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James Orr

@jamesaorr.bsky.social
1.3K followers 892 following 29 posts

DECRA fellow at the University of Queensland | microbial ecology, theoretical ecology, multiple stressors, community dynamics | jamesaorr.github.io

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Reposted by James Orr
Oxford Biology @biology.ox.ac.uk · 24/09/2026
Congratulations to Michelle Jackson, who has been awarded the Marsh Award for Ecology in the 2026 @britishecologicalsociety.org awards! Her research has advanced understanding of biodiversity dynamics, reshaping perspectives on community assembly and species interactions 👇
bit.ly
Dr Michelle Jackson receives Marsh Award for Ecology 2026
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Siobhán O'Brien @siderophile.bsky.social · 21/08/2026
And that’s a wrap on #MENI2026! What a great day of microbial evolution research, and a pleasure to host at Trinity with @paulinedscanlan.bsky.social
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Nessa O'Connor @nessocon.bsky.social · 20/08/2026
We are recruiting 4 Postdoctoral Fellows! 🌊🌊🌊 Applications are open now! Deadline is 10th October 2026. More details and updates here: climate-hub.ie/msdm/ #postdoc #marine #MarieSkłodowska-Curie #MarineLife!
climate-hub.ie
Marine Species Distribution Modelling – AIB Trinity Climate Hub
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Siobhán O'Brien @siderophile.bsky.social · 05/08/2026
New paper with @kelbrick.bsky.social and @jpjhall.bsky.social - we show that fungicides select for multidrug resistant bacteria in soil via shared resistance mechanisms (efflux) onlinelibrary.wiley.com/doi/10.1111/...
onlinelibrary.wiley.com
Fungicide Drives <fi>De Novo</fi> Evolution of Multidrug Resistance in the Plant Growth Promoting Rhizobacterium, <fi>Pseudomonas fluorescens</fi>
Soil microbial communities underpin key ecosystem processes, including plant health, nutrient cycling and primary productivity. In agricultural soils, beneficial soil bacteria are often exposed to mu...
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Siobhán O'Brien @siderophile.bsky.social · 29/07/2026
We rely on healthy soil microbial communities to support ecosystem functioning and plant growth, but what happens when soils are exposed to multiple environmental stressors simultaneously? Spoiler: it's not good doi.org/10.1093/isme...
academic.oup.com
Fungicide and warming interact to reduce soil ecosystem functioning
Abstract. Soil microbial communities are essential to the functioning of their ecosystems, providing vital services such as plant growth promotion and bior
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James Orr @jamesaorr.bsky.social · 01/08/2026
One of ecology’s oldest questions - how does population growth change as density increases? - remains surprisingly contentious. In our new @plosbiology.org paper we contribute to the ongoing debate by applying the idea of “Growth-Density Inversion”: doi.org/10.1371/jour.... 1/6
doi.org
Growth-density inversion in Escherichia coli reveals superlinear, not sublinear, density dependence
Sublinear density dependence has been widely reported empirically, but this is at odds with resource competition theory. This study uses a tightly controlled test in a microbial model system to reveal...
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Reposted by James Orr
PLOS Biology @plosbiology.org · 20/07/2026
Sublinear #DensityDependence is widely reported empirically, but is at odds with theory. @jamesaorr.bsky.social &co use a tightly controlled test in a microbial model system to reveal superlinear density dependence, so aligning empirical evidence with theory @plosbiology.org 🧪 plos.io/4vwAmEZ
Top: Schematic of the empirical application of growth-density inversion, where the classic density dependence perspective (blue) is inverted (green) to overcome the challenges of manipulating densities. The authors first parametrised a consumer-resource model using batch culture growth assays (Approach 1) and performed growth-density inversion analytically (Box 1). Then, in a model-free empirical implementation of growth-density inversion, they experimentally manipulated harvest rate and quantified densities at equilibrium by varying the dilution rate in a chemostat system (Approach 2). Bottom left: Parametrised Monod growth function with 100 posterior draws representing uncertainty. The inset shows the analytical prediction for the density dependence of this parametrised consumer–resource model. Bottom right: Inverse-logistic model fitted to the experimental data with 95% credible intervals. Inset shows the same data and model with axes inverted to give the classic density dependence perspective.
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Joshua Weitz @joshuasweitz.bsky.social · 15/07/2026
Bacteriophage continue to have so much to teach us. It's in our interest to understand how they work and impact human & environmental health. New joint work led by @mariandm.bsky.social & @rantahan.bsky.social inferring single-cell latent period & burst size heterogeneity from population dynamics.
science.org
Inferring single-cell heterogeneity of bacteriophage lysis-associated life-history traits from population-scale dynamics
Theory-guided experiments reveal single-cell heterogeneity of lysis-associated bacteriophage traits from population scale data.
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Kayla King, Ph.D. @kayla-king.bsky.social · 24/06/2026
Evolutionary rescue in a phage community! New paper from former PhD student, Sam Greenrod, with brilliant colleague @craigmaclean.bsky.social : academic.oup.com/ismej/advanc...
academic.oup.com
Rapid adaptation accelerates competitive suppression in a parasite community
Abstract. Environmental stress leads to changes in community composition by altering competitive hierarchies and pushing taxa towards extinction. Parasites
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Sara Mitri @saramitri.bsky.social · 16/06/2026
Eye-opening work by @olimeacock.bsky.social (former postdoc, now PI in Sheffield). He presents an exact mapping from steady-state consumer-resource to generalized Lotka-Volterra models, revealing that cross-feeding can lead to competition for other limiting resources. Feedback pls!
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Natalie Cooper @nhcooper123.bsky.social · 03/06/2026
Excited to share our new paper in @methodsinecoevol.bsky.social on data and code archiving at @britishecologicalsociety.org journals. TL;DR: Data archiving rates are high, code archiving rates are low, documentation needs to be improved! besjournals.onlinelibrary.wiley.com/doi/full/10.....
besjournals.onlinelibrary.wiley.com
Data‐ and code‐archiving in the British Ecological Society journals: Present status and recommendations for future improvements
Data- and code-archiving are important components of open science, as both make research more transparent, reproducible, accountable and credible, allowing future researchers to build on previous ...
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Lyndsay Walsh @lyndsayfw.bsky.social · 21/05/2026
A common complaint many people have about wind turbines: they don't like the look of them. But what lies beneath that dislike? Read more here: substack.com/home/post/p-...
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Britt Koskella @bkoskella.bsky.social · 19/05/2026
Please share widely! Abstract submissions open for the 2026 Jacques Monod conference: Ecology and evolution of host-parasite interactions in a changing world! Held in beautiful Roscoff France from November 2- 6, 2026. Abstracts submission deadline : June 6 cjm.sb-roscoff.fr/en/conferenc...
cjm.sb-roscoff.fr
Ecology and evolution of host-parasite interactions in a changing world | CNRS - Conférences Jacques Monod (CJM)
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Lyndsay Walsh @lyndsayfw.bsky.social · 18/05/2026
Was great to be at the @hometreecharity.bsky.social conference last week! Not the usual suspects in the room, which made for some interestingly left-field discussions. These events are really important and they actually run it at a loss - so fair play to them for creating the space. Some thoughts 👇
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Daniel Padfield @padpadpadpad.bsky.social · 30/03/2026
PLEASE SHARE. PhD Opportunity with me, Ben Raymond and Jan Engelstaedter and Andrew Letten at University of Queensland. Experimentally testing mechanisms of how temperature may change selection and spread of AMR in E. coli. Coupled with some advanced modelling and sequencing. 🧪🦠 #microsky
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Guim Aguadé-Gorgorió @guimaguade.bsky.social · 19/03/2026
The first Eco-Onco Exchange seminar has been postponed by one week, to Apr 22nd! Register here: forms.gle/B77tZmyzCzmp...
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Nessa O'Connor @nessocon.bsky.social · 26/02/2026
great summary of our newest paper - led by Abby Gilson #seaweed #MarineLife 🦑 #AlgalAwesomeness! #oceanfarmers
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Siobhán O'Brien @siderophile.bsky.social · 18/02/2026
MENI is back! Join us in Dublin this August 2026 for our 3rd Meeting for Microbial Evolution in Ireland. We are delighted to have @rachelmwheatley.bsky.social @drrebeccajhall.bsky.social @jpjhall.bsky.social and @tweethinking.bsky.social join us as keynote speakers this year. miniurl.com/MENI
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Benjamin Rosenbaum @benrosenbaum.bsky.social · 15/12/2025
New paper by Laurie Wojcik et al. where we show that response to a pulse perturbation has a hump-shaped relationship with top-down control royalsocietypublishing.org/rspb/article...
royalsocietypublishing.org
Top-down control and species composition influence nonlinearly the short-term response of experimental food webs to a nutrient pulse perturbation
Abstract. Extreme weather events intensify with global change and frequently disturb aquatic ecosystems via, e.g. nutrient pulses through surface runoff. W
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Jeremy Barr @jeremyjbarr.bsky.social · 15/10/2025
Very excited to share the latest work from our lab, which was published today in Nature! nature.com/articles/s41... PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
nature.com
Isolation, engineering and ecology of temperate phages from the human gut - Nature
Human host-associated cellular products may act as induction agents for bacteriophages.
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Markus Eichhorn @markuseichhorn.bsky.social · 03/10/2025
This is a real loss. Few people did as much as Manchán Magan to connect the Irish landscape to its language and culture. His books are impressive works of accessible scholarship and will hopefully be read for many years to come. #SpeirGorm
rte.ie
Broadcaster and scríbhneoir Manchán Magan dies aged 55
The writer, broadcaster and documentary maker Manchán Magan has died at the age of 55, his family has confirmed.
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Daniel Padfield @padpadpadpad.bsky.social · 16/09/2025
I have an MRC-funded PhD project available (www.exeter.ac.uk/study/fundin...) on how warming will change the problem of AMR. Join a small and friendly group (padpadpadpad.netlify.app/about) in (sometimes) sunny Cornwall. 🧪🦠 #microsky Please share the ad below with anyone who may be interested.
A teal flyer for a PhD opportunity to investigate how warming may change antimicrobial resistance. The project will use experiments on Klebsiella bacteria to answer questions about how temperature affects their response to antibiotics, plasmid transfer, and fitness costs. The research involves microbiology lab work, bioinformatics, and mathematical modeling. The flyer includes contact details for Dr. Daniel Padfield and the logos of the sponsoring institutions.
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Ecotoxicology lab RC One Health Ruhr @ecotox.bsky.social · 12/08/2025
Check out this new article on null model selection for multiple stressor research. Fantastic work by Iris Pimentel from @leeselab.bsky.social within the @crc-resist.bsky.social. Freely available at: dx.doi.org/10.1002/ece3...
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Nigel Monaghan @nigelmonaghan-nh.bsky.social · 13/08/2025
Wolves were treated as a threat to livestock and hunted to extinction in Ireland, aided by bounties. Portrait of John Watson with hound at his side and skin of ‘last wolf in Ireland’ 1786 under their feet. Royal Dublin Society collection #InternationalWolfDay
Man seated, in red coat, white trousers and black boots. Dog sitting to left with head on man’s knee. Skin of wolf on floor under their feet
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Ecotoxicology lab RC One Health Ruhr @ecotox.bsky.social · 12/08/2025
Was great to attend a Summer Academy of the Studienstiftung des Deutschen Volkes. Really creative and clever students - enjoyed the seminar with the students and felt honored to give an evening talk in such a nice location on trends in insect populations. #Neubeuern #Studienstiftung #Insectdecline
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Meaghan Castledine @mcastd.bsky.social · 05/08/2025
Want to name a real virus? I have recently discovered 9 new phages which now need names! To enter, you simply need to donate to the Cystic Fibrosis Trust on my JustGiving page (£2 = 1 entry) and share your email with me on donation (see link info). Please share 💚 www.justgiving.com/page/meaghan-c-1
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bes-quantitativegroup @bes-quantitative.bsky.social · 24/06/2025
Thrilled to announce our webinar series: 🌱📈 Quantifying Ecology 📈🌱 We are collaborating with our SIG friends to bring you quantitative methods in different ecological contexts. Kicking off with Dr @jamesaorr.bsky.social and @bes-aquaticgroup.bsky.social on 5th August. More details to come!
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Matthias C. Rillig @mrillig.bsky.social · 11/06/2025
Final version published in @cp-trendsecolevo.bsky.social Kong et al. Ecosystems have multiple interacting processes that buffer against co-occurring stressors www.cell.com/trends/ecolo...
cell.com
Ecosystems have multiple interacting processes that buffer against co-occurring stressors
There are multiple processes that buffer the effects of anthropogenic stressors. Much is known about how single buffering processes (e.g., biodiversity, adaptation) mitigate the effects of stressors o...
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Trends in Ecology & Evolution @cp-trendsecolevo.bsky.social · 05/06/2025
Online now: Making sense of (sublinear) density dependence
dlvr.it
Making sense of (sublinear) density dependence
Sublinear density dependence has been reported in numerous empirical studies and yet it is seemingly incompatible with most resource-explicit competition models. Reconciling this disconnect will either necessitate substantive revision of empirical methods or the assumptions of resource competition theory, but it also presents opportunities for original research with wide-ranging implications.
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Matthew Holden 🏳️‍🌈 @matthholden.bsky.social · 16/05/2025
Please share. 2 tenure-track T&R math/stat jobs at the University of Queensland, Australia. Amazing weather, gorgeous campus & lifestyle. 17% employer retirement contribution, lots of leave. Strong global reputation. Supports diversity @stevenstrogatz.com uq.wd3.myworkdayjobs.com/en-US/uqcare...
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Maëlis Kervellec @maeliskervellec.bsky.social · 18/04/2025
Honoured to receive the 2024 Robert May prize !! 😊 🎉 Many thanks to the @britishecologicalsociety.org & @methodsinecoevol.bsky.social
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Nature Microbiology @natmicrobiol.nature.com · 14/04/2025
🚨Jeremy Barr discusses how he began studying #bacteriophages, the historic use of the T-series #phages, and how they have shaped the field. #MicroSky #PhageSky www.nature.com/articles/s41...
nature.com
The T-series bacteriophages are reductionist models that continue to shape the field - Nature Microbiology
Jeremy Barr discusses how he began studying bacteriophages, the historic use of the T-series phages and how they have shaped the field.
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Matthias C. Rillig @mrillig.bsky.social · 30/03/2025
Very happy to see this paper out, wonderful collaboration with Gaowen Yang and @jamesaorr.bsky.social & other friends Kong et al. @cp-trendsecolevo.bsky.social Ecosystems have multiple interacting processes that buffer against co-occurring stressors 🧪 www.sciencedirect.com/science/arti...
sciencedirect.com
Ecosystems have multiple interacting processes that buffer against co-occurring stressors
There are multiple processes that buffer the effects of anthropogenic stressors. Much is known about how single buffering processes (e.g., biodiversit…
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Methods in Ecology and Evolution @methodsinecoevol.bsky.social · 20/03/2025
We have announced the 2024 Robert May Prize shortlist, our award for early career researchers! 🏆 Follow the link below to see our shortlisted authors and their papers 🌎 🧪 👇
buff.ly
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Joshua Weitz @joshuasweitz.bsky.social · 15/03/2025
Reminder: application deadline upcoming for applications from MS + PhD students + postdocs for a Summer School on Quantitative Phage-Bacteria Dynamics Across Scales U of Maryland, College Park, June 23-27, 2025 Apply by 3/21/25: bit.ly/phageschool2...
Poster for Quantitative Phage-Bacteria Dynamics Across Scales
Summer School, June 23-27, 2025, UMD
https://bit.ly/phageschool2025-umd
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Nessa O'Connor @nessocon.bsky.social · 18/03/2025
We are looking for a #PhD student to work on the impacts of multiple stressors on native #oysters as part of the BRICONS Project co-supervised by @annikaclements.bsky.social - contact me for details on how to apply @tcddublin.bsky.social
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Giulia Ghedini @giuliaghedini.bsky.social · 18/03/2025
Happy to share our new paper! We tested how species evolve in response to #competition. We tracked the evolution of 3 #phytoplankton species, evolved alone or together. Our main finding is that #density-dependence weakens through #evolution to increase population production. doi.org/10.1002/ece3...
doi.org
Evolution Under Competition Increases Population Production by Reducing the Density‐Dependence of Net Energy Fluxes and Growth
Using experimental evolution, we determined the impact of intra- versus interspecific competition on three marine phytoplankton species. We found that the species achieved the same evolutionary outco....
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Ben Jenkins @benkinsjenkins.bsky.social · 13/03/2025
Check out our dispatch on apicomplexans that infect corals! www.sciencedirect.com/science/arti... These parasite-like partners have lost photosynthesis but retained chlorophyll... are they friend or foe? @currentbiology.bsky.social #protistsonsky #symbiosky #microsky #coralreefs
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James Orr @jamesaorr.bsky.social · 12/03/2025
In our new paper we discuss how modern coexistence theory can help microbial ecologists tackle fundamental & applied questions, and how microbial systems can help to push coexistence theory forward! With Andrew Letten and Dave Armitage (@darmitage.bsky.social). doi.org/10.1111/1462...
doi.org
Coexistence Theory for Microbial Ecology, and Vice Versa
Classical models from theoretical ecology are seeing increasing uptake in microbial ecology, but there remains rich potential for closer cross-pollination. Here we explore opportunities for stronger ....
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PopBio on the Dark Side @pop-bio.bsky.social · 07/03/2025
We are excited to announce our new seminar series highlighting research on population biology and theoretical ecology from academics and post-grads based in the Asia-Pacific. We have a great line up of speakers for the next few months. Stay tuned for more info!
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Chris Sutherland @chrissuthy.bsky.social · 29/01/2025
Now accepting applicants for 25-26 intake of our #StatisticalEcology MSc: bit.ly/3ooHNyc. A unique opportunity to develop skills at the interface of #statistics and #ecology (some partial scholarships available too). Please help me share!
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Matthew Holden 🏳️‍🌈 @matthholden.bsky.social · 11/12/2024
#ESAus2024: alcohol/food didn't affect guesses on the number of species observed in our house (answer 1,168, average ESA guess 200). An excuse to indulge at tonight's dinner. Find Andrew Rogers if you want to chat about our house biodiversity study 👉 doi.org/10.1002/ecy.... 🌍 @ecolsocaus.bsky.social
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John Dwyer @john-m-dwyer.bsky.social · 03/12/2024
🔥 in Ecology Letters 🔥 #Traits describing hydraulic strategies and deciduousness explain the occurrence trends of almost 300 #rainforest #tree species across a steep rainfall gradient in Australia. #FunctionalTraits dx.doi.org/10.1111/ele....
dx.doi.org
A Functional Basis for the Assembly of Australian Subtropical Rainforest Tree Communities
We surveyed rainforest tree communities across the Australian subtropics (spanning 600 to 2500 mm rainfall year−1) and measured functional traits on 285 (91%) of all recorded species. Hydraulic strat....
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James Orr @jamesaorr.bsky.social · 02/12/2024
New paper that may be of interest to ecologists studying global change, disturbances, biodiversity, ecosystem functioning, or response diversity: doi.org/10.1038/s414...
doi.org
Variability of functional and biodiversity responses to perturbations is predictable and informative - Nature Communications
Measures of biodiversity and ecosystem functioning show variable responses to perturbations, complicating the prediction of responses to global change. This study shows that the variability of communi...
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Matthew Holden 🏳️‍🌈 @matthholden.bsky.social · 29/11/2024
Excited and humbled to be awarded a Discovery Project Grant on the value of data and models to improve the management of diseases, biodiversity, and food production with @katehelmstedt.bsky.social, & @hugepossum.bsky.social & Katriona Shea. Keep an eye out for new postdoc and PhD positions. 🦤🧪
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James Orr @jamesaorr.bsky.social · 18/11/2024
Just back from a great trip to the University of Canberra’s Institute of Applied Ecology for a seminar on multiple stressors. Loads of cool research going on there including some amazing breeding programs for critically endangered species
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Daniel Padfield @padpadpadpad.bsky.social · 15/11/2024
I'm advertising a PhD studentship (open to international students) on understanding how temperature may alter the ecology and evolution of AMR. Might suits someone with a microbiology/wet lab background who wants to expand into ecoevo. Or vice versa! But interest more important than experience.
An advert for a PhD investigating how and why temperature may alter the ecology and evolution of antibiotic resistance.
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Oded Rechavi @odedrechavi.bsky.social · 12/11/2024
University websites are like distant stars, when you look at them you see the scientists as they used to be many years ago
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James Orr @jamesaorr.bsky.social · 27/06/2024
I’m really excited to share our new synthesis of 2,396 (!) multiple-stressor experiments conducted in freshwater ecosystems that’s just been published in Ecology Letters: doi.org/10.1111/ele....
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