Ana Serra Silva
anaserrasilva.bsky.social
Ana Serra Silva
@anaserrasilva.bsky.social
Phylogeneticist and evolutionary biologist. Research fellow at UCL Biosciences | Communications Officer for @systassn.bsky.social
I'll be back when further articles come live.

Once more, I have no affiliation to the @evojlinnsoc.bsky.social, just doing some of the editors a favour.
November 11, 2025 at 1:51 PM
And last (for now), Tiley, Liu and Solis-Lemus showing that, using quartet concordance factors as input, it is possible to correctly identify the position of 4-node hybridisation cycles in semi-directed phylogenetic networks.

(7/n)

doi.org/10.1093/evol...
Validate User
doi.org
November 11, 2025 at 1:51 PM
Followed by Zhu and @hoehna.bsky.social describing and testing two methods for two-step species-tree inference in RevBayes that combine the best of joint-estimate approaches (statistical rigour of full-likelihood) and summary methods (efficiency).

(6/n)

doi.org/10.1093/evol...
doi.org
November 11, 2025 at 1:51 PM
To complete the articles available so far, we have @lkubatko.bsky.social, @sungsik.bsky.social, Webb and Chen describing a new pseudolikelihood approach to species-tree inference that can accommodate SNP data and site-rate variation.

(5/n)

doi.org/10.1093/evol...
The promise of composite likelihood for species-level phylogenomic inference
Abstract. Species-level phylogenetic inference under the multispecies coalescent model remains challenging in the typical infe- rence frameworks (e.g., the
doi.org
November 11, 2025 at 1:51 PM
Normal, you say?
November 7, 2025 at 5:14 PM
And, Theo Tricou, @bastien-boussau.bsky.social and colleagues illustrate how (in the absence of gene duplication/loss) reconciliation methods can identify horizontal gene transfer events from ghost species (these are species with no sampled descendants).

(4/n)

doi.org/10.1093/evol...
Gene flow can reveal ghost lineages
Abstract. Ghost species, encompassing extinct, unknown, and unsampled taxa, vastly outnumber those typically included in phylogenetic analyses. This hidden
doi.org
October 16, 2025 at 8:37 AM
Up next, Bruce Rannala reviewing how recombination is treated (or not!) by, and what biases are introduced to, multiple tree inference strategies and how ancestral recombination graphs might eliminate these biases.

TLDR - Concatenation BAD if recombination present.

(3/n)

doi.org/10.1093/evol...
Recombination and phylogenetic inference
Abstract. I explore the problem of inferring phylogenetic trees in the presence of recombination. Two widely used approaches are considered: concatenation
doi.org
October 16, 2025 at 8:37 AM