Insects evolved a monomeric histone-fold domain in the CENP-T protein family DOI Creative Commons
Sundar Ram Sankaranarayanan, Jonathan Ulmer, Anders I. Mørch

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 15, 2024

Abstract The histone fold domain (HFD) is a conserved protein interaction module that requires stabilization through handshake with an HFD partner. All proteins known to date form obligate dimers shield the extensive hydrophobic residues along HFD. Here, we find lepidopteran kinetochore CENP-T soluble as monomer. We attribute this stability structural rearrangement, which leads repositioning of helix α3. This brings two-helical extension closer fold, where it takes over position and function partner CENP-W. change has no effect on DNA binding ability CENP-T. Our analysis suggests monomeric originated in last common ancestor insects, possible second independent origin acariformes, both lack study highlights unexpected variation optimized providing unique perspective evolution structure forces driving it.

Language: Английский

Histones and histone variant families in prokaryotes DOI Creative Commons
Samuel Schwab, Yimin Hu,

Bert van Erp

et al.

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: Sept. 11, 2024

Language: Английский

Citations

6
A review of the human microRNA and the Mycobacterium tuberculosis epigenetic effects on the emergence drug resistance DOI

Yashna Sukdeo,

Nozibusiso Pearl Shozi,

Nonsikelelo Ndimande

et al.

Life Sciences, Journal Year: 2025, Volume and Issue: unknown, P. 123637 - 123637

Published: April 1, 2025

Language: Английский

Citations

0
Novel histones and histone variant families in prokaryotes DOI Creative Commons
Samuel Schwab, Yimin Hu,

Bert van Erp

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: June 3, 2023

Abstract Histones are important chromatin-organizing proteins in eukaryotes and archaea. They form superhelical structures around which DNA is wrapped. Recent studies have shown that some archaea bacteria contain alternative histones exhibit different binding properties, addition to highly divergent sequences. However, the vast majority of these new identified metagenomes thus difficult study vivo . The recent revolutionary breakthroughs computational protein structure prediction by AlphaFold2 RoseTTAfold allow for unprecedented insights into potential function previously uncharacterized proteins. Here, we categorize prokaryotic histone space 17 distinct groups based on predictions. We identify a superfamily histones, termed α 3 common present several bacteria. Importantly, establish existence large family throughout bacteriophages that, instead wrapping DNA, bridge thereby diverging from conventional nucleosomal histones.

Language: Английский

Citations

5
Chromatin and gene regulation in archaea DOI Creative Commons
Fabian Blombach, Finn Werner

Molecular Microbiology, Journal Year: 2024, Volume and Issue: unknown

Published: Aug. 3, 2024

Abstract The chromatinisation of DNA by nucleoid‐associated proteins (NAPs) in archaea ‘formats’ the genome structure profound ways, revealing both striking differences and analogies to eukaryotic chromatin. However, extent which archaeal NAPs actively regulate gene expression remains poorly understood. dawn quantitative chromatin mapping techniques first NAP‐specific occupancy profiles different promise a more accurate view. A picture emerges where diverse with very NAP repertoires maintains access regulatory motifs including promoter independently transcription activity. Our re‐analysis genome‐wide data crenarchaeal Cren7 shows that these chromatin‐free regions are flanked increased binding across start site. While bacterial often form heterochromatin‐like islands xenogeneic genes transcriptionally silenced, there is little evidence for similar structures from Haloferax show promoters remain accessible. Local changes causing wide‐ranging effects on restricted one chromosomal interaction domain (CID) Saccharolobus islandicus hint at higher‐order level organisation between transcription. emerging challenge integrate results obtained microscale macroscale, reconciling molecular function dynamic landscapes.

Language: Английский

Citations

1
Adenine DNA methylation associated to transcription is widespread across eukaryotes DOI Creative Commons
Pedro Romero Charria,

Cristina Navarrete,

Vladimir Ovchinnikov

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 28, 2024

Abstract DNA methylation in the form of 5-methylcytosine (5mC) is widespread eukaryotes, while presence N6-methyladenine (6mA) has sparked considerable debate. Methodological disparities quantifying and mapping 6mA genomic have fueled this controversy. Yet, distantly related early branching fungi, ciliates algae Chlamydomonas reinhardtii exhibit robust patterns, but origin evolution remain unknown. Here we use Oxford Nanopore modified base calling to profile at pair resolution 18 unicellular eukaryotes spanning all major eukaryotic supergroups. Our results reveal that only species encoding adenine methyltransferase AMT1 display patterns. Notably, consistently accumulates downstream transcriptional start sites, aligning with H3K4me3-enriched nucleosomes, suggesting a conserved role placing transcriptionally permissive nucleosomes. Intriguingly, recurrent loss pathway across particularly multicellular lineages, implies convergent alteration dual system Last Eukaryotic Common Ancestor, which featured transcription-associated repression-associated 5mC.

Language: Английский

Citations

1
Insects evolved a monomeric histone-fold domain in the CENP-T protein family DOI Creative Commons
Sundar Ram Sankaranarayanan, Jonathan Ulmer, Anders I. Mørch

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 15, 2024

Abstract The histone fold domain (HFD) is a conserved protein interaction module that requires stabilization through handshake with an HFD partner. All proteins known to date form obligate dimers shield the extensive hydrophobic residues along HFD. Here, we find lepidopteran kinetochore CENP-T soluble as monomer. We attribute this stability structural rearrangement, which leads repositioning of helix α3. This brings two-helical extension closer fold, where it takes over position and function partner CENP-W. change has no effect on DNA binding ability CENP-T. Our analysis suggests monomeric originated in last common ancestor insects, possible second independent origin acariformes, both lack study highlights unexpected variation optimized providing unique perspective evolution structure forces driving it.

Language: Английский

Citations

0