Chromatin accessibility profiling methods

L Minnoye, GK Marinov, T Krausgruber, L Pan… - Nature Reviews …, 2021 - nature.com
Chromatin accessibility, or the physical access to chromatinized DNA, is a widely studied
characteristic of the eukaryotic genome. As active regulatory DNA elements are generally …

Molecular mechanisms of adaptive evolution in wild animals and plants

Y Hu, X Wang, Y Xu, H Yang, Z Tong, R Tian… - Science China Life …, 2023 - Springer
Wild animals and plants have developed a variety of adaptive traits driven by adaptive
evolution, an important strategy for species survival and persistence. Uncovering the …

Humanized yeast to model human biology, disease and evolution

AH Kachroo, M Vandeloo, BM Greco… - Disease models & …, 2022 - journals.biologists.com
For decades, budding yeast, a single-cellular eukaryote, has provided remarkable insights
into human biology. Yeast and humans share several thousand genes despite …

A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence

M Ivanković, JN Brand, L Pandolfini, T Brown… - Nature …, 2024 - nature.com
The planarian Schmidtea mediterranea is being studied as a model species for
regeneration, but the assembly of planarian genomes remains challenging. Here, we report …

High level of novelty under the hood of convergent evolution

SM Van Belleghem, AA Ruggieri, C Concha, L Livraghi… - Science, 2023 - science.org
Little is known about the extent to which species use homologous regulatory architectures to
achieve phenotypic convergence. By characterizing chromatin accessibility and gene …

Pan-mammalian analysis of molecular constraints underlying extended lifespan

A Kowalczyk, R Partha, NL Clark, M Chikina - Elife, 2020 - elifesciences.org
Although lifespan in mammals varies over 100-fold, the precise evolutionary mechanisms
underlying variation in longevity remain unknown. Species-specific genetic changes have …

Large-scale snake genome analyses provide insights into vertebrate development

C Peng, DD Wu, JL Ren, ZL Peng, Z Ma, W Wu, Y Lv… - Cell, 2023 - cell.com
Snakes are a remarkable squamate lineage with unique morphological adaptations,
especially those related to the evolution of vertebrate skeletons, organs, and sensory …

Integration of multi-omics data reveals cis-regulatory variants that are associated with phenotypic differentiation of eastern from western pigs

Y Liu, Y Fu, Y Yang, G Yi, J Lian, B Xie, Y Yao… - Genetics Selection …, 2022 - Springer
Background The genetic mechanisms that underlie phenotypic differentiation in breeding
animals have important implications in evolutionary biology and agriculture. However, the …

Parthenogenetic stick insects exhibit signatures of preservation in the molecular architecture of male reproduction

G Forni, B Mantovani, AS Mikheyev… - Genome Biology and …, 2024 - academic.oup.com
After the loss of a trait, theory predicts that the molecular machinery underlying its
phenotypic expression should decay. Yet, empirical evidence is contrasting. Here, we test …

Phylogenetic tracing of midbrain-specific regulatory sequences suggests single origin of eubilaterian brains

HC Schuster, F Hirth - Science Advances, 2023 - science.org
Conserved cis-regulatory elements (CREs) control Engrailed-, Pax2-, and dachshund-
related gene expression networks directing the formation and function of corresponding …