summary: Our results demonstrate the critical role of the CP190 protein in insulation and suggest that regulatory elements are composed of combinations of binding sites that interact with multiple architectural proteins. Unexpectedly, we found that CP190 remained associated with most genome regions bound by the mutant Pita protein, indicating that other architectural proteins were still recruiting CP190 to these regions.

EPIGENETICS & CHROMATIN (2021)

添加到收藏夹

Review Biochemistry & Molecular Biology

CTCF As an Example of DNA-Binding Transcription Factors Containing Clusters of C2H2-Type Zinc Fingers

O. G. Maksimenko et al.

Summary: CTCF protein plays a key role in the organization of mammalian chromosome structure, containing eleven C2H2-type zinc finger domains and specifically binding to a conserved DNA sequence. The class of C2H2 proteins, which carry a cluster of C2H2-type zinc fingers, is widely present in animals, despite most of their functions remaining unknown.

ACTA NATURAE (2021)

添加到收藏夹

Article Genetics & Heredity

An insulator blocks access to enhancers by an illegitimate promoter, preventing repression by transcriptional interference

Miki Fujioka et al.

Summary: Chromatin insulators are regulatory DNA elements that separate genes along chromosomes into functional units. Deleting an insulator can lead to the activation of a flanking promoter and transcriptional read-through, causing repression of the target gene. This study highlights the importance of transcriptional read-through in understanding the effects of insulators on gene expression.

PLOS GENETICS (2021)

添加到收藏夹

Article Biochemistry & Molecular Biology

Enhancer occlusion transcripts regulate the activity of human enhancer domains via transcriptional interference: a computational perspective

Amit Pande et al.

NUCLEIC ACIDS RESEARCH (2020)

添加到收藏夹

Article Multidisciplinary Sciences

The insulator functions of the Drosophila polydactyl C2H2 zinc finger protein CTCF: Necessity versus sufficiency

Olga Kyrchanova et al.

SCIENCE ADVANCES (2020)

添加到收藏夹

Review Biochemistry & Molecular Biology

Enhancer RNAs are an important regulatory layer of the epigenome

Vittorio Sartorelli et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2020)

添加到收藏夹

Review Biochemistry & Molecular Biology

The Functions and Mechanisms of Action of Insulators in the Genomes of Higher Eukaryotes

L. S. Melnikova et al.

ACTA NATURAE (2020)

添加到收藏夹

Review Biochemistry & Molecular Biology

Chromatin Architecture in the Fly: Living without CTCF/Cohesin Loop Extrusion? Alternating Chromatin States Provide a Basis for Domain Architecture in Drosophila

Nicholas E. Matthews et al.

BIOESSAYS (2019)

添加到收藏夹

Review Cell Biology

Function and regulation of chromatin insulators in dynamic genome organization

Dahong Chen et al.

CURRENT OPINION IN CELL BIOLOGY (2019)

添加到收藏夹

Article Multidisciplinary Sciences

Complete reconstitution of bypass and blocking functions in a minimal artificial Fab-7 insulator from Drosophila bithorax complex

Olga Kyrchanova et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2019)

添加到收藏夹

Review Developmental Biology

Chromatin topology, condensates and gene regulation: shifting paradigms or just a phase?

Mustafa Mir et al.

DEVELOPMENT (2019)

添加到收藏夹

Article Genetics & Heredity

Distinct Elements Confer the Blocking and Bypass Functions of the Bithorax Fab-8 Boundary

Olga Kyrchanova et al.

GENETICS (2019)

添加到收藏夹

Review Biochemistry & Molecular Biology

The multiscale effects of polycomb mechanisms on 3D chromatin folding

Thierry Cheutin et al.

CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY (2019)

添加到收藏夹

Article Biochemistry & Molecular Biology

Transcriptional interference by small transcripts in proximal promoter regions

Amit Pande et al.

NUCLEIC ACIDS RESEARCH (2018)

添加到收藏夹

Article Genetics & Heredity

Polycomb and Trithorax Group Genes in Drosophila

Judith A. Kassis et al.

GENETICS (2017)

添加到收藏夹

Article Genetics & Heredity

Polycomb and Trithorax Group Genes in Drosophila

Judith A. Kassis et al.

GENETICS (2017)

添加到收藏夹

Article Biochemistry & Molecular Biology

Boundaries of loop domains (insulators): Determinants of chromosome form and function in multicellular eukaryotes

Darya Chetverina et al.

BIOESSAYS (2017)

添加到收藏夹

Review Biochemistry & Molecular Biology

The open for business model of the bithorax complex in Drosophila

Robert K. Maeda et al.

CHROMOSOMA (2015)

添加到收藏夹

Article Developmental Biology

The boundary paradox in the Bithorax complex

Olga Kyrchanova et al.

MECHANISMS OF DEVELOPMENT (2015)

添加到收藏夹

Article Developmental Biology

Hox miRNA regulation within the Drosophila Bithorax complex: Patterning behavior

Daniel L. Garaulet et al.

MECHANISMS OF DEVELOPMENT (2015)

添加到收藏夹

Article Biochemistry & Molecular Biology

Functional Requirements for Fab-7 Boundary Activity in the Bithorax Complex

Daniel Wolle et al.

MOLECULAR AND CELLULAR BIOLOGY (2015)

添加到收藏夹

Review Biochemistry & Molecular Biology

Surviving an identity crisis: A revised view of chromatin insulators in the genomics era

Leah H. Matzat et al.

BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS (2014)

添加到收藏夹

Article Developmental Biology

Deciphering the combinatorial architecture of a Drosophila homeotic gene enhancer

Robert A. Drewell et al.

MECHANISMS OF DEVELOPMENT (2014)

添加到收藏夹

Article Biology

H3K27 modifications define segmental regulatory domains in the Drosophila bithorax complex

Sarah K. Bowman et al.

ELIFE (2014)

添加到收藏夹

Article Genetics & Heredity

The Border Between the Ultrabithorax and abdominal-A Regulatory Domains in the Drosophila Bithorax Complex

Welcome Bender et al.

GENETICS (2013)

添加到收藏夹

Article Multidisciplinary Sciences

New Properties of Drosophila scs and scs' Insulators

Olga Kyrchanova et al.

PLOS ONE (2013)

添加到收藏夹

Article Genetics & Heredity

Transcription through enhancers suppresses their activity in Drosophila

Maksim Erokhin et al.

EPIGENETICS & CHROMATIN (2013)

添加到收藏夹

Article Biochemistry & Molecular Biology

Nature and function of insulator protein binding sites in the Drosophila genome

Yuri B. Schwartz et al.

GENOME RESEARCH (2012)

添加到收藏夹

Article Genetics & Heredity

Mechanism of Chromosomal Boundary Action: Roadblock, Sink, or Loop?

Daryl Gohl et al.

GENETICS (2011)

添加到收藏夹

Article Genetics & Heredity

Initiator Elements Function to Determine the Activity State of BX-C Enhancers

Carole Iampietro et al.

PLOS GENETICS (2010)

添加到收藏夹

Article Biochemistry & Molecular Biology

Orientation-dependent interaction between Drosophila insulators is a property of this class of regulatory elements

Olga Kyrchanova et al.

NUCLEIC ACIDS RESEARCH (2008)

添加到收藏夹

Article Genetics & Heredity

CTCF genomic binding sites in Drosophila and the organisation of the bithorax complex

Eimear E. Holohan et al.

PLOS GENETICS (2007)

添加到收藏夹

Review Developmental Biology

The ABC of the BX-C: the bithorax complex explained

RK Maeda et al.

DEVELOPMENT (2006)

添加到收藏夹

Article Biochemistry & Molecular Biology

Studies of the role of the Drosophila scs and scs′ insulators in defining boundaries of a chromosome puff

EJ Kuhn et al.

MOLECULAR AND CELLULAR BIOLOGY (2004)

添加到收藏夹

Article Biochemistry & Molecular Biology

A test of insulator interactions in Drosophila

EJ Kuhn et al.

EMBO JOURNAL (2003)

添加到收藏夹

Article Multidisciplinary Sciences

The functional analysis of insulator interactions in the Drosophila embryo

P Majumder et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

添加到收藏夹

Article Biochemistry & Molecular Biology

Replacement of Fab-7 by the gypsy or scs insulator disrupts long-distance regulatory interactions in the Abd-B gene of the bithorax complex

I Hogga et al.

MOLECULAR CELL (2001)

添加到收藏夹

Article Biochemistry & Molecular Biology

The iab-7 polycomb response element maps to a nucleosome-free region of chromatin and requires both GAGA and pleiohomeotic for silencing activity

RK Mishra et al.

MOLECULAR AND CELLULAR BIOLOGY (2001)

添加到收藏夹

© Peeref 2019-2024. All rights reserved.