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Daniel Ortiz-Barrientos

@dortizba.bsky.social
709 followers 784 following 45 posts

Evolutionary Geneticist at UQ, Australia. Speciation, adaptation, future resilience. #senecio

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Reposted by Daniel Ortiz-Barrientos
Society for the Study of Evolution @sse-evolution.bsky.social · 01/10/2026
💬 In the latest Evolution Exchange, SSE President Dr. Gina Baucom talks with Dr. Stacy Krueger-Hadfield and Dr. Daniel Ortiz-Barrientos about doing a PhD or postdoc abroad. www.evolutionsociety.org/news/display... @dortizba.bsky.social @gbaucom.bsky.social
Headshots of Dr. Krueger-Hadfield and Dr. Ortiz-Barrientos. Text: What Nobody Tells You About Doing Your PhD Abroad with Dr. Stacy A. Krueger-Hadfield and Dr. Daniel Ortiz-Barrientos. The Evolution Exchange, a monthly conversation series from the Society for the Study of Evolution.
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Moi Expósito-Alonso (MOILAB) @mexpositoalonso.bsky.social · 14/08/2026
Congratulations to @dortizba.bsky.social on a new collaborative Tansley Review in @newphyt.bsky.social! Predictive evolutionary genomics: principles, validation, and practice doi.org/10.1111/nph....
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Elizabeth Hilborn @elizabee.bsky.social · 14/12/2025
Before flowers evolved with attractive colors and scents, what did plants use to attract insect pollinators? Heat may be one ancient strategy. Valencia-Montoya and colleagues report their study of cycads in Science. Journal link in first comment. 🧪🌍🌱🐝 phys.org/news/2025-12... #pollinators
phys.org
Infrared radiation may be one of the most ancient plant signals to pollinating insects
Harvard researchers have discovered that cycads—one of the oldest living lineages of seed plants—heat up their reproductive organs to attract beetle pollinators and the insects possess infrared sensor...
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MU-Peter Shimon 🀄 @mu-peter.bsky.social · 12/12/2025
“It is not too late to take another path.” — David Suzuki Government of Canada launches new initiative to recruit world-leading researchers 🇨🇦 Canada will invest $1.7 billion to attract top global talent 🧪 www.canada.ca/en/innovatio...
Scientist in a lab with Canadian maple leaf in background
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Genetics Society of America @genetics-gsa.bsky.social · 04/12/2025
New in #GENETICS: @dortizba.bsky.social and colleagues developed Retriever, a novel method that enables high-quality genotype imputation for species lacking external reference panels, such as non-model organisms. buff.ly/2GX9Bu4
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MU-Peter Shimon 🀄 @mu-peter.bsky.social · 21/11/2025
The emergence and diversification of dog morphology 🏺🧪 www.science.org/doi/10.1126/... This study looked at more than 640 canid crania over the past 50,000 years (see the Perspective by Fillios) and found that by the beginning of the Holocene, dogs already displayed extensive variation.
Morphometric variation of Mesolithic-Neolithic morphological dogs.
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Nature Portfolio @natureportfolio.nature.com · 25/10/2025
Globalization has accelerated the spread of mosquito species that transmit human diseases. An analysis in Nature Communications shows that 45 disease-vector mosquito species have been introduced to non-native regions worldwide. go.nature.com/4hn6ogW 🧪
This is figure 5, which shows global hotspots and coldspots of non-native mosquito introduction and establishment, and their socio-economic and environmental drivers.
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Shicheng Guo @shihcheng.bsky.social · 25/10/2025
Exploring 599 genomes from 387 plant species, 20 OSCs were functionally evaluated, revealing immense triterpenoid diversity. PMID:41053430, Nat Chem Biol 2025, @nchembio doi.org/10.1038/s41589-025-02034-8 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
doi.org
Large-scale mining of plant genomes unlocks the diversity of oxidosqualene cyclases | Nature Chemical Biology
The differential cyclization and rearrangement of 2,3-oxidosqualene controlled by oxidosqualene cyclases (OSCs) represents one of the most complex single enzyme transformations in nature and gives rise to a vast array of triterpenoid diversity in the plant kingdom. Here we systematically mine 599 plant genomes representing 387 species and investigate OSC diversity across different plant lineages. From the OSC sequences identified, 20 were selected for functional evaluation. Through analysis of these enzymes, we discover product profiles within clades previously believed to be functionally conserved and OSCs producing triterpenes for which no enzymatic source was known. We also discover OSCs with product profiles that yield mechanistic insights into the control of specific reaction pathways. Our study reveals lineage-specific blooms of OSC subgroups suggestive of adaptation to different environmental niches, opens up previously inaccessible chemistry and provides a framework for systema
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Nicola Nadeau @nicolanadeau.bsky.social · 23/10/2025
We are looking for a physics/maths graduate with an interest in biology, or a biology graduate with strong computational/mathematical skills/interests, to join us as a PhD student working on biomechanical modelling of butterfly wing scale structure formation www.findaphd.com/phds/project...
A fluorescent confocal microscopy image of a butterfly wing scale showing the surface and internal structures
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 25/10/2025
Origins and genetic legacy of prehistoric dogs | Science www.science.org/doi/10.1126/...
science.org
Origins and genetic legacy of prehistoric dogs
Ancient dog genomes elucidate diversification and a complex genetic history relative to that of humans.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 24/10/2025
genetic basis of natural variation in sociability url: academic.oup.com/evolut/artic...
academic.oup.com
The genetic basis of natural variation in sociability
Abstract. Sociability, defined as individuals’ tendencies to affiliate with conspecifics, is widespread among animals, including species not traditionally
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 24/10/2025
Hi Needhi - I was pointing out that there’s is not such a thing as species survival. I should have been more explicit, apologies.
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Nature Portfolio @natureportfolio.nature.com · 23/10/2025
Some ancient stony corals were able to survive extreme environmental changes, which suggests that some modern species could possess some resilience to the effects of climate change, according to research in Nature. go.nature.com/4hrpLpi 🌊 🧪
This is extended data figure 1, which shows photographs of different families of scleractinians.
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Reposted by Daniel Ortiz-Barrientos
Anthony (Tony) J. Martin @ichnologist.bsky.social · 23/10/2025
Cool paleo-🧵about the last dinosaurs from 66 mya in what's now New Mexico, & how their fossil record points toward diverse communities during the last few hundred-thousand years before a demise-inducing meteorite impact. Article in @science.org at the link: www.science.org/doi/10.1126/... 🧪🦖🦕☄️
science.org
Late-surviving New Mexican dinosaurs illuminate high end-Cretaceous diversity and provinciality
It has long been debated whether non-avian dinosaurs went extinct abruptly or gradually at the end-Cretaceous (66 million years ago), because their fossil record at this time is mostly limited to nort...
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Stephanie Baumgart, PhD 🦖🦆 @stephanopteryx.bsky.social · 23/10/2025
Just in time for spooky season: DINOSAUR "MUMMIES!" Unlike Egyptian mummies, these don't have squishy bits preserved, but the rock around these carcasses had clay capturing texture of scales, a midline crest w/ keratin spikes, &, brand new, feet w/ hooves! 🧪⚒️🦕🦖 www.science.org/doi/10.1126/...
Illustration of Edmontosaurus walking through a muddy substrate, leaving footprints behind. A dead Edmontosaurus is in the background on its side.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 23/10/2025
Species survival?
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Statistical Horizons @stathorizons.bsky.social · 18/09/2025
Learn to create and publish a professional, data-focused website in “Create an Online Presence with Quarto Websites” on October 16-17, with @andrew.heiss.phd‬! Discover how to use #Quarto to build a variety of websites like personal portfolios, research compendiums, and interactive dashboards.
codehorizons.com
Quarto Websites | Online Seminar | Code Horizons
This online course taught by Andrew Heiss, Ph.D., teaches you how to use Quarto to build a variety of data-focused websites.
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Hanbin Lee @epigenci.bsky.social · 09/10/2025
Our paper (Brieuc Lehmann is the first author) is now online in Genetics. academic.oup.com/genetics/adv...
academic.oup.com
On ARGs, pedigrees, and genetic relatedness matrices
Abstract. Genetic relatedness is a central concept in genetics, underpinning studies of population and quantitative genetics in human, animal, and plant se
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Matthew Neville @mattneville.bsky.social · 08/10/2025
Now published! Our paper on: (1) Accurate sequencing of sperm at scale (2) Positive selection of spermatogenesis driver mutations across the exome (3) Offspring disease risks from male reproductive aging [1/n] www.nature.com/articles/s41...
nature.com
Sperm sequencing reveals extensive positive selection in the male germline - Nature
A combination of whole-genome NanoSeq with deep whole-exome and targeted NanoSeq is used to accurately characterize mutation rates and genes under positive selection in sperm cells.
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Cedric Boeckx @cedricboeckx.bsky.social · 21/10/2025
A new high-coverage #Denisovan genome, chock-full of fascinating new information. Must-read study by @stephanepeyregne.bsky.social @janetk.bsky.social and colleagues On @biorxivpreprint.bsky.social: 🧪🧬 www.biorxiv.org/content/10.1...
biorxiv.org
A high-coverage genome from a 200,000-year-old Denisovan
Denisovans, an extinct sister group of Neandertals who lived in Eastern Eurasia during the Middle and Late Pleistocene, are known only from a handful of skeletal remains and limited genetic data, incl...
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Juda Kaleta @judakaleta.bsky.social · 20/10/2025
Worth checking out if you do statistical analysis in your research. statcheck.io
statcheck.io
statcheck // web
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Anna Brüniche-Olsen @annabruniche.bsky.social · 04/08/2025
Long runs of homozygosity are reliable genomic markers of inbreeding depression 🧬 www.cell.com/trends/ecolo...
cell.com
Long runs of homozygosity are reliable genomic markers of inbreeding depression
A long-standing goal in ecological, evolutionary, and conservation genetics is to identify genomic correlates of fitness and inbreeding depression. Over the past several years, a growing body of theor...
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Javier Santoyo @jsantoyo.bsky.social · 21/10/2025
Taming the reference genome jungle: the refget sequence collection standard. #ReferenceGenomes #Transcriptomes #SequenceCollectionStandards #GA4GH @biorxiv-genomic.bsky.social 🧬 🖥️ www.biorxiv.org/content/10.1...
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Jocelyn Poissant @jocelynpoissant.bsky.social · 21/10/2025
Myself and Alastair Wilson wrote an updated version of our 2016 primer to quantitative genetics in the wild: www.sciencedirect.com/science/arti.... Happy to share a copy if interested. It is also on research gate
sciencedirect.com
Quantitative Genetics in Natural Populations
Phenotypes evolve under natural selection if, and only if, they are genetically variable. While evolutionary ecologists have long studied natural sele…
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Megan Frayer @hybridzones.bsky.social · 09/08/2025
This collaboration was so much fun!! I’m excited to see it online! www.cell.com/trends/genet...
cell.com
The molecular evolutionary basis of species formation revisited
How do new species arise? This is among the most fundamental questions in evolutionary biology. The first genetic model for how reproductive barriers lead to the origin of new species was proposed nea...
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The American Journal of Human Genetics @ajhgnews.bsky.social · 13/08/2025
📣Online NOW! 📄Estimation of demography and mutation rates from one million haploid genomes 🧑‍🤝‍🧑 @jgschraiber.bsky.social @jeffspence.github.io @docedge.bsky.social
cell.com
Estimation of demography and mutation rates from one million haploid genomes
Samples of millions of genomes provide substantial information about recent demography and mutation, but standard population-genetic methods make assumptions not met in these data. We introduce DR EVI...
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Patrick McKenzie @patrickmckenzie.bsky.social · 11/09/2025
alignments are mosaics of autocorrelated genealogies... nearby bases share ancestry until recombination alters the local tree. We derived the distributions of waiting distances for tree-change and topology-change events, extending prior single-population results to arbitrary species tree models.
figure illustrating the concept of an ARG, including recombination events that create no-change, vs. tree-change, vs. topology-change
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Camille Roux @crouxevo.bsky.social · 12/09/2025
Hybridization and introgression are major evolutionary processes. Since the 1940s, the prevailing view has been that they shape plants far more than animals. In our new study (www.science.org/doi/10.1126/... ), we find the opposite: animals exchange genes more, and for longer, than plants
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Jenn Coughlan @jenncoughlan.bsky.social · 25/09/2025
I'm so proud of this work!!! It was an incredible amount of effort that started when I was trapped in a greenhouse during the pandemic and is only now seeing the light of day. Kudos to Megan, Hagar, & Pia! We'd love to hear your thoughts! www.biorxiv.org/content/10.1...
biorxiv.org
Introgression and Parental Conflict Underlie Repeated Occurrences of Postzygotic Isolation
Postzygotic reproductive isolation is often thought to accumulate as a byproduct of neutral divergence. Yet, it frequently evolves rapidly, in line with non-neutral evolution. A major driver of intrin...
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
Read the full open-access paper to learn more. A huge thank you to Charles for his brilliant work, and to Maddie James and Jan Engelstädter for making a great team! We also thank the reviewers for their valuable feedback. #Genomics #Bioinformatics #Imputation #Genetics
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
The impact: Retriever provides an accessible, cost-effective, and accurate solution for any researcher, especially those working on ecologically and evolutionarily important non-model species. It broadens the scope of what's possible in genomics.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
The results are excellent. When the Retriever-constructed panel is used with standard imputation software (Beagle), it consistently achieves >95% accuracy. We tested this across a diverse range of organisms, including plants, animals, and fungi.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
How it works: Retriever uses a sliding window approach across the genome. In each window, it identifies and retrieves segments from samples that have complete data. By stitching these complete segments together, it assembles a powerful, localized reference panel.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
Our solution: We created Retriever to build a "chimeric" reference panel directly from the target samples. It cleverly leverages the data you already have, eliminating the need for any external resources.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
The bottleneck: Standard imputation methods rely on a large, high-quality "reference panel" of completely sequenced genomes. Creating these panels is costly and time-consuming, making them unavailable for the vast majority of species (i.e., non-model organisms).
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
The problem: Genomic datasets, especially from next-gen sequencing, are often full of holes (missing genotypes). We can "impute" or infer this missing information, which is crucial for downstream analyses like GWAS. This process dramatically increases statistical power.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 02/10/2025
Excited to share our new paper in @GeneticsGSA ! We developed "Retriever," a novel method that enables high-quality genotype imputation in non-model organisms. 🧬 Congratulations to Charles on his first PhD paper! Paper: doi.org/10.1093/gene... A thread 🧵👇
doi.org
Chimeric Reference Panels for Genomic Imputation
Abstract. Despite transformative advances in genomic technologies, missing data remains a fundamental constraint that limits the full potential of genomic
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Matthew Cobb @matthewcobb.bsky.social · 08/09/2025
News in the history of molecular biology. The Science History Institute in Philadelphia has acquired a huge archive of correspondence and other scientific material from the pioneers of molecular biology (Franklin, Klug, Perutz, Delbrück etc, with items from Crick and Watson, too). 1/n
sciencehistory.org
History of Molecular Biology Collection
This unparalleled collection includes Rosalind Franklin's historic 'Photo 51,' which revealed the double-helix structure of DNA.
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David Pollock @genomesevolve.bsky.social · 03/09/2025
onlinelibrary.wiley.com/doi/epdf/10....
onlinelibrary.wiley.com
Ecological and Mutation‐Order Speciation in Senecio
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 04/09/2025
Teenagers who received fecal microbiota transplants (FMT) didn't lose more weight than controls, but showed better body composition, reduced inflammation, and improved metabolic health markers. Donor gut bacteria remained detectable 4 years later. Small study: needs replication before clinical use.
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Josh Luke Davis 🏳️‍🌈 @joshlukedavis.com · 03/09/2025
woah this is genuinely, utterly WILD Ant queens of one species produce males of another species, so she can then mate with them and produce hybrid workers! This is so gloriously weird I can't quite compute it 🤯🧪🐜 www.nature.com/articles/d41...
nature.com
‘Almost unimaginable’: these ants are different species but share a mother
Ant queens of one species clone ants of another to create hybrid workers that do their bidding.
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Merriam-Webster @merriam-webster.com · 03/09/2025
enshittification | noun | when a digital platform is made worse for users, in order to increase profits
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Paper: open access in Molecular Ecology (onlinelibrary.wiley.com/doi/epdf/10....
onlinelibrary.wiley.com
Ecological and Mutation‐Order Speciation in Senecio
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Methods in brief: controlled crosses (F1 seed set, germination), reciprocal transplants, phylogeny anchored by prior genomics, and a transparent model linking environment, genetic architecture, and DMI probability.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Take-home: convergent form does not guarantee genetic interchangeability. In heterogeneous landscapes, parallel solutions can be reproductively incompatible when combined.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Interpretation: divergent selection drives Dune–Headland barriers; heterogeneous Headlands plus polygenic adaptation yield alternative genetic solutions that sometimes clash.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Predictions: as φ decreases (environments diverge), the probability of incompatibilities rises; and as the number of interacting loci grows, incompatibilities accumulate faster. This provides one continuum linking ecological and mutation-order speciation.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Theory: we extend Unckless–Orr with (i) an environmental symmetry parameter φ (how similarly selection acts across sites) and (ii) polygenic architectures with interacting loci.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Field transplant reanalysis: in Dunes, non-locals perform much like locals (aligned selection). In Headlands, locals outperform non-locals (fine-scale heterogeneity). Together, these patterns explain compatibility in Dunes and idiosyncratic barriers among Headlands.
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Daniel Ortiz-Barrientos @dortizba.bsky.social · 03/09/2025
Ecology and phenotype checks: after controlling for genetic distance, isolation among Headlands doesn’t track measured soil chemistry or morphology in this dataset. Power is limited; unmeasured variables may still matter.
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