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A phylogenetic and proteomic reconstruction of eukaryotic chromatin evolution
Histones and associated chromatin proteins have essential functions in eukaryotic genome organization and regulation. Despite this fundamental role...
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Archaeal histone-based chromatin structures regulate transcription elongation rates
Many archaea encode and express histone proteins to compact their genomes. Archaeal and eukaryotic histones share a near-identical fold that permits...
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Chromatin Modifications in DNA Repair
A requirement of nuclear processes that use DNA as a substrate is the manipulation of chromatin in which the DNA is packaged. Chromatin...
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Self-assembling viral histones are evolutionary intermediates between archaeal and eukaryotic nucleosomes
Nucleosomes are DNA–protein complexes composed of histone proteins that form the basis of eukaryotic chromatin. The nucleosome was a key innovation...
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The Roles of Chromatin Remodelling Factors in Replication
Dynamic changes of chromatin structure control DNA-dependent events, including DNA replication. Along with DNA, chromatin organization must be...
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SWI/SNF Chromatin Remodelers: Structural, Functional and Mechanistic Implications
The nuclear events of a eukaryotic cell, such as replication, transcription, recombination and repair etc. require the transition of the compactly...
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Clique-Based Topological Characterization of Chromatin Interaction Hubs
Chromatin conformation capture technologies are a vital source of information about the spatial organization of chromatin in eukaryotic cells. Of...
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Structure and Function of Protein Modules in Chromatin Biology
Chromatin-mediated gene transcription or silencing is a dynamic process in which binding of various proteins or protein complexes can displace...
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Determination of the Chromatin Openness in Bacterial Genomes
The hyperactive Tn5 transposase in the ATAC-seq method has been widely used to determine the open DNA regions and understand the overall epigenomic...
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Eukaryotic-driven directed evolution of Cas9 nucleases
BackgroundFurther advancement of genome editing highly depends on the development of tools with higher compatibility with eukaryotes. A multitude of...
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Asgard ESCRT-III and VPS4 reveal conserved chromatin binding properties of the ESCRT machinery
The archaeal Asgard superphylum currently stands as the most promising prokaryotic candidate, from which eukaryotic cells emerged. This unique...
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The Role of CTCF-Mediated Chromatin Loo** in Enhancer-Promoter Communication
In vertebrates, gene transcription is performed by generic eukaryotic molecular machinery under influence of sequence-specific DNA-binding...
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Rapid Single-Pot Assembly of Modular Chromatin Proteins for Epigenetic Engineering
Chromatin is the nucleoprotein complex that organizes genomic DNA in the nuclei of eukaryotic cells. Chromatin-modifying enzymes and...
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Origins and Functional Significance of Eukaryotic Protein Folds
Folds are the architecture and topology of a protein domain. Categories of folds are very few compared to the astronomical number of sequences....
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Chromatin organization and behavior in HRAS-transformed mouse fibroblasts
In higher eukaryotic cells, a string of nucleosomes, where long genomic DNA is wrapped around core histones, are rather irregularly folded into a...
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Genome-Wide Identification of Open Chromatin in Plants Using MH-Seq
Functional cis-regulatory elements (CREs) act as precise transcriptional switches for fine-tuning gene transcription. Identification of CREs is...
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Exploration and Visualization Methods for Chromatin Interaction Data
The novelty and sophistication of biological data present numerous challenges for data analysis. Among these challenges is the basic issue of how to...
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Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation
Eukaryotic gene regulation occurs at the chromatin level, which requires changing the chromatin structure by a group of ATP-dependent DNA...
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Genome-wide chromatin interaction map for Trypanosoma cruzi
Trypanosomes are eukaryotic, unicellular parasites, such as Trypanosoma brucei , which causes slee** sickness, and Trypanosoma cruzi , which causes...
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Domain Model of Eukaryotic Genome Organization: From DNA Loops Fixed on the Nuclear Matrix to TADs
AbstractThe article reviews the development of ideas on the domain organization of eukaryotic genome, with special attention on the studies of DNA...
