development & morphogenesis

A hierarchical Bayesian model for dynamic phenotypes in multi-environment trials with genotype by environment interaction

The paper develops a hierarchical Bayesian model to analyze dynamic phenotypes in multi-environment trials, quantifying genotype, environment, and G x E effects on growth parameters.

Evolutionary dynamics of the pan-centromere architecture in oaks

The paper analyzes centromere evolution in oaks, showing lineage-specific expansion of QuCEN146 satellite drives turnover, while LTR-rich centromeres show low polymorphism due to suppressed recombination.

Starve, stress, and mate: Activation of the CCAAT-Binding complex overrides sterility of mating-type heterozygous Candida albicans

The paper identifies the CCAAT-binding complex (CBC) as a key regulator that overrides genetic sterility in Candida albicans by integrating environmental stress signals to enable mating.

Multi-scale biophysical modeling of fungal colony growth

This paper develops a multiscale model of fungal colony growth combining discrete hyphal mechanics with a stochastic traveling-wave surrogate to simulate growth efficiently and reveal macroscopic patterns.

Growing a Root from Its Genome : Emergent Tissue Layers and Zones in a GPU-Native Simulation of the Arabidopsis Root Tip

This paper simulates Arabidopsis root tip development from a genome, showing emergent cell identities and zones without pre-defined structures, but with limitations in niche maintenance and regeneration.

Invasion analysis for structured populations: analytical principles and numerical workflows

The paper develops a framework for analyzing invasion in structured populations using analytical and numerical methods to determine invasion success across different ecological scenarios.

Regenerative epithelial spike cells instruct immune niche homeostasis in zebrafish fin epidermis

The paper identifies a novel epithelial cell type in zebrafish fins, spike cells, and shows their role in maintaining immune cell niche homeostasis through interactions with mpeg1+ immune cells.

Compositional computations in the primate frontal cortex

The paper investigates how neural circuits in the primate frontal cortex support compositional generalization by separating computations into spatial and temporal components and identifying biases when these components are misaligned.

Infant Sensory Over-Responsivity: Relations to Early Life Adversity, Emerging Behavioral Problems, and Sensory Functional Connectivity

This study identifies prenatal adversity and neonatal brain connectivity as predictors of infant sensory over-responsivity, which links to later behavioral problems.

Genome-wide chromatin accessibility during early embryogenesis in a generalist cichlid fish

This study maps genome-wide chromatin accessibility in A. calliptera embryos across three stages, revealing dynamic changes in regulatory elements and transcription factor activity during early development.

Sexual interactions and local selection shape reproductive gene diversity and divergence

The paper identifies genes under co-evolutionary selection in Drosophila melanogaster by analyzing nucleotide diversity and divergence patterns, finding links to sperm competition and mating behaviors.

A subtype-specific gene regulatory program controls differential circuit integration of deep CA3 pyramidal neurons

The paper identifies ST18 as a regulator of deep CA3 pyramidal neuron identity, showing its role in restricting a superficial-like program and shaping circuit integration through molecular and electrophysiological changes.

Parallel and lineage-dependent mitonuclear evolution in threespine stickleback

This study examines parallel evolution of nuclear OXPHOS genes in threespine stickleback across freshwater populations and identifies mitonuclear evolutionary coupling in specific functional modules.

Basal ganglia output guides decision-making by state destabilization

The paper shows that basal ganglia output in zebrafish destabilizes neural activity states to guide decision-making in a Go/No-go task.

Calves function as social magnets in a species with high fission-fusion dynamics, the Asian elephant

The study finds that calf presence in Asian elephant groups increases group size and social associations, suggesting calves promote sociality through collective defense and allomaternal care.

Gene expression in Anolis sagrei suggests conservation of patterning mechanisms drives formation of two high acuity areas

The paper identifies conserved gene expression patterns in the retina of Anolis sagrei that suggest shared developmental mechanisms for forming multiple high acuity areas.

Biological Signaling Pathways Associated with Late Tendon Development in Chicken Embryos and Their Dependence on Mechanical Stimulation

This study identifies mechanotransduction pathways involved in chicken tendon development and shows how paralysis disrupts these processes.

Metabolic complexity in the human brain supports metastable network dynamics and declines in normative ageing

This study investigates metabolic complexity in the human brain using PET and fMRI, finding that metabolic entropy correlates with network metastability and declines with age.

Strategy-dependent causal relationships between large-scale cortical activity and perceptual decisions

The paper investigates how different decision-making strategies in mice affect cortical activity and identifies frontal cortex involvement in engaged strategies.

Cortical bursts provide spatio-temporal frames for the large-scale phase synchrony emerging across the birth transition

The paper examines how cortical bursts influence phase synchrony development in preterm infants and links persistent phase-based connectivity to poorer neurocognitive outcomes.

Quantifying direct and indirect maternal effects on male vervets rank post-dispersal

This study examines how maternal characteristics affect male vervet monkeys' rank post-dispersal and finds limited long-term effects, with social behavior mediating some relationships.

The small ORF (smORF)-encoded polypeptide MIRINE promotes neuronal differentiation in vertebrate brain development

The paper identifies MIRINE, a small ORF-encoded polypeptide that promotes neuronal differentiation in vertebrate brain development by regulating the balance between proliferation and maturation.

Regionalisation of muscle nucleus heterogeneity in foetal skeletal muscle

The paper identifies transcriptionally distinct muscle nuclei in fetal chicken limb muscles, showing tip and central domain identities and signaling roles in muscle development.

A nematic framework for sprouting angiogenesis

This study uses a nematic framework to show that endothelial cell orientation gradients drive angiogenic sprouting, with implications for therapeutic strategies.

Cytoplasmic recapping commences the translation of a micropeptide, MARS from MALAT1 after the removal of an inhibitory RNA G-quadruplex

This study shows that cytoplasmic recapping of MALAT1 produces the micropeptide MARS, which is regulated by RNA G-quadruplex structures and involved in oxidative stress response.

Convergent genome evolution reveals shared routes to salt tolerance in flowering plants

The paper identifies convergent genomic signatures of salt tolerance in flowering plants by analyzing gene expression and evolutionary patterns across multiple species.

Genome reorganisation and expansion shape 3D genome architecture and define a distinct regulatory landscape in coleoid cephalopods

The paper investigates how genomic changes in coleoid cephalopods shape 3D genome architecture and regulatory landscapes, revealing species-specific chromatin loops and their role in neural development.

Genomic signatures of coevolving phage-bacteria interaction networks

This study investigates how coevolution between phages and bacteria affects interaction networks by analyzing genetic changes in both hosts and phages.

RAP2.3 is required for MYB51 and SIGMA3 expression during the response of Arabidopsis thaliana to multifactorial stress combination

This study identifies RAP2.3 as essential for MYB51 and SIGMA3 expression during Arabidopsis thaliana's response to multifactorial stress combinations, revealing a regulatory pathway critical for survival under combined stress conditions.

Maternal repression of imprinted genes in endosperm by gene body demethylation

The paper shows that maternal removal of gene body methylation drives imprinting of PEGs in maize, with implications for gene regulation in rice but not Arabidopsis.