Extending approximate Bayesian computation with supervised machine learning to infer demographic history from genetic polymorphisms using DIYABC Random …

F Collin, G Durif, L Raynal, E Lombaert… - Molecular Ecology …, 2021 - Wiley Online Library
Simulation‐based methods such as approximate Bayesian computation (ABC) are well‐
adapted to the analysis of complex scenarios of populations and species genetic history. In …

Towards a genetic theory of island biogeography: Inferring processes from multidimensional community‐scale data

I Overcast, G Achaz, R Aguilée… - Global Ecology and …, 2023 - Wiley Online Library
Abstract Background MacArthur and Wilson's theory of island biogeography has been a
foundation for obtaining testable predictions from models of community assembly and for …

Process-based species delimitation leads to identification of more biologically relevant species

ML Smith, BC Carstens - Evolution, 2020 - academic.oup.com
Most approaches to species delimitation to date have considered divergence-only models.
Although these models are appropriate for allopatric speciation, their failure to incorporate …

A demonstration of unsupervised machine learning in species delimitation

S Derkarabetian, S Castillo, PK Koo… - Molecular phylogenetics …, 2019 - Elsevier
One major challenge to delimiting species with genetic data is successfully differentiating
population structure from species-level divergence, an issue exacerbated in taxa inhabiting …

Vanishing refuge? Testing the forest refuge hypothesis in coastal East Africa using genome‐wide sequence data for seven amphibians

CD Barratt, BA Bwong, R Jehle, HC Liedtke… - Molecular …, 2018 - Wiley Online Library
High‐throughput sequencing data have greatly improved our ability to understand the
processes that contribute to current biodiversity patterns. The “vanishing refuge” …

[HTML][HTML] Data-driven interpretable analysis for polysaccharide yield prediction

Y Tian, X Yang, N Chen, C Li, W Yang - Environmental Science and …, 2024 - Elsevier
Cornstalks show promise as a raw material for polysaccharide production through xylanase.
Rapid and accurate prediction of polysaccharide yield can facilitate process optimization …

Discovery of Ongoing Selective Sweeps within Anopheles Mosquito Populations Using Deep Learning

AT Xue, DR Schrider, AD Kern - Molecular biology and evolution, 2021 - academic.oup.com
Identification of partial sweeps, which include both hard and soft sweeps that have not
currently reached fixation, provides crucial information about ongoing evolutionary …

Genomic data from the Brazilian sibilator frog reveal contrasting pleistocene dynamics and regionalism in two South American dry biomes

MTC Thomé, BC Carstens, MT Rodrigues… - Journal of …, 2021 - Wiley Online Library
Abstract Aim Knowledge about the Neotropical dry formations, particularly the Caatinga,
remains rudimentary compared to other biotas in the region. Here we address several …

Evidence for niche conservatism in alpine beetles under a climate‐driven species pump model

J Schat, YM Weng, RY Dudko… - Journal of …, 2022 - Wiley Online Library
Aim Past glacial cycles have generated lineage diversity in alpine habitats, acting as a
climate‐driven species pump. It is not clear how much this process contributes to ecological …

Phylogeographic model selection using convolutional neural networks

EM Fonseca, GR Colli, FP Werneck… - Molecular Ecology …, 2021 - Wiley Online Library
The discipline of phylogeography has evolved rapidly in terms of the analytical toolkit used
to analyse large genomic data sets. Despite substantial advances, analytical tools that could …