Evolution and Genetic Dynamics

System drift in the evolution of plant meristem development

The paper investigates developmental system drift in plant meristem development using computational models and genomic data, finding frequent regulatory changes without corresponding gene expression shifts.

The fate of mutations on Y chromosomes andautosomes: a unified Wright-Fisher frameworkaccounting for segregation time

This study develops a unified Wright-Fisher model to analyze mutation fate on Y chromosomes and autosomes, showing overdominant mutations are more likely to fix on Y chromosomes due to segregation time effects.

The risk of sexual reproduction promotes the evolution of regulation between host and symbionts

This study shows that biparental inheritance of endosymbionts during host-symbiont co-evolution leads to evolutionary conflict, which can be resolved through host regulation mechanisms, and that sexual reproduction may have emerged early in eukaryogenesis.

Complex patterns of hitchhiking mutation load among stickleback populations

The paper estimates mutation load in stickleback populations and finds complex hitchhiking patterns with no overall accumulation of deleterious alleles.

A key regulator of missing-self innate immunity is polymorphic and under diversifying selection

The study investigates diversifying selection on the missing-self regulator CFH in bank voles, finding evidence of positive selection in its Borrelia-interacting domain and coevolution with pathogens.

Equivalent fitness increase achieved by active learning-navigated habitat reconstruction and evolution-induced genome mutation

This study shows that habitat reconstruction and genome mutation can equally increase bacterial fitness through experimental evolution and active learning.

Pleiotropy and facilitation of local adaptation in the silverleaf sunflower Helianthus argophyllus

This study examines how pleiotropy and local adaptation interact in Helianthus argophyllus by analyzing transcriptomic data and identifying gene expression patterns associated with environmental adaptation.

Segmental copy number amplifications are more stable than aneuploidies in the absence of selection

This study shows segmental copy number amplifications are more stable than aneuploidies when selection pressure is removed, with aneuploidies reverting quickly and losing fitness.

Evolution uncovers a general tradeoff between recovery after heat shock and growth at elevated temperatures

This study shows a tradeoff between heat shock recovery and growth at elevated temperatures in Methylobacterium strains.

An abstract model of nonrandom, non-Lamarckian mutation in evolution using a multivariate estimation-of-distribution algorithm

The paper presents a simulation model demonstrating nonrandom, non-Lamarckian mutation in evolution using an estimation-of-distribution algorithm, highlighting the role of internal genomic information integration.

Unilateral cross-feeding constrains adaptive evolution, even in the producer without direct fitness effects.

This study shows that unilateral cross-feeding interactions constrain adaptive evolution in both producer and consumer microbes, even when the producer experiences no direct fitness effects.

Non-ergodicity in ecology and evolution

The paper investigates non-ergodicity in ecological and evolutionary dynamics through case studies, showing how stochasticity affects population growth, genotype fitness, and cooperation evolution.

The impact of background selection in mutation-selection-drift balance models of complex trait evolution

This paper investigates how background selection affects complex trait evolution under different phenotypic selection models, showing that genetic variance changes depend on the relationship between phenotype and fitness.

Rare Jackpot Individuals Drive Rapid Adaptation in Threespine Stickleback

The paper shows that a few individuals with large haploblocks of adaptive alleles drove rapid freshwater adaptation in Threespine Stickleback, with inbreeding reducing genetic load.

A shift between r and K strategies in the life cycle of a unicellular microalga

This study shows that the microalga Haematococcus lacustris uses both r and K reproductive strategies throughout its life cycle, challenging the idea that species only use one strategy.

Impacts of genome architecture on the repeatability of polygenic adaptation

This study shows that genome architecture and gene-gene interactions influence the repeatability of polygenic adaptation in two copepod species with different chromosome numbers.

Not just mutations: Inbreeding depression persists without genetic variation

This study shows inbreeding depression persists even without genetic variation, suggesting epigenetic factors may contribute to its persistence.

WINDEX: A hierarchical integration of site- and window-based statistics for characterizing the footprint of positive selection in genome-wide population genetic data

WINDEX improves detection of positive selective sweeps by integrating site- and window-based statistics in population genetic data, showing improved localization and genome-wide estimates of selective pressures.

Genetic variation of the effects of spontaneous mutation on size at birth

The paper investigates how spontaneous mutations affect size at birth in Daphnia pulex, finding that mutation effects vary by genetic background and can increase or decrease size.

Evolution of the rate, spectrum, and fitness effects of mutation under minimal selection in Caenorhabditis elegans

This study tracks mutation rates and fitness effects in C. elegans under minimal selection, finding increased indel mutation rates and no change in nucleotide substitution rates.

AEGIS: individual-based modeling of life history evolution

AEGIS models life history trait evolution using individual-based simulations to test ecological and demographic factors' impacts on traits like reproduction and lifespan.

Convergent targeting of conserved regulatory networks during thermal evolution across Saccharomyces

This study shows that thermal adaptation across yeast species involves convergent changes in conserved regulatory networks, despite divergent phenotypic outcomes.

Beneficial microbes may have favoured the evolution of adaptive immunity

This study uses simulations to show that beneficial microbes, rather than parasites, drive the evolution and maintenance of adaptive immunity by reducing selection pressure on innate immunity.

Evolution of virulence of a plant RNA virus in age-diverse host populations

This study evolves a plant RNA virus in age-diverse host populations and finds that host age structure drives virulence evolution by shaping disease progression, severity, and viral load.

Serotype swapping in Klebsiella spp. by plug-and-play

The paper shows capsule exchange in Klebsiella pneumoniae has minimal fitness costs and preserves virulence traits across genetic backgrounds, suggesting plug-and-play dynamics in capsule loci.

Biodiversity dynamics with complex genotype-to-phenotype architecture in multilayer networks

This study investigates how genotype-to-phenotype architecture influences biodiversity dynamics in multilayer networks, showing that correlated and modular architectures affect diversity under different ecological conditions.

A model for background selection in non-equilibrium populations

This paper develops a model for background selection in non-equilibrium populations, improving accuracy across parameter space and accommodating changing population sizes.

Using a simplified Rough Mount Fuji model to disentangle how multi-peaked fitness landscapes can be highly navigable

The paper uses a simplified Rough Mount Fuji model to show that adaptive walks on multi-peaked fitness landscapes can reach high-ranking peaks due to specific landscape features.

Natural selection driven by escape from shifting antibody classes shapes SARS-CoV-2 evolution

This study traces how natural selection on SARS-CoV-2 has shifted during the pandemic, favoring antibody escape and ACE2 binding, with dynamic pressures across antibody classes.

A history of symbiosis impacts the host evolutionary trajectory in experimentally evolved amoebas

The paper shows that the history of symbiosis affects the evolutionary trajectory of hosts even after symbionts are removed in experimentally evolved amoebas.