Nat Walker-Hale
phylonatworks.bsky.social
Nat Walker-Hale
@phylonatworks.bsky.social
PDRA in the Chomicki group, Department of Biosciences, Durham University. Mostly phylo stuff, sometimes NZ pol, sometime just pol
Reposted by Nat Walker-Hale
Rewinding evolution in planta: A Rubisco-null platform validates high-performance ancestral enzymes | PNAS www.pnas.org/doi/10.1073/... @pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
www.pnas.org
January 9, 2026 at 7:08 PM
Reposted by Nat Walker-Hale
1/7 🧬 New preprint!

What is it like to have one of the highest genomic diversities among metazoans?

🔗 www.biorxiv.org/content/10.6...
The highly heterozygous European amphioxus (Branchiostoma lanceolatum) at the edge of panmixia
Amphioxus are small marine chordates that have broad ecological ranges, yet as adults form local settlements and exhibit limited mobility. Genomic surveys of two amphioxus species have suggested that they rank among the most genetically diverse metazoans. Here, we present the first accurate assessment of genomic diversity in the European amphioxus ( Branchiostoma lanceolatum ) and investigate the processes underlying this diversity. We leverage high-coverage whole-genome sequencing data from multiple individuals sampled at two geographically distant Atlantic and Mediterranean locations. Consistent with previous estimates in other amphioxus species, we measure exceptionally high genomic diversity, with an average heterozygosity of 2.73% in B. lanceolatum . Despite the large geographic separation between sampling sites, population differentiation is minimal, indicating extensive gene flow among distant adult settlements. Phylogenetic analyses combined with population genetic simulations confirm that this elevated genomic diversity is primarily driven by a large effective population size. Although adult amphioxus have limited mobility, our results indicate that long-distance larval dispersal mediated by ocean currents is sufficient to generate a near-panmictic population structure across their broad ecological range. ### Competing Interest Statement The authors have declared no competing interest. Swiss National Science Foundation, 207853 Agence Nationale de la Recherche, ANR-21-CE13-0034
www.biorxiv.org
January 20, 2026 at 9:42 AM
Reposted by Nat Walker-Hale
Genomic signatures of reproductive isolation are decoupled from floral divergence in a long-standing hybrid zone https://www.biorxiv.org/content/10.64898/2026.01.17.700129v1
January 19, 2026 at 4:31 AM
Reposted by Nat Walker-Hale
Job alert! Assistant professor position in the Department of Molecular Genetics (University of Toronto). Amazing department and city. jobs.utoronto.ca/job/Toronto-... Please share.
Assistant Professor - Virology
Assistant Professor - Virology
jobs.utoronto.ca
January 15, 2026 at 8:04 PM
Reposted by Nat Walker-Hale
New paper out: “allopatric” Drosophila species aren’t so allopatric after all. We show that most currently allopatric species pairs probably overlapped in the past and exchanged genes at levels similar to sympatric pairs. @evolletters.bsky.social

doi.org/10.1093/evle... [1/6]
Genomic analyses in Drosophila do not support the classic allopatric model of speciation
Abstract. The allopatric model of speciation has dominated our understanding of speciation biology and biogeography since the Modern Synthesis. It is uncon
doi.org
January 15, 2026 at 11:58 AM
Reposted by Nat Walker-Hale
Nature research paper: Ultra-high-throughput mapping of genetic design space

go.nature.com/49CZvoe
Ultra-high-throughput mapping of genetic design space - Nature
CLASSIC is a high-throughput genetic profiling platform that combines long- and short-read next-generation-sequencing modalities to quantitatively assess pools of constructs of arbitrary length containing diverse genetic part compositions.
go.nature.com
January 15, 2026 at 7:40 PM
Reposted by Nat Walker-Hale
from a thread by a historian of Reconstruction. this bit seems key
If so, is there as much moderate support for Trumpism today as there was white Republican support for white supremacy in the 1890s? Have we gone that far down the road?

Given current public sentiment, I do not think so.
January 15, 2026 at 8:55 PM
Reposted by Nat Walker-Hale
Characterising the detectable and invisible fractions of genomic loci under balancing selection https://www.biorxiv.org/content/10.64898/2026.01.13.698512v1
January 13, 2026 at 1:32 PM
Reposted by Nat Walker-Hale
🚀 Our new paper on Alignoth just published in Bioinformatics!

Alignoth generates self-contained interactive HTML read alignment plots from BAM files – Rust-based, portable, and ideal for headless workflows.

📄 doi.org/10.1093/bioi...

#bioinformatics #genomics #rust @johanneskoester.bsky.social
January 8, 2026 at 1:57 PM
Reposted by Nat Walker-Hale
Want to study the genomics of repeated adaptation with data from hundreds of species? New funding for non-Canadians @ grad or postdoc level. Internal competition at UCalgary with very short deadline so please get in touch ASAP!!
sshrc-crsh.canada.ca/en/funding/o...
January 9, 2026 at 6:41 PM
Reposted by Nat Walker-Hale
Our new commentary on @blackrim.bsky.social et al's fascinating work in @newphyt.bsky.social, using simulation and analysis of empirical data to scale microevolutionary process to macroevolutionary patterns. Punchline: death rate and max age are driving.

nph.onlinelibrary.wiley.com/doi/10.1111/...
January 10, 2026 at 11:26 AM
Reposted by Nat Walker-Hale
Our eLetter github.com/caseywdunn/s... responding to a recent Science paper was just posted. The paper found more genes with consistent support for sponge-sister than ctenophore-sister. We found several technical issues that, when corrected, reverse the conclusions and recover ctenophore-sister.
January 9, 2026 at 11:44 AM
Reposted by Nat Walker-Hale
While our updated paper is fast approaching book-length, the results remain the same: our method (reconcILS) is still highly accurate.

So if you want to reconcile gene trees and species trees--and you might have any ILS at all--this is the best method out there!

www.biorxiv.org/content/10.1...
reconcILS: A gene tree-species tree reconciliation algorithm that allows for incomplete lineage sorting
Reconciliation algorithms infer the evolutionary history of individual gene trees given a species tree. Many reconciliation algorithms consider only duplication and loss events (and sometimes horizont...
www.biorxiv.org
January 7, 2026 at 11:22 AM
Reposted by Nat Walker-Hale
New preprint modeling biogeo diversification of Hawaiian Kadua 🌱🏝️🌋

w/ @ca-naturalist.bsky.social @sswiston.bsky.social @fabiology.bsky.social @phylogeny.bsky.social Warren Wagner, Bruce Baldwin, Ken Wood @ninaronsted.bsky.social @fzapata.bsky.social

biorxiv.org/content/10.64898/2025.12.16.694722
December 31, 2025 at 8:51 PM
Reposted by Nat Walker-Hale
I posted an eLetter to the recent Science paper claiming strong evidence for sponges as the sister group to all other animals.

The eLetter can be found under the original article.

www.science.org/doi/10.1126/...
Integrative phylogenomics positions sponges at the root of the animal tree
Determining whether sponges or ctenophores root the animal tree has important implications for understanding early animal evolution. Here, we examined support for these competing hypotheses by constru...
www.science.org
December 17, 2025 at 11:58 PM
Reposted by Nat Walker-Hale
🧬🌽 RESEARCH 🧬🌽

A new whole-genome assembly of maize identifies a potential regulator of crossover frequency and other effects on expression of A-chromosome genes mediated by the B chromosome - Hloušková et al.

🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
December 13, 2025 at 8:00 AM
Reposted by Nat Walker-Hale
Very happy to see our article comparing the responses of hybrid poplars in 17 common gardens, out now in @newphyt.bsky.social! We estimated reaction norms to predict how warming winters could change where different ancestries are favored.
nph.onlinelibrary.wiley.com/doi/10.1111/...
December 1, 2025 at 5:21 PM
Reposted by Nat Walker-Hale
Reposted by Nat Walker-Hale
#Genomic #imprinting in an early-diverging lineage

nph.onlinelibrary.wiley.com/doi/10.1111/...
#Letter article by Florez-Rueda et al.

@WileyPlantSci #PlantScience
December 1, 2025 at 1:03 PM
Reposted by Nat Walker-Hale
Integrated approaches for discovery and functional annotation of proteins of unknown function: Trends in Biochemical Sciences www.cell.com/trends/bioch... @cp-trendsbiochem.bsky.social
Integrated approaches for discovery and functional annotation of proteins of unknown function
Proteins of unknown function (PUFs) remain a persistent blind spot in molecular biology. Emerging evidence implicates many PUFs in crucial but poorly characterised roles in biomedical contexts, partic...
www.cell.com
December 1, 2025 at 2:54 PM
Reposted by Nat Walker-Hale
🌿Excited to share our new study in New Phytologist! 🌿
Polyploidy is a major force in plant evolution, but is understudied in the tropics. We find that polyploidy evolved multiple times in Inga, a characteristic Neotropical tree radiation (1/n) 🧵.

Full paper🔗: tinyurl.com/msnffhs8
November 25, 2025 at 1:11 PM
Reposted by Nat Walker-Hale
This (from: www.ft.com/content/75ce...) is something you can *feel* if you are in the UK, especially if you've experienced living abroad. But infuriatingly successive governments and our entire media are somehow absolutely committed to suggesting anyone who wants to change this is the devil...
November 21, 2025 at 7:38 AM
Reposted by Nat Walker-Hale
Happy to see this finally out! Diego is a brilliant student that took our grad course on Macroevolution during lockdown, and this eventually escalated to me becoming a co-author in his PhD chapter.

nph.onlinelibrary.wiley.com/doi/10.1111/...
Interaction between floral rewards and floral symmetry shapes diversification dynamics in Amazonian trees
Floral zygomorphy, or monosymmetry, is thought to have a positive effect on the diversification rates of angiosperms, but its true impact is still an open topic. Given the controversy surrounding th...
nph.onlinelibrary.wiley.com
October 9, 2025 at 11:38 AM