Guillaume Sallé

Local adaptation shapes community composition without affecting performance Eco-evolutionary theory predicts that local adaptation should influence community assembly and performance, yet empirical tests of these predictions remain limited, particularly at microgeographic sca...

New preprint dropped:
www.biorxiv.org/content/10.1...
by PhD student Swapna Subramanian. Wild yeasts on apple orchards in CT exhibit local adaptation (and sometimes maladaptation) to their particular orchard & apple variety. The dominant yeast's adaptation affects community composition

It's finally out! This paper took quite a while but I'm so excited to share now! For anyone who studies sex chromosomes, take note: we found a rare "slower X"! (dN/dS_X < dN/dS_Autos) 👀

Learning the language of viral evolution and escape Language models of influenza hemagglutinin, HIV Env, and SARS-CoV-2 spike viral protein sequences can accurately predict viral escape patterns.

Learning the language of viral evolution and escape www.science.org/doi/10.1126/...

Density-dependent network structuring within and across wild animal systems High population density should drive individuals to more frequently share space and interact, producing better-connected spatial and social networks. Despite this widely-held assumption, it remains un...

www.biorxiv.org/content/10.1...

Leveraging Massive Opportunistically Collected Datasets to Study Species Communities in Space and Time We present a spatiotemporal joint species distribution model to analyse large-scale opportunistically collected biodiversity data. Our model addresses variable detection probabilities across visits a...

onlinelibrary.wiley.com/doi/full/10....

Learning the fitness dynamics of pathogens from phylogenies - Nature Phylowave, an innovative phylogenetic approach, can identify the main circulating pathogen lineages with increased fitness and the associated genetic changes, enabling the timely identification of eme...

www.nature.com/articles/s41...

Fine-scale patterns of SARS-CoV-2 spread from identical pathogen sequences - Nature The analysis of pairs of identical SARS-CoV-2 genome sequences enables characterization of transmission patterns between geographies and age groups.

Pathogen genomes can provide insights into underlying disease transmission patterns but new methods are needed to analyze large genome datasets. Our work using identical pathogen sequences to characterize fine scale SARS-CoV-2 transmission was just published in @nature.com tinyurl.com/bdzk9xjj 🥳

Our review on k-mers + pop gen is now published!

doi.org/10.1093/molb...

Experimental evolution of evolvability Evolvability—the capacity to generate adaptive variation—is a trait that can itself evolve through natural selection. However, the idea that mutation can become biased toward adaptive outcomes remains...

Experimental evolution of evolvability | Science www.science.org/doi/10.1126/...

Synthesizing environmental, epidemiological and vector and parasite genetic data to assist decision making for disease elimination We present a framework for identifying when conditions are favourable for transmission of vector-borne diseases between communities by incorporating predicted disease prevalence mapping with landscap....

doi.org/10.1111/mec....

How about parasitology ?

Reconciling Variability in Multiple Stressor Effects Using Environmental Performance Curves Our experiments with 12 bacterial taxa, demonstrate that additional stressors significantly alter the shape of temperature, pH and salinity performance curves. This in turn leads to changes in emerge...

All about context
onlinelibrary.wiley.com/doi/full/10....

This is figure 4, which shows collateral sensitivity and cross-resistance interactions between and within antibiotic classes.

Resistance to one antibiotic can make bacteria resistant or sensitive to another antibiotic, opening paths for combinatorial treatments. A study in Nature Microbiology presents an approach to systematically discover and understand such antibiotic relationships. https://go.nature.com/49of3Mk 🧪

Gene network topology drives the mutational landscape of gene expression https://www.biorxiv.org/content/10.1101/2024.11.28.625874v1 Regulatory mutations, coding sequence alterations, and gene deletions and duplications are generally

Gene network topology drives the mutational landscape of gene expression https://www.biorxiv.org/content/10.1101/2024.11.28.625874v1

Genetic Independence of Naturally Correlated Variation in Resistance to Endemic and Novel Pathogens The emergence of new diseases as an urgent concern, but the potential for wild hosts to evolve resistance to novel pathogens is a neglected issue. We find that populations of Silene vulgaris are poly...

onlinelibrary.wiley.com/doi/full/10....

An Early‐Life Disruption of Gut Microbiota Has Opposing Effects on Parasite Resistance in Two Host Species Gut microbiota regulate multiple aspects of host health, including metabolism and the development of the immune system. However, we still know relatively little about how the gut microbiota influence...

onlinelibrary.wiley.com/doi/full/10....

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Relationships between host age and parasite infection prevalence can provide evidence for interactions between different parasite species within a host Daniel L. Preston, Landon P. Falke, Mark Novak This is a plain language summary of a Functional Ecology research article which can be found here. Parasitism is an extremely common animal lifestyle,…

📰Published📰 Relationships between host age and parasite infection prevalence can provide evidence for interactions between different parasite species within a host

https://buff.ly/4eHyoZZ

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