Deon de Jager
@ddj-sa.bsky.social
Postdoc at Globe Institute, University of Copenhagen | Wildlife genetics | Ancient DNA | Conservation | Birding | Sport. He/him. Opinions my own.
Pinned
Deon de Jager
@ddj-sa.bsky.social
· Feb 2
a woman says speculate wildly with her hands up in the air
Alt: A gif of Joan Callamezzo from Parks & Recreation saying speculate wildly with her hands up in the air
media.tenor.com
Our new #OpenAccess paper is out! Cape buffalo mitogenomics 🐃🧬 We found a highly divergent lineage in Addo Elephant National Park in #SouthAfrica, which has conservation implications! #congen
Where did it come from? We pull out a map & speculate wildly! Jk, more below...
doi.org/10.1002/ece3...
Where did it come from? We pull out a map & speculate wildly! Jk, more below...
doi.org/10.1002/ece3...
Reposted by Deon de Jager
Lessons learned: Recommendations for reproducible paleogenomic data analyses
www.cell.com/ajhg/abstrac...
www.cell.com/ajhg/abstrac...
Lessons learned: Recommendations for reproducible paleogenomic data analyses
Souilmi et al. propose essential guidelines to improve the reproducibility of paleogenomic
data analysis. As ancient DNA research often relies on the destructive sampling of
finite resources, these re...
www.cell.com
November 9, 2025 at 2:19 PM
Lessons learned: Recommendations for reproducible paleogenomic data analyses
www.cell.com/ajhg/abstrac...
www.cell.com/ajhg/abstrac...
Reposted by Deon de Jager
The latest issue of #G3journal features work from @trstngnthr.bsky.social, @amygoldberg.bsky.social, @jgschraiber.bsky.social, where they benchmarked methods for estimating ancestry proportions under mapping bias and present adjusted genotype-likelihoods to mitigate its impact. buff.ly/9ET69CA
October 30, 2025 at 6:04 PM
The latest issue of #G3journal features work from @trstngnthr.bsky.social, @amygoldberg.bsky.social, @jgschraiber.bsky.social, where they benchmarked methods for estimating ancestry proportions under mapping bias and present adjusted genotype-likelihoods to mitigate its impact. buff.ly/9ET69CA
Reposted by Deon de Jager
New job opportunity in our project!
Want to join us — or know someone who could?
More details coming soon.
The PhD will be supervised by Cristina Valdiosera and Colin Smith
#JobOpening #ERC #Spain #UBU #México #PhD #PhDposition #Mestizaje #stableisotopes
Want to join us — or know someone who could?
More details coming soon.
The PhD will be supervised by Cristina Valdiosera and Colin Smith
#JobOpening #ERC #Spain #UBU #México #PhD #PhDposition #Mestizaje #stableisotopes
October 16, 2025 at 4:20 PM
New job opportunity in our project!
Want to join us — or know someone who could?
More details coming soon.
The PhD will be supervised by Cristina Valdiosera and Colin Smith
#JobOpening #ERC #Spain #UBU #México #PhD #PhDposition #Mestizaje #stableisotopes
Want to join us — or know someone who could?
More details coming soon.
The PhD will be supervised by Cristina Valdiosera and Colin Smith
#JobOpening #ERC #Spain #UBU #México #PhD #PhDposition #Mestizaje #stableisotopes
Reposted by Deon de Jager
Our method, GENome EXogenous (GENEX) sequence detection, for identifying microbial-like regions in eukaryotic reference genomes is online in GigaScience track.smtpsendmail.com/9032119/c?p=...
October 4, 2025 at 9:20 AM
Our method, GENome EXogenous (GENEX) sequence detection, for identifying microbial-like regions in eukaryotic reference genomes is online in GigaScience track.smtpsendmail.com/9032119/c?p=...
Reposted by Deon de Jager
I had an idea—just a hunch, really— on how to link #Popgen and #eDNA.
I was lucky to be in a lab that embraced curiosity, open discussion, and let me run with it.
One year, many equations, and a few too many simulations later, here’s the result:
🧬 Preprint now live: doi.org/10.1101/2025...
I was lucky to be in a lab that embraced curiosity, open discussion, and let me run with it.
One year, many equations, and a few too many simulations later, here’s the result:
🧬 Preprint now live: doi.org/10.1101/2025...
Estimating Organism Abundance Using Within-Sample Haplotype Frequencies of eDNA Metabarcoding Data
Environmental DNA (eDNA) metabarcoding provides powerful insights into species presence and community composition, but remains limited in its ability to quantify species abundance or structure. Here, ...
doi.org
July 5, 2025 at 3:30 PM
I had an idea—just a hunch, really— on how to link #Popgen and #eDNA.
I was lucky to be in a lab that embraced curiosity, open discussion, and let me run with it.
One year, many equations, and a few too many simulations later, here’s the result:
🧬 Preprint now live: doi.org/10.1101/2025...
I was lucky to be in a lab that embraced curiosity, open discussion, and let me run with it.
One year, many equations, and a few too many simulations later, here’s the result:
🧬 Preprint now live: doi.org/10.1101/2025...
Reposted by Deon de Jager
I use BHL every single day in my research and teaching. I could not write my books or articles without it, I don't know what my students would do without it, and I would have to radically rethink my career without it. This is more critical with funding cuts. Please, please someone support BHL.
Foundations: please step up and take over the Biodiversity Heritage Library (BHL). This is an absolutely essential scanned archive of all of the old journals and books from the 1500s to about 1920. Has been indispensable for my research.
about.biodiversitylibrary.org/call-for-sup...
about.biodiversitylibrary.org/call-for-sup...
Call for Support: – About BHL
about.biodiversitylibrary.org
July 3, 2025 at 1:53 PM
I use BHL every single day in my research and teaching. I could not write my books or articles without it, I don't know what my students would do without it, and I would have to radically rethink my career without it. This is more critical with funding cuts. Please, please someone support BHL.
Reposted by Deon de Jager
In an unconscionable decision, the Smithsonian Institute has decided to no longer support the Biodiversity Heritage Library from 1 Jan 2026. Please someone step up and take it over.
Foundations: please step up and take over the Biodiversity Heritage Library (BHL). This is an absolutely essential scanned archive of all of the old journals and books from the 1500s to about 1920. Has been indispensable for my research.
about.biodiversitylibrary.org/call-for-sup...
about.biodiversitylibrary.org/call-for-sup...
Call for Support: – About BHL
about.biodiversitylibrary.org
July 2, 2025 at 3:56 PM
In an unconscionable decision, the Smithsonian Institute has decided to no longer support the Biodiversity Heritage Library from 1 Jan 2026. Please someone step up and take it over.
Reposted by Deon de Jager
GenDivRange: A global dataset of geo-referenced population genetic diversity across species ranges #popgen #consgen www.nature.com/articles/s41...
GenDivRange: A global dataset of geo-referenced population genetic diversity across species ranges - Scientific Data
Scientific Data - GenDivRange: A global dataset of geo-referenced population genetic diversity across species ranges
www.nature.com
June 16, 2025 at 5:38 AM
GenDivRange: A global dataset of geo-referenced population genetic diversity across species ranges #popgen #consgen www.nature.com/articles/s41...
Reposted by Deon de Jager
Everyone should know about GBIF. It's an international biodiversity data aggregator. Museum collections, apps like eBird and iNaturalist, published datasets from the technical literature, all in one place. www.gbif.org
GBIF
Global Biodiversity Information Facility. Free and Open Access to Biodiversity Data.
www.gbif.org
April 21, 2025 at 12:34 PM
Everyone should know about GBIF. It's an international biodiversity data aggregator. Museum collections, apps like eBird and iNaturalist, published datasets from the technical literature, all in one place. www.gbif.org
Reposted by Deon de Jager
Today was truly inspiring. Something happened that we’ve never seen before, you made noise in places that rarely see protests like this. Communities across traditionally conservative areas hosted historic turnouts.
April 19, 2025 at 11:16 PM
Today was truly inspiring. Something happened that we’ve never seen before, you made noise in places that rarely see protests like this. Communities across traditionally conservative areas hosted historic turnouts.
Reposted by Deon de Jager
Right Now, most of the American can relate to this message from the 90's.
April 19, 2025 at 3:28 PM
Right Now, most of the American can relate to this message from the 90's.
Reposted by Deon de Jager
If you have a public platform & spent years calming everyone down, telling us Trump was not a danger,was not racist, & arguing that the best way to deal w/Trump was to laugh at him, berated ppl who used the word fascist, insisted that the two parties are the same, admit YOU WERE WRONG.
April 20, 2025 at 2:13 AM
If you have a public platform & spent years calming everyone down, telling us Trump was not a danger,was not racist, & arguing that the best way to deal w/Trump was to laugh at him, berated ppl who used the word fascist, insisted that the two parties are the same, admit YOU WERE WRONG.
Reposted by Deon de Jager
If you're struggling to keep all of the different immigration/deportation cases straight, I've got a post for you: open.substack.com/pub/joycevan...
April 20, 2025 at 2:44 AM
If you're struggling to keep all of the different immigration/deportation cases straight, I've got a post for you: open.substack.com/pub/joycevan...
Reposted by Deon de Jager
The Natural History Museum Denmark is hiring a new Tenure-Track Assistant Professor and Curator of (Vertebrate) Palaeontology! Could it be you or someone you know‽ spread the word! Really excited to have a new colleague to work on our amazing collections! 🧪🏛️
candidate.hr-manager.net/ApplicationI...
candidate.hr-manager.net/ApplicationI...
211-0238/25-2N Tenure-track Assistant Professor and Curator of Paleontology
Tenure-track Assistant Professor and Curator in Paleontology Natural History Museum Denmark Faculty of Science University of Copenhagen The Natural History Muse
candidate.hr-manager.net
April 10, 2025 at 7:23 AM
The Natural History Museum Denmark is hiring a new Tenure-Track Assistant Professor and Curator of (Vertebrate) Palaeontology! Could it be you or someone you know‽ spread the word! Really excited to have a new colleague to work on our amazing collections! 🧪🏛️
candidate.hr-manager.net/ApplicationI...
candidate.hr-manager.net/ApplicationI...
Many, if not most, of us depend on open, accessible research infrastructure to do our work and improve the world around us. But political support for such systems is not always there, or can change rapidly - consider signing below mitigate some that risk.
investinopen.org/blog/stateme...
investinopen.org/blog/stateme...
Statement of support for a global research ecosystem
Our global research ecosystem is at risk — it's time to invest in the tools and services that power research and scholarship.
investinopen.org
March 24, 2025 at 8:57 PM
Many, if not most, of us depend on open, accessible research infrastructure to do our work and improve the world around us. But political support for such systems is not always there, or can change rapidly - consider signing below mitigate some that risk.
investinopen.org/blog/stateme...
investinopen.org/blog/stateme...
Reposted by Deon de Jager
Analysis of #IUCNRedList data on 67,217 animal spp, by @ashsimkins.bsky.social @billsutherland.bsky.social &co, reveals that a range of #conservation actions successfully conserved species at greatest risk of extinction, but rarely resulted in full recovery 🧪 @plosbiology.org plos.io/3XUzEDd
March 19, 2025 at 9:20 AM
Analysis of #IUCNRedList data on 67,217 animal spp, by @ashsimkins.bsky.social @billsutherland.bsky.social &co, reveals that a range of #conservation actions successfully conserved species at greatest risk of extinction, but rarely resulted in full recovery 🧪 @plosbiology.org plos.io/3XUzEDd
Reposted by Deon de Jager
A fantastic, critical and accurate piece on the 🦣mammoth de-extinction claims from Colossal, sparked by the woolly mice we’ve been seeing these days on the news. Some sentences are gold 👇🏽
www.theguardian.com/commentisfre...
✍️ by @adamrutherford.bsky.social
www.theguardian.com/commentisfre...
✍️ by @adamrutherford.bsky.social
Reviving the woolly mammoth isn’t just unethical. It’s impossible | Adam Rutherford
At a time when US scientists are under attack from their own government, the illiteracy around these elephantine fantasies is dangerous, says geneticist Adam Rutherford
www.theguardian.com
March 7, 2025 at 10:36 AM
A fantastic, critical and accurate piece on the 🦣mammoth de-extinction claims from Colossal, sparked by the woolly mice we’ve been seeing these days on the news. Some sentences are gold 👇🏽
www.theguardian.com/commentisfre...
✍️ by @adamrutherford.bsky.social
www.theguardian.com/commentisfre...
✍️ by @adamrutherford.bsky.social
Reposted by Deon de Jager
On 21st of March we'll have a feedback session with MInAS to talk about animal #aDNA metadata and reporting. If you are producing ancient animal data, please join @ddj-sa.bsky.social and Ophélie Lebrasseur on the conversation to set up proper metadata standards. www.animal-adna.org/events/2025/...
March 7, 2025 at 2:10 PM
On 21st of March we'll have a feedback session with MInAS to talk about animal #aDNA metadata and reporting. If you are producing ancient animal data, please join @ddj-sa.bsky.social and Ophélie Lebrasseur on the conversation to set up proper metadata standards. www.animal-adna.org/events/2025/...
Reposted by Deon de Jager
Ecology & biodiversity folks! Reply to this post to join the science feed!
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ℹ️ DM only if anonymous account
🧪🌏
Checklist to help with verification
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✅ Profile description not empty
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✅ Link to orcid, scholar, RG profile, etc, in the reply
ℹ️ DM only if anonymous account
🧪🌏
November 23, 2024 at 3:36 PM
Ecology & biodiversity folks! Reply to this post to join the science feed!
Checklist to help with verification
✅ Have posted a few times already
✅ Profile description not empty
✅ Have a profile picture
✅ Link to orcid, scholar, RG profile, etc, in the reply
ℹ️ DM only if anonymous account
🧪🌏
Checklist to help with verification
✅ Have posted a few times already
✅ Profile description not empty
✅ Have a profile picture
✅ Link to orcid, scholar, RG profile, etc, in the reply
ℹ️ DM only if anonymous account
🧪🌏
Reposted by Deon de Jager
“Operation Whirlwind”
What’s Happening Now?
In 2025, Operation Whirlwind was launched under Interim U.S. Attorney Ed Martin to investigate alleged threats against employees of the Department of Government Efficiency (DOGE).
What’s Happening Now?
In 2025, Operation Whirlwind was launched under Interim U.S. Attorney Ed Martin to investigate alleged threats against employees of the Department of Government Efficiency (DOGE).
February 22, 2025 at 6:46 PM
“Operation Whirlwind”
What’s Happening Now?
In 2025, Operation Whirlwind was launched under Interim U.S. Attorney Ed Martin to investigate alleged threats against employees of the Department of Government Efficiency (DOGE).
What’s Happening Now?
In 2025, Operation Whirlwind was launched under Interim U.S. Attorney Ed Martin to investigate alleged threats against employees of the Department of Government Efficiency (DOGE).
Reposted by Deon de Jager
Interested in a project in the intersection of ancient DNA and Deep Learning for characterizing genetic variation? Do send a DM. Thank your for your RT!
January 5, 2025 at 12:27 AM
Interested in a project in the intersection of ancient DNA and Deep Learning for characterizing genetic variation? Do send a DM. Thank your for your RT!
Reposted by Deon de Jager
Check out our new method for summarising BEAST trees. The CCD0-MAP tree gives much more accurate results than MCC tree. It returns the tree that maximises the product of sampled clade probabilities regardless of whether that tree was sampled. Highly recommend :)
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Accurate Bayesian phylogenetic point estimation using a tree distribution parameterized by clade probabilities
Author summary Our research introduces novel methods to analyse a set of phylogenetic tree topologies, such as those generated by Bayesian Markov Chain Monte Carlo algorithms. We define a new model fo...
journals.plos.org
February 14, 2025 at 5:53 AM
Check out our new method for summarising BEAST trees. The CCD0-MAP tree gives much more accurate results than MCC tree. It returns the tree that maximises the product of sampled clade probabilities regardless of whether that tree was sampled. Highly recommend :)
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Reposted by Deon de Jager
Not true. I'll give you some examples of when styles crossed over from womenswear to menswear, and how men have worn straight-up womenswear or just feminine styles in cool ways. 🧵
February 16, 2025 at 6:10 AM
Not true. I'll give you some examples of when styles crossed over from womenswear to menswear, and how men have worn straight-up womenswear or just feminine styles in cool ways. 🧵
Reposted by Deon de Jager
New paper out! 📄
My first adventures in (ancient) metagenomics. 🦠
“Exploring DNA degradation in situ and in museum storage through genomics and metagenomics” www.nature.com/articles/s42...
Curious about the water color painting (see ALT text)? 🦌
Thread (Bluetorial?) with findings!
🧶👇 (1/n)
My first adventures in (ancient) metagenomics. 🦠
“Exploring DNA degradation in situ and in museum storage through genomics and metagenomics” www.nature.com/articles/s42...
Curious about the water color painting (see ALT text)? 🦌
Thread (Bluetorial?) with findings!
🧶👇 (1/n)
February 12, 2025 at 1:05 PM
New paper out! 📄
My first adventures in (ancient) metagenomics. 🦠
“Exploring DNA degradation in situ and in museum storage through genomics and metagenomics” www.nature.com/articles/s42...
Curious about the water color painting (see ALT text)? 🦌
Thread (Bluetorial?) with findings!
🧶👇 (1/n)
My first adventures in (ancient) metagenomics. 🦠
“Exploring DNA degradation in situ and in museum storage through genomics and metagenomics” www.nature.com/articles/s42...
Curious about the water color painting (see ALT text)? 🦌
Thread (Bluetorial?) with findings!
🧶👇 (1/n)
Reposted by Deon de Jager
'Education is Resistance' - quoted from a heartfelt essay in @londonreview.bsky.social by Malaka Shwaikh.
Masters scholarships for Palestinian students at Sussex. Please disseminate?
www.sussex.ac.uk/broadcast/re...
www.sussex.ac.uk/broadcast/re...
University announces new scholarships for Palestinian students
These scholarships will provide fully-funded support for two Palestinian students, with a particular focus on those impacted by the conflict in Gaza
www.sussex.ac.uk
February 13, 2025 at 12:51 PM
'Education is Resistance' - quoted from a heartfelt essay in @londonreview.bsky.social by Malaka Shwaikh.