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Luke E Holman

@lukeeholman.bsky.social
654 followers 858 following 27 posts

PostDoc at the Globe Institute, Copenhagen | #biodiversity | #invasions | #eDNA | #OceanOptimist | 🏔️ 🌊 ☕️ 👨‍💻 📈

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Reposted by Luke E Holman
Naiara Rodriguez-Ezpeleta @naiarare.bsky.social · 02/02/2026
New paper by Cristina Claver (@azti.bsky.social), published in @icesmarine.bsky.social JMS. We combine #eDNA and acoustic-trawl data in a Bayesian joint model to estimate biomass of the European anchovy in the Bay of Biscay. From the potential of eDNA to operational use 🔗 doi.org/10.1093/ices...
doi.org
Integrating eDNA and acoustic-trawl data to provide small pelagic biomass estimates for fish stock assessment
Abstract. Accurate abundance estimates of fisheries resources are essential for sustainable fisheries management. In response to the growing need for devel
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Centre d'Estudis Avançats de Blanes (CEAB-CSIC) @ceabcsic.bsky.social · 13/01/2026
🧬📘 New publication! "Invasion Genomics" explores how genomic techniques and data are revolutionising the study of biological invasions. ✍️ by @dan_g_bock and @riuslab.bsky.social 👇https://www.cabidigitallibrary.org/doi/10.1079/9781800626263.0000
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Ann Aguirre @annaguirre.bsky.social · 17/12/2025
I do not want your AI slop I do not want it in my mop I do not want it in my house I do not want it in my mouse I do not like brain-rotting AI spam I do not want it, Sam Alt-man
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Mick Westbury @mick2474.bsky.social · 09/09/2025
🦣🍖🧬 Fully funded 3-yr PhD in palaeogenomics & bioinformatics! Help me push non-model palaeogenomes beyond their limits @DTU in Denmark. Start: Feb 2026 (flexible) Application deadline: 24 Oct 2025 For details click here: tinyurl.com/BioExtPhD Reposts appreciated 😁
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Royal Society Publishing @royalsocietypublishing.org · 19/08/2025
In this blog post, Guest Editor Dr Luke Holman discusses their recent #PhilTransB issue, 'Shifting seas: understanding deep-time human impacts on #marine ecosystems': royalsociety.org/blog/2025/08...
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Luke E Holman @lukeeholman.bsky.social · 13/08/2025
Some thoughts on how our recent theme issue came together
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Big Hippo 🇮🇪 @bighippoart.bsky.social · 16/07/2025
Here's an illustration I did for the Royal Society Publishing journal and their special release "The shifting seas". It was great fun to work on this hugely educational piece and I wanted to thank @lukeeholman.bsky.social in particular for giving me this opportunity 😊
A marine illustration featuring two contrasting marine ecosystems in one perspective.
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Luke E Holman @lukeeholman.bsky.social · 17/07/2025
Thank you so much for your beautiful art. You really captured how humanity has challenged the oceans, while also providing hope for future flourishing seas through recovery and restoration. 🌊
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Reposted by Luke E Holman
Royal Society Publishing @royalsocietypublishing.org · 10/07/2025
New theme issue of #PhilTransB out today ‘Shifting seas: understanding deep-time human impacts on #marine #ecosystems’. Read here: royalsocietypublishing.org/toc/rstb/202...
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
🔗 doi.org/10.1098/rstb.2024.0026
doi.org
Shifting seas: understanding deep-time human impacts on marine ecosystems | Philosophical Transactions of the Royal Society B: Biological Sciences
Humans have interacted with, and impacted, marine ecosystems for millennia. During this time, the oceans have experienced ecosystem degradation through harvesting, habitat change, pollution, the introduction of invasive species and climate change. Despite ...
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
Thank you to all the amazing authors who trusted us with their research. Not to mention our wonderful artists Jacek Matysiak (www.instagram.com/big.hippo.art/) and Maddy Dall (www.instagram.com/maddydall/) who brought the issue to life with their beautiful illustrations.
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
Contributions use bones 🦴, shells 🐚, old catch records 📜, logbooks 📖, marine sediments 🧪 & more to reach before monitoring began. Using stable isotopes 🧬, ancient DNA 🧫, ecosystem models 🌍 & other tools, they reveal fresh insights into our impact on the seas 🌊.
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
My amazing co-guest editors @ruththurstan.bsky.social @kbohmann.bsky.social @mikkelwp.bsky.social @tangeolsen.bsky.social & non-Bskyers Ol Craig, David Orton, James Scourse and I found only enthusiasm and interest from our networks - the amazing research rolled in!
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
There wasn’t an obvious place to bring together data from archaeology 🏺, ecology 🌿, and marine geology 🌊… Then I saw a call from @royalsocietypublishing.org 📣 for theme issues — and suddenly, everything clicked! 💡🧩
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
A couple of years ago we were beginning to see exciting interdisciplinary datasets coming out of @erc.europa.eu 🌍 @seachange-erc.bsky.social 🌊. It was amazing to begin to understand the complex dance of climate 🌡️, humans 🧍‍♂️🧍‍♀️, and marine biodiversity 🐟🪸 across centuries! ⏳✨
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Luke E Holman @lukeeholman.bsky.social · 10/07/2025
🐚 Out today “Shifting Seas – Understanding Deep-Time Human Impacts on Marine Ecosystems.” 🌊 A theme issue asking how, when, and where humans have impacted oceans over millennia. 🔗 doi.org/10.1098/rstb.2024.0026 🧶 below on how it came to life!...
doi.org
Shifting seas: understanding deep-time human impacts on marine ecosystems | Philosophical Transactions of the Royal Society B: Biological Sciences
Humans have interacted with, and impacted, marine ecosystems for millennia. During this time, the oceans have experienced ecosystem degradation through harvesting, habitat change, pollution, the introduction of invasive species and climate change. Despite ...
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Reposted by Luke E Holman
Oceans Past Initiative @oceanspast.bsky.social · 30/05/2025
New paper out now in @natcomms.nature.com! Multiproxy analysis reveals the earliest evidence of whale bone working and broadens the range of taxa known to have been used in the Bay of Biscay during the Late Paleolithic 🐋 Paper 🔗 www.nature.com/articles/s41...
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Jake Holland-Lulewicz @archaeojake.bsky.social · 27/03/2025
Did you know that most 18/19thC coastal plantations were located at places where the largest Indigenous towns once stood centuries earlier? A great example of how deep-time land use practices create legacies that drive future, cumulative human-ecosystem engagements. 🔗 www.nature.com/articles/s43...
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Mick Westbury @mick2474.bsky.social · 10/04/2025
Did llamas make it to southeast South America before Europeans? 🦙 Our manuscript used #archaeology, isotopes, and palaeogenomics #aDNA to find out 🦙🦴🧬 In summary, nope. Just guanacos hanging on into early historical times. Read it here: authors.elsevier.com/c/1kvQy,rVDB... Reposts appreciated 😁
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
🙌 Thanks to amazing co-authors @kbohmann.bsky.social sky.social, @mikkelwp.bsky.social @seachange-erc.bsky.social, many others not on 💙☁️, & our funders @erc.europa.eu. Dive into the full study here: doi.org/10.1111/1755... Lots more detail in the supplements!
doi.org
Navigating Past Oceans: Comparing Metabarcoding and Metagenomics of Marine Ancient Sediment Environmental DNA
The condition of ancient marine ecosystems provides context for contemporary biodiversity changes in human-impacted oceans. Sequencing sedimentary ancient DNA (sedaDNA) is an emerging method for gene...
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
💡 Some takeaways: Different eDNA methods give us different snapshots of ancient biodiversity. Interpret ancient records with care —methodological biases can shape ecological conclusions. When your material crosses 2-4k years BP be careful interpreting alpha diversity changes.📝
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
📊 Consistent beta diversity Despite the richness differences, both methods produced similar beta diversity patterns, highlighting consistent shifts in community composition over time. Phew!
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
📉 Very different richness across methods!📉 Our results showed opposing alpha diversity trends: • Metabarcoding = lower ASV richness in older sediments • Metagenomics = lower genus richness in younger sediments A clear reminder that the method truly matters! 🎯
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
🔍 What taxa overlapped? 🔍 We found that only 3 metazoan genera overlapped between methods: • Oikopleura (larvacean) • Gadus (cod) • Clupea (herring) (+ 🌿seagrass🌿) Interestingly we found that only metagenomics provided reliable detections beyond 4k years for all taxa.
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
🔬 What did we do?🔬 We sampled a long (30m+), old (20y+) marine sediment core from the Skagerrak, North Sea, performing 18S(v9) metabarcoding and shotgun-metagenomic sequencing to see what these very different techniques tell us about ancient oceans.
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Luke E Holman @lukeeholman.bsky.social · 21/02/2025
🚀 Excited to share our new paper: “Navigating Past Oceans: Comparing #Metabarcoding and #Metagenomics of Marine Ancient Sediment eDNA” DOI: doi.org/10.1111/1755... We dive into 8,000 years of marine life from Skagerrak sediments to show what different tools tell us about past #oceans! 🌊🧬
doi.org
Navigating Past Oceans: Comparing Metabarcoding and Metagenomics of Marine Ancient Sediment Environmental DNA
The condition of ancient marine ecosystems provides context for contemporary biodiversity changes in human-impacted oceans. Sequencing sedimentary ancient DNA (sedaDNA) is an emerging method for gene...
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
We have so much more to do to support women in STEM! 👩‍🔬 Here at GLOBE, across Danish academia🇩🇰, and around the 🌍 🚀 Follow these great women, read & cite their work, and stay aware of the biases that can make us miss out on talented researchers & amazing collaborators! 💙 #WomenInSTEM #EquityInScience
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
Finally, the super talented Lene Bruhn Pedersen! 🧪✨ Her lab skills are crucial to keeping our projects running. 🔬💡 Lene is looking for new opportunities in Copenhagen as our project wraps up. If you need the best lab tech in town, reach out! 👀📢 🔗 More about Lene: seachange-erc.eu/people/lene_...
seachange-erc.eu
People - Seachange
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
Working with us on @seachange-erc.bsky.social, we’re lucky to have Giulia Zampirolo! 🧬✨ She brings deep expertise in ancient metagenomics to help us decode past oceans. 🌊 📢 Her latest paper: 🔗 doi.org/10.1016/j.cu... 👀 More about Giulia (not on bluesky) 🔗 seachange-erc.eu/people/giuli...
seachange-erc.eu
People - Seachange
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
Next up, the fantastic Kristine Bohmann! 🧬✨ A metabarcoding & eDNA wizard who is simultaneously: 🌊🔍 PI of @seachange-erc.bsky.social (@erc.europa.eu) 🌬️🦠 Leading the airDNA project (DFF) 🧪🌍 Heading the eDNA group at GLOBE Follow her for top-notch eDNA research! 🚀💡 🔗 @kbohmann.bsky.social
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
Firstly, 🔬 Christina Lynggaard is pioneering novel ways to understand biodiversity 🌿 while bringing a #OneHealth 🩺🌍 perspective to tackle tricky problems in ecology and beyond! 🚀✨ 🔗 @christinalynggaard.bsky.social
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Luke E Holman @lukeeholman.bsky.social · 11/02/2025
🎉 Today is International Day of Women and Girls in Science! 🔬👩‍🔬✨ 🌍🚀 I’m incredibly lucky to work with some amazing women in science! 💙 If you’re not following these fantastic researchers yet, you definitely should! 📢 🔗 www.un.org/en/observanc... #WomenInScience #STEM #RepresentationMatters
un.org
International Day of Women and Girls in Science | United Nations
The purpose of the day is to achieve full and equal access to and participation in science for women and girls.
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Andi Wilson, PhD @drandiwilson.bsky.social · 11/02/2025
Happy #InternationalDayofWomenandGirlsinScience 👩‍🔬 May your experiments work, may your research be impactful, and may those papers be accepted with minor revision 🧬
A gif with the text "International Day of Women and Girls in Science. It shows women doing different kinds of science.
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Luke E Holman @lukeeholman.bsky.social · 06/02/2025
scholar.google.com/citations?us... :)
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Marie Jaros @mariejaros.bsky.social · 29/01/2025
#Moonfish, caught by a dutch fisherman in 1560 and drawn by Adriaen #Coenen, fishmonger and author of three 'fish books' Moonfish/ #Sunfish are rare in the North Sea. Three(!) are recorded 1560-83 1/6 🖼️https://galerij.kb.nl/kb.html#/nl/visboek/page/154/zoom/2/lat/-59.355596110016315/lng/20.7421875
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Ian Marshall @ianpgm.bsky.social · 29/01/2025
Today I'm accepting the inevitable reality of students using generative AI in my course and helping them navigate it
Use of Generative AI in the genomics module
Computer programming – generating linux code, R code, etc. - green light
Writing tool – improving readability, structure, grammar of report - amber light
Planning out your presentation - amber light
AI art for presentations – no need for “art” in a scientific presentation - red light
Finding references – either hallucinations or vastly insufficient - red light
Factual information – AI makes serious mistakes about niche subjects - red light

Remember to always disclose any use of AI in whatever you submit!






Also what to think about when using generative AI tools…
Am I becoming dependent on a commercial tool that may start to cost money or otherwise be taken away from me?
Where did the training data come from (were the authors informed or compensated?)
What is the agenda of the people who made this tool, and how can this affect its operation?
 Where is my data going? (USA, China?) Are there protections in place to prevent it being misused?
How much energy and other resources are going into my AI use? Is this consistent with other choices I make in my life (e.g. transportation, food etc.)
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Luke E Holman @lukeeholman.bsky.social · 12/12/2024
Loved this fascinating review from @ejmilnergulland.bsky.social @juliajones.bsky.social & many i cant find on Bluesky. We in #eDNA world would do well to look up and out thinking about how our work might meaningfully bend the biodiversity curve.... royalsocietypublishing.org/doi/10.1098/...
royalsocietypublishing.org
What is a unit of nature? Measurement challenges in the emerging biodiversity credit market | Proceedings of the Royal Society B: Biological Sciences
Bending the curve of biodiversity loss requires the business and financial sectors to disclose and reduce their biodiversity impacts and help fund nature recovery. This has sparked interest in develop...
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Luke E Holman @lukeeholman.bsky.social · 04/12/2024
Very shortsighted change, New Zealand risks becoming isolated and alone in their approach to funding... Utility, prosperity and innovation are tricky to predict and come from across academic disciplines!
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Loïc Pellissier @loicpellissier.bsky.social · 02/12/2024
Tired of NMDS and other ordinations methods to represent your #eDNA metabarcoding data, consider using this approach: besjournals.onlinelibrary.wiley.com/doi/full/10....
besjournals.onlinelibrary.wiley.com
A spatial matrix factorization method to characterize ecological assemblages as a mixture of unobserved sources: An application to fish eDNA surveys
Understanding how ecological assemblages vary in space and time is essential for advancing our knowledge of biodiversity dynamics and ecosystem functioning. Metabarcoding of environmental DNA (eDN...
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Luke E Holman @lukeeholman.bsky.social · 28/11/2024
Nice job! I'd like to be added too if possible?
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Space @redditspaceviewes.bsky.social · 25/11/2024
Hubble Vs James Webb
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Matthew A. Barnes @drbarnes.org · 28/11/2023
Interesting, thoughtful perspective on #eDNA from Elaine Shen link.springer.com/article/10.1...
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Luke E Holman @lukeeholman.bsky.social · 31/10/2023
I like the feed here much better! Happy to join :)
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