José Cerca

José Cerca

@naturalselection.bsky.social

Group leader at the Swedish Museum of Natural History Evolutionary naturalist focusing on island biology, adaptive radiation, genomes and ecological niches. Islandevolution.github.io

2.2K followers408 following276 posts

José Cerca reposted

last week to apply for full consideration—happy to chat informally if you are on the fence!

Ethan Linck@elinck.bsky.social

I'm hiring a postdoc to help build tools for inferring complex speciation histories with genomic data. strong computational skills are a must, but this is a training opportunity. 60K$+ salary, 2 years, details flexible. please reach out! (and repost) ad here: jobs.montana.edu/postings/53150

José Cerca reposted

José Cerca reposted

José Cerca reposted

In this thread, Monbiot explains how political decisions are made for reasons of power and interest, but then justified with pretextual arguments about logic and morality. The reason I cannot deal with most political coverage is that it takes the latter arguments seriously and ignores the real story

George Monbiot@georgemonbiot.bsky.social

That’s because the decision has already been made. The issue being debated is merely the post-hoc justification. Where decisions happen and where debate happens are different places. The idea that debate leads to policy outcomes is a fiction designed to create an impression of democratic consent.

José Cerca reposted

Here is how politics, in most cases, works: Rich and powerful interests, whether in fossil fuels, finance, big tech, media, meat, pharma or foreign governments, make a demand, and use their sophisticated tools to persuade a government to adopt it. The government adopts it. Please read whole🧵

View full thread

José Cerca reposted

Island species 🏝️ frequently experience founder events and population bottlenecks 🧬 and are often subject to disturbances that further reduce population sizes. Despite these challenges, some island lineages persist for millennia 🕰️ —the paradox of persistence. Here’s what we learned about it:

José Cerca@naturalselection.bsky.social

V happy about this one (@brentcemerson.bsky.social @biodiversitysmns.bsky.social @hernmoral.bsky.social)et al Species have survived on oceanic islands for Mya despite occupying small geographic areas, facing environmental calamities and having low Ne. We discuss this w/ a focus on conservation. 1/2

José Cerca reposted

This. 💯 this. "Our work highlights an important knowledge gap: we still lack integrative, cross-taxon genomic time-series datasets linking deleterious variation, fitness, and demography." 👏 Maëva Gabrielli et al @cp-trendsecolevo.bsky.social 👀 #ConSERTeam🧬

José Cerca@naturalselection.bsky.social

V happy about this one (@brentcemerson.bsky.social @biodiversitysmns.bsky.social @hernmoral.bsky.social)et al Species have survived on oceanic islands for Mya despite occupying small geographic areas, facing environmental calamities and having low Ne. We discuss this w/ a focus on conservation. 1/2

José Cerca reposted

Islands are amazing #biodiversity study systems. Here is our perspective on how they can be used as models for #conservation Thanks to José and Maëva for their great leadership on this #consgen #popgen

José Cerca@naturalselection.bsky.social

V happy about this one (@brentcemerson.bsky.social @biodiversitysmns.bsky.social @hernmoral.bsky.social)et al Species have survived on oceanic islands for Mya despite occupying small geographic areas, facing environmental calamities and having low Ne. We discuss this w/ a focus on conservation. 1/2

José Cerca reposted

Blaming AI agents when they escape sandboxes is like blaming lions for escaping a zoo. The company is responsible, they should be sued for accountability. Nothing complicated about it.

This looks super cool. Congratulations @amarques.bsky.social .

📣📣Paper Alert! New paper @nature.com from the Marques group @amarques.bsky.social and colleagues on Rhynchospora tenuis - 🌿a plant that reproduces sexually but has completely lost the reshuffling of DNA🧬 Congratulations! 👏 🥳 Read more👉 www.mpipz.mpg.de/pr-marques-2... www.nature.com/articles/s41...

José Cerca reposted

I’m looking to hire an NIH funded postdoc to join our lab here at Davis (please RT). Ongoing areas of interest include: 1) polygenic signals of selection from time series, ARGs, GWAS, etc 2) The interpretation of GWAS, polygenic scores, & sources of confounding

Really good chance for Swedish PIs/colleagues. We are very privileged to have NBIS.

NBIS@nbis.se

A senior bioinformatician working on your project in Sweden for up to 500 hours! Apply to the next call for Bioinformatics Support Peer review track (aka WABI): www.nbis.se/services/bio... Deadline: October 1st 2026 (23:59)

José Cerca reposted

I am endlessly thankful to Just Stop Oil for taking to the streets again today But it's not easy seeing such good, generous-hearted and courageous people being handcuffed and taken away, many possibly to long jail sentences It shouldn't have to be this way

It's always relevant to point out: America is a continent with dozens of countries. The USA is one of those countries. This is imperialist (and perhaps even colonialist) language, and likely has shared conceptual roots with the renaming of Lake Ontario or the Gulf of Mexico. Let's stop with this.

Zen Faulkes@doctorzen.net

Past American dominance in science is not due to a few dozen “top scholars.” It’s due to America 🇺🇸 spending ENORMOUSLY more on science than other countries and distributing it widely. Canada 🇨🇦 boasting about attracting “top talent” of a few dozen people is not serious. And not US “brain drain.”

José Cerca reposted

The first manuscript from my postdoc is out (doi.org/10.64898/202...)! We introduce 𝐭𝐢𝐦𝐞-𝐬𝐭𝐫𝐚𝐭𝐢𝐟𝐢𝐞𝐝 𝐬𝐭𝐚𝐭𝐢𝐬𝐭𝐢𝐜𝐬 for studying population structure change over time, with the temporal resolution of Ancestral Recombination Graphs (ARGs). Joint with @jkpritch.bsky.social and @jeffspence.github.io. 1/n

google.comCoalescent-Based Time-Stratified Statistics Reveal Population Structure Dynamics using the Ancestral Recombination GraphMany questions in population genetics are concerned with reconstructing evolutionary history through time, such as inferring how population structure has changed throughout the past. Yet, many existing approaches have only an implicit temporal component, using quantities such as allele frequency or haplotype length as rough proxies for age. Recent advances in the inference of Ancestral Recombination Graphs (ARGs) have made it possible to estimate the entire sequence of local genealogies along the genome. These genealogies explicitly encode how samples are related to each other at different time points in the past, enabling the inference of how population structure has changed over time. To this end, recent work has used ARGs to define time-stratified versions of widely-used population genetics summary statistics in an attempt to capture the population structure present within a particular time window. Here, we show that naive approaches result in statistics that cannot be interpreted solely in terms of the population structure present within the time window they are targeting. To address this problem, we introduce a framework of coalescent-based time-stratified statistics, which use coalescence probabilities to partition classical summary statistics into interval-specific contributions. Using coalescent simulations, we demonstrate that these statistics accurately isolate population structure at different temporal depths and avoid spurious signals. Our results highlight the necessity of integrating coalescent theory into ARG-based temporal analyses and provide a principled and practical foundation for studying the dynamics of population structure through time. ### Competing Interest Statement The authors have declared no competing interest. National Human Genome Research Institute, https://ror.org/00baak391, R01HG014005

José Cerca reposted

José Cerca reposted

Thrilled to share that I'll be starting my lab at the Swedish Museum of Natural History in Stockholm as a DDLS Fellow in November! 🧑‍🔬🧬🎉 Of course, we will be delving into all things mobile DNA & evolution, as well as developing AI approaches for biodiversity genomics #newPI #TEsky #TEworldwide

This week I was speaking with a person from LatAm who was telling me that before AI she was very afraid of bombing her submissions because of their language skills. She said it was very emotionally taxing to make changes. (...)

Colin Carlson@colincarlson.bsky.social

I wrote about a reason not to use generative AI in your writing that I haven't seen anyone talking about. Once I realized this, banning GenAI in our lab's writing became a no-brainer. Feel free to share, I think this is probably useful especially for trainees: www.carlsonlab.bio/thoughts/the...

This week I'm dealing with a revision where the EiC told us to check the language. My own master advisor used companies to proof-read their papers, which substantially delayed publications. So here is a devil's advocate take: Banning AI from your lab is gate-keeping non-english speakers.

TL;Dr I understand generative AI can lead to plagiarism and to many bad things, but it has really alleviated the burden of non-english speakers (especially those from lower classes who do not learn English while young).

José Cerca reposted

Just posted: a group paper describing major updates to my software pixy, for population genetic summary statistics. www.biorxiv.org/content/10.6... New since 2021: arbitrary ploidy, multiallelic sites, missingness-aware Watterson's θ and Tajima's D, Hudson's FST, multicore execution!

José Cerca reposted

Please share: Full-time PhD position on Butterfly Evolution at High Elevations 🦋⛰️ The project aims to understand the evolution and adaptation of Andean white butterflies using genomics. DEADLINE: September 11, 2026 More info: pavelmatos.wordpress.com/join-us/

pavelmatos.wordpress.comJoin usOpportunities Below are the positions currently open in our lab. Open PhD position (full time) Comparative and Population Genomics of Butterflies at High Elevations. The project aims to understand …

José Cerca reposted

José Cerca reposted

Our criteria for success are disastrously skewed. In my view, a successful person is one who does more good than harm, on any scale. On this measure, most billionaires are massive failures, while humble folk in my neighbourhood who look after other people are highly successful.

José Cerca reposted

Renowned Evolutionary biologists Peter & Rosemary Grant are back with new research on adaptive radiation in Geospiza finches on Daphne Major, looking at the long term impacts of hybridization on 3 species of ground finch! You can read the full paper below 👇 🧪 (1/2) doi.org/10.1093/evol...

doi.orgFission, fusion and the generation of novelty in Geospiza species on Daphne Major Island, GalápagosAbstract. Early stages in the adaptive radiation of Darwin’s finches are characterized by divergence (fission) and convergence (fusion) caused by natural s

José Cerca reposted

New preprint on the effect of ancient admixture / structure on genealogical trees. I introduce a new way of summarising reconstructed genealogies that captures a clear signal of ancient gene flow into the ancestors of modern humans. Feedback welcome!

bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social

The distribution of integer partitions in human genome-wide genealogies reflects gene flow from a super-archaic lineage https://www.biorxiv.org/content/10.64898/2026.07.14.738421v1

José Cerca reposted

As you prepare for your holiday outings, please remember Monbiot’s Inviolable Law on Leaving the House: T = 2A² + 5C² Where T is time in minutes, A is adults and C is children.