Trevor Cousins

Not Just Ne Ne-More: New Applications for SMC from Ecology to Phylogenies Abstract. Genomes contain the mutational footprint of an organism’s evolutionary history, shaped by diverse forces including ecological factors, selective

In a new GBE Review, @david-peede.bsky.social et al. overview the SMC model and extensions, discuss examples of discoveries made with the help of SMC-based inference, and comment on the assumptions, benefits, and drawbacks of various methods.

🔗 doi.org/10.1093/gbe/...

#genome #evolution #compbio

*colleagues: Arun Durvasula , Anastasia Ignatieva, Toby G L Kovacs, Alba Nieto, Emily E Puckett, Elizabeth T Chevy

We hope it will be useful for anyone interested in probabilistic inference of demographic history (e.g. population size changes, gene-flow/migration/structure, multi-species coalescent, ARGs...but also ecological life history traits such as selfing and dormancy)

Not Just Ne Ne-More: New Applications for SMC from Ecology to Phylogenies Abstract. Genomes contain the mutational footprint of an organism’s evolutionary history, shaped by diverse forces including ecological factors, selective

Davide Peede & colleagues* (with input from me) have written a review paper on applications of the SMC model academic.oup.com/gbe/article/...

We discuss what is the SMC approximation and why it is important, and then discuss many methods that use its machinery to infer various aspects of biology.

A structured coalescent model reveals deep ancestral structure shared by all modern humans - Nature Genetics The cobraa model extends the pairwise sequentially Markovian coalescent to identify structured population history by examination of the model transition matrix. Applied to human polymorphism data, cob...

Our paper on ancient human population structure is now published. We find that the ancestors of modern humans lived in multiple populations during the period when Homo sapiens evolved in Africa. www.nature.com/articles/s41...