I think Bluesky is a great platform and I’m here to stay. However, a bookmark function would make the experience SO much better and much more functional for research/ information gathering, especially for reporters. Pretty please @support.bsky.team @bsky.app ?

Fig. 1: The Chromosome number and Hidden State-dependent Speciation and Extinction (ChromoHiSSE) model. Panel (a) describes the event rates allowed in the model for both cladogenetic (upper) and anagenetic (lower) events. Panels (b) and (c) demonstrate those rates on a tree simulated under ChromoHiSSE. Branches that do not reach the present represent extinct, unsampled lineages. Panel (b) shows the anagenetic and cladogenetic changes in the hidden states, indicated by blue (i) vs orange (ii). Panel (c) shows the anagenetic and cladogenetic gains and losses of chromosomes, as well as speciation with no corresponding change in chromosome numbers. More red colors in (c) correspond to more chromosomes. The vertical blue and orange bars in (c) indicate clades in the blue (i) vs orange (ii) hidden states, displaying that chromosome number changes are less frequent in the blue hidden state than in the orange. The asterisk in (c) demarcates where a cladogenetic dysploidy event could appear as an anagenetic event because of unsampled lineages.

New study by @tribblelab.bsky.social @jimarcor.bsky.social @marcialescudero.bsky.social Michael May, Rosana Zenil-Ferguson and myself just out:

Introduces a novel HiSSE chromosome model and demonstrates the importance of chrom. evol. in #sedge diversity.

nph.onlinelibrary.wiley.com/doi/10.1111/...

Instead of listing my publications, as the year draws to an end, I want to shine the spotlight on the commonplace assumption that productivity must always increase. Good research is disruptive and thinking time is central to high quality scholarship and necessary for disruptive research.

Genealogical asymmetry under the isolation with migration model and a two-taxon test for gene flow Abstract. Methods for detecting gene flow between populations often rely on asymmetry in the average length of particular genealogical branches, with the A

My and Derek Setter's work on gene flow is now published in the latest issue of Genetics. We show that it is possible to detect past gene flow between two populations by summarising the asymmetry in pop-specific external branch lengths. 1/2
tinyurl.com/5ff8ch9e

Climate drives long-term landscape and rapid short-term promoter evolution in the Western Canaries lizard, Gallotia galloti www.biorxiv.org/content/10.1101/2024.12....

Structural rearrangements and selection promote phenotypic evolution in Anolis lizards www.biorxiv.org/content/10.1101/2024.12....

macOS folk: This is your periodic reminder 🎗️ to:

```bash
$ brew update && brew upgrade && brew cleanup
```

I just got back 10.7 GB & patched a slew of CVEs.

Ignoring population structure in hominin evolutionary models can lead to the inference of spurious admixture events - Nature Ecology & Evolution Simulating a metapopulation of human evolution without Neanderthal introgression into Homo sapiens still identifies Neanderthal fragments in simulated genomes, and an admixture event that never took p...

A little bomb. They're not saying hybridization didn't happen, they're arguing that it hasn't been conclusively shown, as the same patterns can be produced in other ways without Neanderthal admixture. An interesting read. Thoughts?
www.nature.com/articles/s41...

New paper with @snaildit.bsky.social❗

You can use paralogs to reduce long-branch attraction!
This will be especially helpful when there are no extant taxa that can be sampled to break up these branches.

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

I would also like to recommend @melisaolave.bsky.social

Hi Joana, I would be happy to be included in the list!

If you're interested in trying out LLMs in #rstats but don't know where to begin, I've added a few two vignettes to elmer: elmer.tidyverse.org/articles/elm... and elmer.tidyverse.org/articles/pro...

Gene behind orange fur in cats found at last After 60 years, scientists know why gingers, calicos, and tortoiseshells look the way they do

Sara Reardon's story on the genetics of coat color in cats was a delight to read (and not just because my sweet calico, Mona Lisa, got to make her Science debut). Now I'm just waiting for scientists to make a discovery about tabbies, so Mo's brother Vinny can get his moment in the spotlight!

NEW Publication!😄

Here, we show how #PhyKIT — a broadly applicable toolkit for #phylogenomics — can be used to construct phylogenomic data matrices (& quantify biases therein), detect anomalies in predicted orthology, calculate gene-gene coevolution, & more!

🔗: tinyurl.com/yc5ja4xz

Five-leaf Generalizations of the D-statistic Reveal the Directionality of Admixture Abstract. Over the past 15 years, the D-statistic, a four-taxon test for organismal admixture (hybridization, or introgression) which incorporates single n

Final text and PDF of our new approach - Delta-statistics - to detecting directionality of admixture (introgression, hybridization) between species/populations - empirical example reanalyzes gene flow between polar and brown bears

academic.oup.com/mbe/article/...

Migrando a 🦋