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Tiphaine Le Roy 🦠

@titicaccae.bsky.social
1.4K followers 1.4K following 94 posts

Research Scientist at Sorbonne Université / INSERM 🇫🇷 • Gut Microbiome • Small Intestine • Obesity & Metabolic diseases • new PI 😱 • 🐁🦠🧫💩

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Reposted by Tiphaine Le Roy 🦠
Alan Walker @faecalmatters.bsky.social · 17/09/2026
Formal announcement of the 15th installment of the International Gut Microbiology Symposium series, running from June 1st to 3rd 2027: www.abdn.ac.uk/events/confe... We will look forward to welcoming old friends and new to Aberdeen next summer.
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 31/03/2026
Hoho… @contamclub.bsky.social #MicroSky #microbiomesky
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 30/03/2026
A good start to the week 🫠🦠🧫 #Microbiome #MicroSky
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 20/02/2026
You know you are in trouble when Reviewer 2 starts by saying that they have '𝙚𝙭𝙖𝙢𝙞𝙣𝙚𝙙 𝙩𝙝𝙚 𝙡𝙞𝙩𝙚𝙧𝙖𝙩𝙪𝙧𝙚 𝙤𝙣 𝙩𝙝𝙞𝙨 𝙩𝙤𝙥𝙞𝙘 𝙞𝙣 𝙙𝙚𝙩𝙖𝙞𝙡 𝙖𝙣𝙙 𝙧𝙚𝙫𝙞𝙚𝙬𝙚𝙙 𝙝𝙤𝙬 𝙩𝙝𝙞𝙨 𝙚𝙨𝙩𝙞𝙢𝙖𝙩𝙚 𝙞𝙨 𝙙𝙚𝙧𝙞𝙫𝙚𝙙'. 🧫 🦠🧪 #ESR #microbiome #MicroSky #microbiome #science #PhDSky #AcademicSky
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 19/01/2026
ho 😢 www.embl.org/news/embl-an...
embl.org
In remembrance of Peer Bork  | EMBL
EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General.
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 26/11/2025
the kind of work I absolutely love !
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Reposted by Tiphaine Le Roy 🦠
Kate Coldwell @katecoldwell.bsky.social · 12/08/2025
Location in the digestive tract matters! 💩 microbiota ≠ duodenal microbiota As our understanding of the effect of the #microbiome in #PSC grows, it beomes more nuanced. #LetsBeatPSC #primarysclerosingcholangitis
researchgate.net
Reconsidering the microbial origins of primary sclerosing cholangitis and related autoimmune disorders: A case for the antro‐duodenal microbiome | Request PDF
Request PDF | On Aug 5, 2025, Richard Kellermayer and others published Reconsidering the microbial origins of primary sclerosing cholangitis and related autoimmune disorders: A case for the antro‐duod...
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 30/04/2025
1/2. a few month ago, I saw someone her and/or on Linkedin telling that he discovered that his private code on github was stolen and used in a paper not acknowledging him. I can't find it, does someone remember this and send me the link to the original post ? #science
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Hilda Bastian @hildabast.bsky.social · 14/02/2025
Hate that it has come to this, but it's time to consider PubMed vulnerable to enshittification. My latest post @plos.org discusses the lines we need to fight to hold – and alternatives we can rely on internationally: absolutelymaybe.plos.org/2025/02/14/w... #medlibs
absolutelymaybe.plos.org
What if We Can't Rely on PubMed? - Absolutely Maybe
PubMed is incredibly reliable. And a lot depends on it. It’s an ecosystem built around MEDLINE, the steady feed of new publications…
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ᐯIᑕTOᖇ ᑎIᘔET, ᗰᗪ @nizet.bsky.social · 10/02/2025
technically not a problem if you eat the whole cake by yourself 🦠 🎂 🤔
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Trends in Microbiology @cp-trendsmicrobiol.bsky.social · 06/02/2025
📢Sarah Lebeer (@sarahlebeer.bsky.social) and colleagues at the Isala team call for a more comprehensive, global, and inclusive understanding of the #vaginal #microbiome, critically reflecting on the use of 'race' and 'ethnicity' in studies. Read the Opinion piece here: www.cell.com/trends/micro...
cell.com
Diversity in women and their vaginal microbiota
Women’s health is essential to global societal and economic wellbeing, yet health disparities remain prevalent. The vaginal microbiota plays a critical role in health, with research indicating that re...
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 28/01/2025
And…. I didn’t get it 🙃😭. At least it was fast. (𝘛𝘳𝘺𝘪𝘯𝘨 𝘵𝘰 𝘯𝘰𝘳𝘮𝘢𝘭𝘪𝘻𝘦 𝘳𝘦𝘫𝘦𝘤𝘵𝘪𝘰𝘯 𝘩𝘦𝘳𝘦 𝘣𝘦𝘤𝘢𝘶𝘴𝘦 𝘪𝘵 𝘪𝘴 𝘩𝘢𝘳𝘥 𝘵𝘰 𝘩𝘢𝘯𝘥𝘭𝘦.) bsky.app/profile/titi...
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Nature Reviews Microbiology @natrevmicro.nature.com · 24/01/2025
#weekendreading🔬 Cardiometabolic benefits of a non-industrialized-type diet are linked to gut microbiome modulation @cellpress.bsky.social #microsky #microbiome #diet www.cell.com/cell/fulltex...
cell.com
Cardiometabolic benefits of a non-industrialized-type diet are linked to gut microbiome modulation
Is it possible to restore the human gut microbiome in industrialized settings and reintroduce microbial species that have been lost? In healthy adults, Li et al. found that consuming a diet mimicking ...
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 24/01/2025
www.nature.com/articles/s41... Hold my beer (ℎ𝑒𝑎𝑑𝑠 𝑜𝑓𝑓 𝑡𝑜 𝑡ℎ𝑒 𝑚𝑖𝑐𝑟𝑜𝑏𝑖𝑜𝑙𝑜𝑔𝑦 𝑙𝑎𝑏). 🧫 🦠🧪 Kidding aside, I completely agree that classical microbiological approaches are crucial to address causality and mechanisms. However, it requires... #MicroSky #microbiomesky #science
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Epsiloon @epsiloon.com · 17/01/2025
Au fait, on s'est dit qu'il fallait quand même qu'on vous propose aussi un kit avec les adresses de toute l'équipe d'Epsiloon. Parce que oui, on est tous là maintenant. Bienvenue ! go.bsky.app/3EFfgk2
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 03/01/2025
Me realising that the deadline for a grant submission is sunday night, not monday night, and that I need to cut my holiday short now, not tomorrow. 🧫 🦠🧪#esr #MicroSky #microbiomesky #PhDSky #AcademicSky
media.tenor.com
a man in a suit and tie is standing in the rain and crying .
ALT: a man in a suit and tie is standing in the rain and crying .
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Reposted by Tiphaine Le Roy 🦠
Carl T. Bergstrom @carlbergstrom.com · 16/12/2024
Many of my students and a few of my colleagues run their writing through an LLM to improve the prose. LLMs can make bad writing better, but they can just as easily make decent writing worse. Note the lack of flow and the added redundancy in the example below.
ChatGPT 4.o

QUERY: Improve this:

"Ask an LLM to rephrase an awkward sentence.

You can judge for yourself whether its suggestion improves your original text."


RESPONSE: "Ask a language model to rephrase an awkward sentence and see if the result enhances your original wording. You can decide for yourself if its suggestion is an improvement."
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Reposted by Tiphaine Le Roy 🦠
Maxime Delorme @mdelorme.bsky.social · 15/12/2024
J'en ai PLEIN LE FIAK de voir les gens foutre de l'IA partout même s'il y en a pas besoin, puis de casser les miches aux gens un peu réfractaires en mode "Ohlala c'est juste un outil ce qui est important c'est comment on s'en sert".
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 12/12/2024
Many microbiologists probably already know this, but I was today years old when I learned that 𝘛𝘶𝘳𝘪𝘤𝘪𝘣𝘢𝘤𝘵𝘦𝘳 𝘴𝘢𝘯𝘨𝘶𝘪𝘯𝘪𝘴 is filamentous 😅. #MicroSky #microbiomesky 🧫 🦠🧪
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 07/12/2024
I know 100% that this doesn't mean my project proposal was crap, but every rejection hurts. 🦠🧫#esr #microbiome #MicroSky #microbiomesky #science
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 28/11/2024
Let's grow some bugs 😎🦠🧫 @leibniz-dsmz.bsky.social #microbiome #MicroSky #microbiomesky
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PubPeer @pubpeer.com · 25/11/2024
And now for the announcement: While many of our plans for the award funds will take time to implement, one can start immediately. To thank our users and encourage scientific debate, we’re introducing $1,000 rewards for selected PubPeer comments! Yes students and postdocs you read that right: $1000
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 06/11/2024
borrowed to @GrumpyReviewer2, this is so accurate right now. #esr #PhDSky #AcademicSky
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David Shiffman, Ph.D. 🦈 @whysharksmatter.bsky.social · 14/10/2024
What? What do you wear to the biggest professional event in your field? #IMCC7
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 07/10/2024
1/3. My first article as a (co) last author is out today in Gut Microbes 🎉: Comparative analysis of the duodenojejunal microbiome with the oral and fecal microbiomes reveals its stronger association with obesity and nutrition. #MicroSky #microbiomesky 🧪🦠 url6649.tandfonline.com/ls/click?upn...
url6649.tandfonline.com
Comparative analysis of the duodenojejunal microbiome with the oral and fecal microbiomes reveals its stronger association with obesity and nutrition
The intestinal microbiota is increasingly recognized as a crucial player in the development and maintenance of various chronic conditions, including obesity and associated metabolic diseases. While...
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 02/10/2024
I exchanged 8 emails with a supplier during the last two days to explain him how to get paid by our institution. I'm loosing it, I want to go back to the lab and actually do #science. et vive l' #ESR. #PhDSky #AcademicSky
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DSMZ Digital Diversity @dsmzd3.bsky.social · 12/07/2024
#SILVA release 138.2 has been published 🧬🖥️. For more information see arb-silva.de/news/view/20... #SILVAngs will be updated next week. #DSMZDigitalDiversity #biology #databases 🦠🌱🧪
arb-silva.de
News Item
SILVA provides comprehensive, quality checked and regularly updated databases of aligned small (16S / 18S, SSU) and large subunit (23S / 28S, LSU) ribosomal RNA (rRNA) sequences for all three domains ...
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Reposted by Tiphaine Le Roy 🦠
Tami Lieberman @contaminatedsci.bsky.social · 11/07/2024
We are on the look out for postdocs to join the Lieberman Lab at MIT. Areas include: -Connecting bacterial warfare to strain dynamics in vivo -Evolution and transmission of microbes in humans -Revisiting role of microbes in acne vulgaris Take a look at our recent preprints and reach out!
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 10/07/2024
We bought a new microscope and I can FINALLY see my dear bacteria 🦠, I’m so happy 😍. 🧪 #MicroSky #AcademicSky
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 04/07/2024
I don't even know if this study is exciting or depressing 😅🦠🐀
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 03/07/2024
I remember reading this thread back in the times on Twitter. This is an absolute must read. 🧪 #AcademicSky #ESR
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Reposted by Tiphaine Le Roy 🦠
Christian Kost @kostchristian.bsky.social · 01/07/2024
A fully funded (3 year) PhD position is available in my group. The project will focus on analysing how synergistically interacting bacteria coevolve. Join my vibrant group at @UniOsnabrueck. Please RT Deadline: 28.07.2024 More information👇 shorturl.at/5ZP7R
shorturl.at
142 FB 5 Research Assistant (m/f/d) - Universität Osnabrück
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 01/07/2024
I’m about to ship 185 DNA samples overseas for metagenomic sequencing 🧬🦠. This doesn’t happent frequently and I’m a bit nervous 😅. #microsky #microbiome #esr #academicsky
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@hgpennington @hgpennington.bsky.social · 12/06/2024
A housefly landed on my agar plate. You can see what grew after one week. This is why you don't want houseflies on your food! hgpenningtonart.com/...
An agar plate covered in fungal and bacterial colonies. Some of the fungal colonies are very fuzzy. They are in a selection of colours including grey, dark brown, tan and white.A housefly sitting on an agar plate
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 07/06/2024
I regularly noticed that fastidious microbes grow in liquid medium but not on the "same" solid medium. Several previous papers show that agar is the culprit, but this paper is is a fine piece of detective work. Traceability is a tedious but important job.
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 04/06/2024
Considering the amount of time I spent this year writing grant proposals (3 full months), it makes me want to cry.
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Thomas Kesteman🦠🧫🔬🌏 @tomk.eurosky.social · 13/05/2024
Great post-doc position in Paris! #AMR #IDSky #MicroSky iddjobs.org/jobs/underst...
iddjobs.org
IDDjobs — Understanding the evolutionary epidemiology of commensal Escherichia coli with bacterial genomic data — Centre National de la Recherche Scientifique
Find infectious disease dynamics modelling jobs, studentships, and fellowships.
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John Holbein @johnholbein1.bsky.social · 20/04/2024
Timeless
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 18/04/2024
Yep… I don’t have much hope though…
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 12/04/2024
The thing I have planning to do during the last 3 maybe 4 years but never found the time to do 😆
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 11/04/2024
I have just submitted the second big (2 500 000 €😱) grant proposal in 2 months. Instead of feeling relieved and going back to the bench, I'm anxiously thinking about what the reviewers will think about it. Sigh. #microsky #esr #microbiome
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Thiago Carvalho @cyrilpedia.bsky.social · 30/03/2024
'In this article we report the results of a multi-year study to assess the impact of blinding gender and institutional affiliation in the first stage of the application process for BYI awards, which involves applicants submitting a technical proposal as part of an initial Letter of Intent'
elifesciences.org
Meta-Research: Blinding reduces institutional prestige bias during initial review of applications for a young investigator award
Blinding the initial review of applications for Beckman Young Investigator awards reduces prestige bias, but has no impact on the success rates for different genders.
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 18/03/2024
As a young editor I'm regularly surprised by people. I just had an authors sending me an email explaining that reviewer 2 is a dick and that they request a third reviewer. As an author doing that would never cross my mind 😂, even if reviewer 2 is actually a massive dick.
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Henrik Strahl @henrikstrahl.bsky.social · 09/02/2024
A gentle appeal to colleagues using voltage sensitive dyes. Maintaining membrane potential needs metabolism. Washing cells nutrient-free in buffer (for staining purposes) leads to quick depolarisation. Can be used as +- control but not for much more.. mic.microbiologyresearch.org/pubmed/conte...
mic.microbiologyresearch.org
A guide for membrane potential measurements in Gram-negative bacteria using voltage-sensitive dyes
Transmembrane potential is one of the main bioenergetic parameters of bacterial cells, and is directly involved in energizing key cellular processes such as transport, ATP synthesis and motility. The most common approach to measure membrane potential levels is through use of voltage-sensitive fluorescent dyes. Such dyes either accumulate or are excluded from the cell in a voltage-dependent manner, which can be followed by means of fluorescence microscopy, flow cytometry, or fluorometry. Since the cell’s ability to maintain transmembrane potential relies upon low and selective membrane ion conductivity, voltage-sensitive dyes are also highly sensitive reporters for the activity of membrane-targeting antibacterials. However, the presence of an additional membrane layer in Gram-negative (diderm) bacteria complicates their use significantly. In this paper, we provide guidance on how membrane potential and its changes can be monitored reliably in Gram-negatives using the voltage-sensitive dye 3,3′-dipropylthiadicarbocyanine iodide [DiSC3(5)]. We also discuss the confounding effects caused by the presence of the outer membrane, or by measurements performed in buffers rather than growth medium. We hope that the discussed methods and protocols provide an easily accessible basis for the use of voltage-sensitive dyes in Gram-negative organisms, and raise awareness of potential experimental pitfalls associated with their use.
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 02/02/2024
#MicroSky dear fellow microbiologists, I need your help. I consider buying a flow cytometer to count live/dead 🦠. Do you have one cytometer that you particularly recommend ? Don't forget I'm poor 😅
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 25/01/2024
Procrastination attack ongoing. I'm doing nothing. My to do list and the deadlines: #ESR #AcademicSky #PhDSky #HelloESR
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Tiphaine Le Roy 🦠 @titicaccae.bsky.social · 17/01/2024
Last time I successfully connected to eduroam was in 2019.
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Germán Bonilla-Rosso @germusthermophilus.bsky.social · 14/12/2023
🧪🧫🖥️🧬🦠A new gap in ANI reveals "natural" intraspecies clusters! A thread on reasons to be happy and reasons to fear this new (must-read!) publication led by Luis M Rodriguez-M and Kostas Konstantinidis in #mBio, always thought-provoking! 1/n journals.asm.org/doi/10.1128/...
A dot plot with shared genome fraction on the y-axis and average nucleotide diversity on the x axis, depicting a gap around 99.5% ANI.
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Willem van Schaik @wvschaik.bsky.social · 11/12/2023
Another gut microbiome confounder claxon 'Large Quantities of Bacterial DNA and Protein in Common Dietary Protein Source Used in Microbiome Studies' www.biorxiv.org/content/10.1...
biorxiv.org
Large Quantities of Bacterial DNA and Protein in Common Dietary Protein Source Used in Microbiome St...
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
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Willem van Schaik @wvschaik.bsky.social · 03/12/2023
Stolen from the other place, but made me lol
A meme of Victoria and David Beckham, in which Victoria first claims that she found something that is true for prokaryotes but then has to admit that she only works with E. coli.
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