Brachypodium: 20 years as a grass biology model system; the way forward?

R Hasterok, P Catalan, SP Hazen, AC Roulin… - Trends in Plant …, 2022 - cell.com
It has been 20 years since Brachypodium distachyon was suggested as a model grass
species, but ongoing research now encompasses the entire genus. Extensive …

In situ genome sequencing resolves DNA sequence and structure in intact biological samples

AC Payne, ZD Chiang, PL Reginato, SM Mangiameli… - Science, 2021 - science.org
INTRODUCTION Genomes are spatially organized across length scales from single base
pairs to whole chromosomes. This organization is thought to regulate gene expression and …

Lipids and chromatin: a tale of intriguing connections shaping genomic landscapes

MLS Ponce, JA Cobb, V Zaremberg - Trends in Cell Biology, 2024 - cell.com
Recent studies in yeast reveal an intricate interplay between nuclear envelope (NE)
architecture and lipid metabolism, and between lipid signaling and both epigenome and …

[HTML][HTML] Principles of 3D chromosome folding and evolutionary genome reshuffling in mammals

L Álvarez-González, C Arias-Sardá, L Montes-Espuña… - Cell reports, 2022 - cell.com
Studying the similarities and differences in genomic interactions between species provides
fertile grounds for determining the evolutionary dynamics underpinning genome function …

Ultrastructure and fractal property of chromosomes in close-to-native yeast nuclei visualized using X-ray laser diffraction

S Uezu, T Yamamoto, M Oide, Y Takayama… - Scientific reports, 2023 - nature.com
Genome compaction and activity in the nucleus depend on spatiotemporal changes in the
organization of chromatins in chromosomes. However, the direct imaging of the …

DNA superhelicity

CJ Benham - Nucleic Acids Research, 2024 - academic.oup.com
Closing each strand of a DNA duplex upon itself fixes its linking number L. This topological
condition couples together the secondary and tertiary structures of the resulting ccDNA …

The Easter Egg Weevil (Pachyrhynchus) genome reveals syntenic patterns in Coleoptera across 200 million years of evolution

MH Van Dam, AA Cabras, JB Henderson… - PLoS …, 2021 - journals.plos.org
Patterns of genomic architecture across insects remain largely undocumented or decoupled
from a broader phylogenetic context. For instance, it is unknown whether translocation rates …

Celebrating Mendel, McClintock, and Darlington: on end-to-end chromosome fusions and nested chromosome fusions

MA Lysak - The Plant Cell, 2022 - academic.oup.com
The evolution of eukaryotic genomes is accompanied by fluctuations in chromosome
number, reflecting cycles of chromosome number increase (polyploidy and centric fissions) …

Exogenous artificial DNA forms chromatin structure with active transcription in yeast

J Zhou, C Zhang, R Wei, M Han, S Wang… - Science China Life …, 2021 - Springer
Yeast artificial chromosomes (YACs) are important tools for sequencing, gene cloning, and
transferring large quantities of genetic information. However, the structure and activity of …

Inter-chromosomal contacts demarcate genome topology along a spatial gradient

M Mokhtaridoost, JJ Chalmers, M Soleimanpoor… - Nature …, 2024 - nature.com
Non-homologous chromosomal contacts (NHCCs) between different chromosomes
participate considerably in gene and genome regulation. Due to analytical challenges …