"How two hybridizing monkeyflowers resist phenotypic homogenization" I'm very happy to share this. We would really appreciate your feedback!

Jenn Coughlan@jenncoughlan.bsky.social · 3d ago

So proud of this manuscript- lead by the fantastic @henryarenas.bsky.social with two undergraduates (Cage Cochran and Quinn Evans) each doing a Herculean effort during their honors theses, and Hongfei Chen helping out tremendously with lab work. www.biorxiv.org/content/10.6...

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!

Scientists must push back against the threat of rising white nationalism and the dangerous and pseudoscientific ideas of eugenics https://go.nature.com/4jGqiUc

Eugenics is on the rise again: human geneticists must take a stand

Scientists must push back against the threat of rising white nationalism and the dangerous and pseudoscientific ideas of eugenics.

go.nature.com

Evidence of parental care as a novel reproductive isolating mechanism https://www.biorxiv.org/content/10.1101/2025.04.18.649590v1

Excited to share our new paper on genetic differentiation in Atlantic silversides! We investigated how genome structure influences adaptation under varying levels of gene flow using a species-specific reference genome and multiple recombination maps. Read on for insights! doi.org/10.1093/molb... 1/7

Genetic differentiation is constrained to chromosomal inversions and putative centromeres in locally adapted populations with higher gene flow

Abstract. The impact of genome structure on adaptation is a growing focus in evolutionary biology, revealing an important role for structural variation and

doi.org

An important point getting overlooked: When NIH cancels "diversity" grants (e.g., diversity supplements, Fs, Ks, etc), they aren't canceling the grants based on *what* the grant studies. They're cancelling them based on *who* is doing the research. And that disallowed "who" is anyone not white.

A new tool, vcfsim, developed by Paimon Goulart, a stellar undergraduate researcher in my lab! vcfsim allows for the quick and easy simulation (via parameterized msprime simulations) of "all-sites" vcfs, with arbitrary ploidy and amounts of missing data. www.biorxiv.org/content/10.1...

vcfsim: flexible simulation of all-sites VCFs with missing data

VCFs are the most widely used data format for encoding genetic variation. By design, standard VCFs do not include data from sites where all individuals are homozygous for the reference allele ("invari...

biorxiv.org

Genetics of recombination rate variation within and between species Bret Payseur academic.oup.com/jeb/advance-...

Genetics of recombination rate variation within and between species

Abstract. Recombination diversifies the genomes of offspring, influences the evolutionary dynamics of populations, and ensures that chromosomes segregate p

academic.oup.com

! Selection Can Favor a Recombination Landscape That Limits Polygenic Adaptation academic.oup.com/mbe/article/...

Selection Can Favor a Recombination Landscape That Limits Polygenic Adaptation

Abstract. Modifiers of recombination rates have been described but the selective pressures acting on them and their effect on adaptation to novel environme

academic.oup.com

Pleased to announce that @susanjohnston.bsky.social and I will be hosting a symposium at @evolmtg.bsky.social #evol2024: "Recombination Rate Variation: Causes, Consequences, and Evolution". All are free to apply, see evolutionmeetings.org for details! Please share/RT.

@ksamuk.bsky.social pointed this out on the other site, but I don't see much discussion here. GATK will now encode missing genotypes as "0/0", or homozygous ref, instead of "./." in VCF files. To identify sites with missing data, you'll have to check the DP field.

GenotypeGVCFs and the death of the dot

If you have been keeping up with our GATK release notes, then you know that we have been rolling out a number of backend changes, tools, and features to GATK that we are hoping will improve the eff...

gatk.broadinstitute.org

Come join us at @UCRiverside! My department (EEOB) is hiring a tenure track Assistant Professor of Disease Ecology. Application review begins Jan 22nd. Details can be found here: aprecruit.ucr.edu/JPF01846 I am happy to answer questions (I'm on the search committee, but not chair)

Postdoc position using genomics to study evolutionary constraint in threespine stickleback in Diana Rennison's lab. A great opportunity:

As jobs are coming out and folks are applying, here's your regular reminder of lots of examples of successful job apps (mostly research academia but also industry, PUI, gov). And if you've gotten a job recently, please consider contributing! github.com/RILAB/statem...