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Wouter van der Bijl @vdbijl.bsky.social · 1d

Wanted to look at the review history of a JEB paper from a mere two years ago - but hosted on publons so gone forever?

Wouter van der Bijl @vdbijl.bsky.social · 28d

Thanks Andrew!

Wouter van der Bijl @vdbijl.bsky.social · 28d

While we all share our sequencing data freely, image datasets like these are still often kept private.

I am only aware of a single other study on guppy coloration (there are many!) where images are available, and it's also from our lab (Morris et al. 2020).

I hope this can improve in the future!

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Wouter van der Bijl @vdbijl.bsky.social · 28d

Our paper on the genetics of guppy color patterns has now been assigned an issue in NEE: doi.org/10.1038/s415...

With this paper, we also publish all 14,100 guppy photos used in the study, including before and after alignment and ornament extraction:
doi.org/10.20383/103...

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Reposted by Wouter van der Bijl

Maxwell Shafer @maxshafer.bsky.social · Aug 28

Now published @natecoevo.nature.com with @annika-nichols.bsky.social, our latest on the evolution of 𝘴𝘭𝘦𝘦𝘱 across 𝟲𝟬 𝘀𝗽𝗲𝗰𝗶𝗲𝘀 of cichlid fishes! doi.org/10.1038/s415...
with members of the @schierlab.bsky.social and Salzburger labs, as well as the burgeoning Shafer lab @uoftcellsysbiol.bsky.social

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Reposted by Wouter van der Bijl

Laura K Hayward @lkhayward.bsky.social · Aug 23

Full paper now out in GENETICS:
The relationship between sexual dimorphism and intersex correlation: do models support intuition?
🔗 academic.oup.com/genetics/art...
#Evolution #QuantGenetics @GeneticsGSA

The relationship between sexual dimorphism and intersex correlation: do models support intuition?

Abstract. The evolution of sexual dimorphism (the difference in average trait values between females and males, SD), is often thought to be constrained by

academic.oup.com

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Reposted by Wouter van der Bijl

Judith Mank @judithmank.bsky.social · Aug 22

Many of us are using LLMs in coding and scientific writing. They are very helpful tools, but we need to be thoughtful as we integrate them into our work flows to preserve accountability, voice and trust. academic.oup.com/evlett/advan.... An editorial at @evolletters.bsky.social for discussion:

Editorial: Accountability, voice, and trust - responsible use of GenAI in scientific publishing

Over the last few years, the development and rapid advancement of Generative Artificial Intelligence (GenAI) and Large Language Models (LLMs) such as ChatG

academic.oup.com

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Wouter van der Bijl @vdbijl.bsky.social · Aug 22

Yes I personally prefer to use “deep learning” over “AI”. Not much use for LLMs for now (but perhaps for eg meta-analyses in a couple of years?), but transformer architecture may still hold a lot of promise for sequence data.. Time will tell.

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Wouter van der Bijl @vdbijl.bsky.social · Aug 22

And yes, we used unets for segmentation.

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Wouter van der Bijl @vdbijl.bsky.social · Aug 22

Guppies! ;) I didn’t talk about it, but we also use triplet learning to do GWAS on whole patterns: doi.org/10.1038/s415.... There were quite a few posters on neural nets for image analysis and this is a domain where one can be effective with modest sample sizes.

Deep learning reveals the complex genetic architecture of male guppy colouration - Nature Ecology & Evolution

Guppy colouration is a very diverse trait under natural and sexual selection. Using a combination of high-resolution phenotyping and genomic analysis, the authors reveal the genetic architecture of th...

doi.org

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Reposted by Wouter van der Bijl

Tilly S Scott @tillysscott.bsky.social · Aug 20

ESEB Day 3! Molecular clocks & identifying ghost lineages; marrying micro & macro evolution; female polymorphism; balancing selection in round-nose grenadier; the genetics of guppy colour polymorphisms; modelling genetic interactions; antagonist selection in flying ants

#eseb2025 #eseb #sciart

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Reposted by Wouter van der Bijl

Judith Mank @judithmank.bsky.social · Aug 20

Just in time for her #eseb2025 poster on Thursday, @squarehare.bsky.social 's paper on the Poecilia bifurca sex chromosomes was published today academic.oup.com/g3journal/ad...

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Wouter van der Bijl @vdbijl.bsky.social · Aug 19

I hate conference apps with a passion.

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Wouter van der Bijl @vdbijl.bsky.social · Aug 15

This website seems odd, it assumes MEPs will vote along country blocks, not European or individual parties?

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Reposted by Wouter van der Bijl

Judith Mank @judithmank.bsky.social · Aug 14

I’m really sorry to be missing #eseb2025, but for those sorting out their conference plan there are several lab talks and posters about what we are up to. Spoiler, they aren't all talking about guppies, or even fish! 1/n

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Reposted by Wouter van der Bijl

Judith Mank @judithmank.bsky.social · Jul 17

‪A really lovely commentary on @vdbijl.bsky.social's paper by Nidal Karagic and Claudius Kratochwil in @natecoevo.nature.com www.nature.com/articles/s41...

The next generation of colour pattern genomics - Nature Ecology & Evolution

Convolutional neural networks and genetic association analysis decode the evolution of colour pattern diversity and its underlying complex genetic architecture in the Trinidadian guppy.

www.nature.com

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Wouter van der Bijl @vdbijl.bsky.social · Jul 3

Thanks Will, hope you’re doing well!

Reposted by Wouter van der Bijl

Nature Ecology & Evolution @natecoevo.nature.com · Jul 2

Guppy colouration is a very diverse trait under natural and sexual selection. Using a combination of high-resolution phenotyping and genomic analysis, the authors reveal the genetic architecture of this complex trait www.nature.com/articles/s41...

Deep learning reveals the complex genetic architecture of male guppy colouration - Nature Ecology & Evolution

Guppy colouration is a very diverse trait under natural and sexual selection. Using a combination of high-resolution phenotyping and genomic analysis, the authors reveal the genetic architecture of th...

www.nature.com

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Reposted by Wouter van der Bijl

Mark Peifer (He, him) @peiferlabunc.bsky.social · Jul 1

This is amazing work and a great thread, revealing the hidden genetic complexity behind the equally complex pigmentation patterns. Check it out! 🧪

Wouter van der Bijl @vdbijl.bsky.social · Jul 1

🚨 Super exited to see our paper on the inheritance and genetic basis of guppy color variation come out in @natecoevo.nature.com‬ rdcu.be/eugWV

Guppy males have enormous variation in color patterns, with many combinations of ornamental spots and stripes. But where does all this variation come from?

Photo of guppy males from lab population, each showing a unique combination of black and orange ornaments. Photo by Wouter van der Bijl.

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Wouter van der Bijl @vdbijl.bsky.social · Jul 1

Yes I’ll be there.

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Wouter van der Bijl @vdbijl.bsky.social · Jul 1

Thanks a lot Alex!! Guppies continue to be amazing.

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Wouter van der Bijl @vdbijl.bsky.social · Jul 1

Thanks Chris!

Wouter van der Bijl @vdbijl.bsky.social · Jul 1

Thanks Stephen!! And congrats to you on the new gig!

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Wouter van der Bijl @vdbijl.bsky.social · Jul 1

This paper is the result of years of hard work, and would not have been possible without all the help from my co-authors. Special thanks to @jacejostles.bsky.social for taking ~8k photos (+fig 1a), and to @judithmank.bsky.social for her unwavering support of this project.

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Wouter van der Bijl @vdbijl.bsky.social · Jul 1

Overall, the color patterns are made up of a patchwork of ornaments. The genetic architecture is much more complex than previously appreciated.

Duplications from the autosomes to the sex chromosomes play a large role in the evolution of the extreme variation in this species.

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