Jesse Shapiro
@bjesseshapiro.bsky.social
Pinned
Prevalent chromosome fusion in Vibrio cholerae O1 - Nature Communications
The pathogenic bacterium Vibrio cholerae typically has two circular chromosomes. Here, Cuénod et al. analyse 467 clinical isolates and identify several independent chromosome fusion events that are li...
www.nature.com
One of my favourite serendipitous results from the lab came about because we were long-read sequencing bacterial:
Vibrio cholerae, which is "supposed to" have TWO circular chromosomes (3 + 1 million base pairs) often has just ONE fused chromosome (4 Mbp).
www.nature.com/articles/s41...
(1/n)
Vibrio cholerae, which is "supposed to" have TWO circular chromosomes (3 + 1 million base pairs) often has just ONE fused chromosome (4 Mbp).
www.nature.com/articles/s41...
(1/n)
Reposted by Jesse Shapiro
As expected, Canada has lost its measles-free status because of the long-running outbreak there. With it goes the #measles elimination status of the entire zone of the Americas, the only division of the #WHO to ever have achieved measles elimination. www.statnews.com/2025/11/10/m...
Canada loses measles elimination status — as does the entire Americas region
Canada has formally lost its measles elimination status, the country’s public health agency announced, triggering the loss of that status throughout all of the Americas.
www.statnews.com
November 10, 2025 at 2:49 PM
As expected, Canada has lost its measles-free status because of the long-running outbreak there. With it goes the #measles elimination status of the entire zone of the Americas, the only division of the #WHO to ever have achieved measles elimination. www.statnews.com/2025/11/10/m...
If you’re at @astmh.bsky.social #ASTMH2025 check out our session today on Enteric Pathogen Genomics & Evolution (room 717, 16:30) featuring @ksbakes.bsky.social on Shigella, plus 2 other great talks on V. cholerae phages, and Salmonella!
November 10, 2025 at 2:04 PM
If you’re at @astmh.bsky.social #ASTMH2025 check out our session today on Enteric Pathogen Genomics & Evolution (room 717, 16:30) featuring @ksbakes.bsky.social on Shigella, plus 2 other great talks on V. cholerae phages, and Salmonella!
Reposted by Jesse Shapiro
In almost suspiciously perfect timing of the #ASTMH #TropMed25 starting; hot off the press Allan Zuza's first author paper taking a deep dive into genome dynamics of #Klebsiella long-term lingering lineages, congratulations Allan! 🎉
#MicroSky #IDSky 💻🧬
www.medrxiv.org/content/10.1...
#MicroSky #IDSky 💻🧬
www.medrxiv.org/content/10.1...
Temporal genome dynamics of ST39 Klebsiella pneumoniae in a neonatal unit in Blantyre, Malawi
Background: Klebsiella pneumoniae (Kpn) is an important cause of healthcare-associated infections (HAI). In low and middle-income countries, HAI due to Kpn disproportionally affects neonates. In this ...
www.medrxiv.org
November 9, 2025 at 5:54 PM
In almost suspiciously perfect timing of the #ASTMH #TropMed25 starting; hot off the press Allan Zuza's first author paper taking a deep dive into genome dynamics of #Klebsiella long-term lingering lineages, congratulations Allan! 🎉
#MicroSky #IDSky 💻🧬
www.medrxiv.org/content/10.1...
#MicroSky #IDSky 💻🧬
www.medrxiv.org/content/10.1...
Reposted by Jesse Shapiro
The Quebec government kneecapped one of Canada's great universities, now Carney stepping in to finish the job.
www.cbc.ca/news/canada/...
www.cbc.ca/news/canada/...
Concordia announces cost-saving measures due to foreign student drop | CBC News
Concordia University says it's deferring sabbaticals and won't be renewing some teaching contracts in response to federal and provincial immigration policies.
www.cbc.ca
November 9, 2025 at 8:20 PM
The Quebec government kneecapped one of Canada's great universities, now Carney stepping in to finish the job.
www.cbc.ca/news/canada/...
www.cbc.ca/news/canada/...
Reposted by Jesse Shapiro
Un article à propos de moi dans La Presse aujourd’hui ⬇️
C’est comme si, une fois que tu es suffisamment riche, on te dit: «Félicitations! Vous avez gagné au capitalisme. En échange, on vous donne des cadeaux fiscaux. Vous n’avez plus besoin de payer d’impôts sur 50 % de votre revenu.» C’est complètement ridicule
www.lapresse.ca/contexte/202...
www.lapresse.ca/contexte/202...
Un café avec… Claire Trottier | L’ultrariche la plus atypique du Québec
Membre du 1 % des plus riches au Québec, Claire Trottier milite pour payer plus d’impôt parce qu’on assiste, déplore-t-elle, à une « accumulation de richesse et de pouvoir absolument hors contrôle ». ...
www.lapresse.ca
November 9, 2025 at 4:53 PM
Un article à propos de moi dans La Presse aujourd’hui ⬇️
Great view of the first snow of the season on the train from Montreal to Toronto for @astmh.bsky.social #ASTMH2025. Maybe in my lifetime this trip will take 3 hours instead of 5…
November 9, 2025 at 7:09 PM
Great view of the first snow of the season on the train from Montreal to Toronto for @astmh.bsky.social #ASTMH2025. Maybe in my lifetime this trip will take 3 hours instead of 5…
Reposted by Jesse Shapiro
Delighted that our review on resistance to last-resort antibiotics in Enterococci has been published in FEMS Microbiology Reviews
academic.oup.com/femsre/advan... (accepted manuscript version)
TL;DR: the Enterococci are really good at evolving resistance to antibiotics in new and creative ways.
academic.oup.com/femsre/advan... (accepted manuscript version)
TL;DR: the Enterococci are really good at evolving resistance to antibiotics in new and creative ways.
Resistance to last-resort antibiotics in enterococci
Abstract. The genus Enterococcus comprises a diverse group of species, many of which are commensal members of the gut microbiota of humans and animals. The
academic.oup.com
November 8, 2025 at 5:41 PM
Delighted that our review on resistance to last-resort antibiotics in Enterococci has been published in FEMS Microbiology Reviews
academic.oup.com/femsre/advan... (accepted manuscript version)
TL;DR: the Enterococci are really good at evolving resistance to antibiotics in new and creative ways.
academic.oup.com/femsre/advan... (accepted manuscript version)
TL;DR: the Enterococci are really good at evolving resistance to antibiotics in new and creative ways.
Reposted by Jesse Shapiro
Picard: there ARE FOUR GUYS! FOUR
November 3, 2025 at 4:48 PM
Picard: there ARE FOUR GUYS! FOUR
Reposted by Jesse Shapiro
This obit of Watson is *amazing*.
A Sharon Begley byline, almost 5 years after her death.
Upon hearing the news James Watson had died, a STAT reporter said in our Slack, "I wish I could read what Sharon would have written."
Incredible news: Sharon in fact did pre-write a Watson obit. And it is masterful and excoriating.
🧪🧬🧫
Upon hearing the news James Watson had died, a STAT reporter said in our Slack, "I wish I could read what Sharon would have written."
Incredible news: Sharon in fact did pre-write a Watson obit. And it is masterful and excoriating.
🧪🧬🧫
James Watson, dead at 97, was a scientific legend and a pariah among his peers
James Watson, the co-discoverer of the structure of DNA who died Thursday at 97, was a scientific legend and a pariah among his peers.
www.statnews.com
November 8, 2025 at 8:14 PM
This obit of Watson is *amazing*.
Reposted by Jesse Shapiro
A massive JAMA Internal Medicine study of 1.8M Americans found last season’s COVID booster still packs a punch—especially against severe illness and death.
The data are clear:
📉 Infection risk ↓ 45% at 4 weeks, 36% at 10 weeks,
#BlueSky #MedSky #SciSky #IDSky #NurseSky #EMSky
The data are clear:
📉 Infection risk ↓ 45% at 4 weeks, 36% at 10 weeks,
#BlueSky #MedSky #SciSky #IDSky #NurseSky #EMSky
Opinion | How long does covid booster protection last? A new study offers answers.
More evidence highlighting the benefit, and limitations, of covid-19 vaccines
shorturl.at
November 8, 2025 at 12:48 AM
Reposted by Jesse Shapiro
Can we leverage bacterial competition for targeted replacement of harmful strains? Maybe! Our recent piece in @natmicrobiol.nature.com provides a theoretical framework and a set of experiments to show what it might take: www.nature.com/articles/s41...
Strain displacement in microbiomes via ecological competition - Nature Microbiology
Mathematical modelling and experimental tests reveal principles that govern displacement of a resident strain by an invader in microbial communities.
www.nature.com
November 7, 2025 at 10:34 PM
Can we leverage bacterial competition for targeted replacement of harmful strains? Maybe! Our recent piece in @natmicrobiol.nature.com provides a theoretical framework and a set of experiments to show what it might take: www.nature.com/articles/s41...
We heard the Kassen lab’s sequencer was being badly neglected so we have adopted it.
It’s being fed a healthy diet of high molecular weight DNA.
Will return it when your computer is fixed @reeskassen.bsky.social ;)
It’s being fed a healthy diet of high molecular weight DNA.
Will return it when your computer is fixed @reeskassen.bsky.social ;)
November 7, 2025 at 10:31 PM
We heard the Kassen lab’s sequencer was being badly neglected so we have adopted it.
It’s being fed a healthy diet of high molecular weight DNA.
Will return it when your computer is fixed @reeskassen.bsky.social ;)
It’s being fed a healthy diet of high molecular weight DNA.
Will return it when your computer is fixed @reeskassen.bsky.social ;)
Reposted by Jesse Shapiro
It's irritating that they describe the effects of his racism as limited to causing controversy within science and reputational consequences for himself rather than giving an immeasurable boost, false veneer of legitimacy, and idiot-friendly prestige to modern scientific racism and eugenics.
James D. Watson died on Thursday in East Northport, N.Y., on Long Island. He was 97.
www.nytimes.com/2025/11/07/s...
www.nytimes.com/2025/11/07/s...
James Watson, Who Helped Discover the Structure of DNA, Is Dead at 97
www.nytimes.com
November 7, 2025 at 7:42 PM
It's irritating that they describe the effects of his racism as limited to causing controversy within science and reputational consequences for himself rather than giving an immeasurable boost, false veneer of legitimacy, and idiot-friendly prestige to modern scientific racism and eugenics.
Shout out to people routinely working in their 2nd or 3rd language.
Yesterday I gave a 1-hour research seminar in French. Afterwards, my brain was pretty much done for the day.
Respect to the loads of scientists who do this daily (and usually a lot more effectively than me!)
Yesterday I gave a 1-hour research seminar in French. Afterwards, my brain was pretty much done for the day.
Respect to the loads of scientists who do this daily (and usually a lot more effectively than me!)
November 7, 2025 at 10:25 PM
Shout out to people routinely working in their 2nd or 3rd language.
Yesterday I gave a 1-hour research seminar in French. Afterwards, my brain was pretty much done for the day.
Respect to the loads of scientists who do this daily (and usually a lot more effectively than me!)
Yesterday I gave a 1-hour research seminar in French. Afterwards, my brain was pretty much done for the day.
Respect to the loads of scientists who do this daily (and usually a lot more effectively than me!)
Reposted by Jesse Shapiro
🚨 NEW: The majority holder of the world's genetic sequence data is a bad actor who can cut off access to critics and competing services. We've tolerated this for years, and now it threatens the pandemic treaty. Time for WHO to step in. With @ctrlalttim.com: www.thinkglobalhealth.org/article/to-f...
To Finish the Pandemic Agreement, WHO Needs a Trustworthy Viral Database | Think Global Health
Online platforms for sharing virus sequences are in disarray. The World Health Organization has a chance to build something new
www.thinkglobalhealth.org
November 5, 2025 at 3:31 PM
🚨 NEW: The majority holder of the world's genetic sequence data is a bad actor who can cut off access to critics and competing services. We've tolerated this for years, and now it threatens the pandemic treaty. Time for WHO to step in. With @ctrlalttim.com: www.thinkglobalhealth.org/article/to-f...
Reposted by Jesse Shapiro
The mobilization of the research community by Gaynor Watson-Creed and others has been successful, and Parliament has withdrawn its abusive data request. Via @widowweb.bsky.social on www.linkedin.com/posts/maydia...
November 6, 2025 at 6:53 PM
The mobilization of the research community by Gaynor Watson-Creed and others has been successful, and Parliament has withdrawn its abusive data request. Via @widowweb.bsky.social on www.linkedin.com/posts/maydia...
Reposted by Jesse Shapiro
If you're interested in using pangenome graphs for comparative genomics, check out my webinar, part of EMBL-EBI's "Concepts, methods, and resources in pangenomics" series, available on-demand: www.ebi.ac.uk/training/eve...
Pangenome graphs as a new paradigm in comparative genomics -
Pangenome graphs as a new paradigm in comparative genomics -
www.ebi.ac.uk
November 6, 2025 at 11:40 AM
If you're interested in using pangenome graphs for comparative genomics, check out my webinar, part of EMBL-EBI's "Concepts, methods, and resources in pangenomics" series, available on-demand: www.ebi.ac.uk/training/eve...
Reposted by Jesse Shapiro
Love the idea of the "deletion test" posed by @needhibhalla.bsky.social & coauthors in their commentary about costs of cutting DEI efforts in science.
What if that student were "deleted?" What will the costs be?
Screenshots attached to enhance access. www.nature.com/articles/s41...
What if that student were "deleted?" What will the costs be?
Screenshots attached to enhance access. www.nature.com/articles/s41...
November 5, 2025 at 8:49 PM
Love the idea of the "deletion test" posed by @needhibhalla.bsky.social & coauthors in their commentary about costs of cutting DEI efforts in science.
What if that student were "deleted?" What will the costs be?
Screenshots attached to enhance access. www.nature.com/articles/s41...
What if that student were "deleted?" What will the costs be?
Screenshots attached to enhance access. www.nature.com/articles/s41...
Reposted by Jesse Shapiro
If you're looking for a faculty position at the intersection of ecology and computing (both broadly defined), please apply to this joint search between the CEE Department and the College of Computing at MIT: cee.mit.edu/people/share...
Faculty Position in the Department of Civil and Environmental Engineering and the Schwarzman College of Computing - cee.mit.edu
The Department of Civil and Environmental Engineering (CEE), together with the Schwarzman College of Computing (SCC) at the Massachusetts Institute of Technology (MIT) in Cambridge MA, seeks candidate...
cee.mit.edu
November 5, 2025 at 7:27 PM
If you're looking for a faculty position at the intersection of ecology and computing (both broadly defined), please apply to this joint search between the CEE Department and the College of Computing at MIT: cee.mit.edu/people/share...
Reposted by Jesse Shapiro
🧬 🦠 🏙️
Urban vs rural lifestyles create dramatically different gut microbiomes. But how do these different gut microbiomes affect the host?
Excited to share our new paper: www.biorxiv.org/content/10.1...
Urban vs rural lifestyles create dramatically different gut microbiomes. But how do these different gut microbiomes affect the host?
Excited to share our new paper: www.biorxiv.org/content/10.1...
November 5, 2025 at 2:04 AM
🧬 🦠 🏙️
Urban vs rural lifestyles create dramatically different gut microbiomes. But how do these different gut microbiomes affect the host?
Excited to share our new paper: www.biorxiv.org/content/10.1...
Urban vs rural lifestyles create dramatically different gut microbiomes. But how do these different gut microbiomes affect the host?
Excited to share our new paper: www.biorxiv.org/content/10.1...
Reposted by Jesse Shapiro
Are you looking for a #tenuretrack or #openrank job in #biostatistics or #statistics? @fredhutch.org is hiring! Seattle is a wonderful place to grow your career; the bio/stat & science scene here is world-class; and you will work w/ amazing UW Biostat students. Apply!
apply.interfolio.com/176402
apply.interfolio.com/176402
Apply - Interfolio
{{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
apply.interfolio.com
November 4, 2025 at 6:57 PM
Are you looking for a #tenuretrack or #openrank job in #biostatistics or #statistics? @fredhutch.org is hiring! Seattle is a wonderful place to grow your career; the bio/stat & science scene here is world-class; and you will work w/ amazing UW Biostat students. Apply!
apply.interfolio.com/176402
apply.interfolio.com/176402
Reposted by Jesse Shapiro
One week to go! Abstract submissions for Annual Conference 2026 close at 23:59 GMT on Tuesday 11 November. If you study microbes, there’s a home for your work at #Microbio26
Submit your work to one of >20 available sessions at: microb.io/AC26Abstracts
Submit your work to one of >20 available sessions at: microb.io/AC26Abstracts
November 4, 2025 at 11:01 AM
One week to go! Abstract submissions for Annual Conference 2026 close at 23:59 GMT on Tuesday 11 November. If you study microbes, there’s a home for your work at #Microbio26
Submit your work to one of >20 available sessions at: microb.io/AC26Abstracts
Submit your work to one of >20 available sessions at: microb.io/AC26Abstracts
Reposted by Jesse Shapiro
Il n'y a aucune raison valable pour faire un "audit" des pistes cyclables à Montréal. Une fois construites, elles sont utilisées et c'est parce qu'elles sont sécuritaires! Est-ce qu'on va faire un audit des voies automobiles, pour savoir lesquelles sont dangereuses?
www.lapresse.ca/dialogue/chr...
www.lapresse.ca/dialogue/chr...
Un graphique qui dit tout | Le REV Saint-Denis, une piste cyclable qui atteint des sommets
Le vélo a été un sujet polarisant dans la dernière campagne municipale à Montréal. Pourtant, les pistes cyclables montréalaises n’ont jamais été aussi utilisées.
www.lapresse.ca
November 4, 2025 at 5:00 PM
Il n'y a aucune raison valable pour faire un "audit" des pistes cyclables à Montréal. Une fois construites, elles sont utilisées et c'est parce qu'elles sont sécuritaires! Est-ce qu'on va faire un audit des voies automobiles, pour savoir lesquelles sont dangereuses?
www.lapresse.ca/dialogue/chr...
www.lapresse.ca/dialogue/chr...
Reposted by Jesse Shapiro
Continuons d'avancer! 🚲
Le REV Saint-Denis, une piste cyclable qui atteint des sommets www.lapresse.ca/dialogue/chr...
Le REV Saint-Denis, une piste cyclable qui atteint des sommets www.lapresse.ca/dialogue/chr...
November 4, 2025 at 5:13 PM
Continuons d'avancer! 🚲
Le REV Saint-Denis, une piste cyclable qui atteint des sommets www.lapresse.ca/dialogue/chr...
Le REV Saint-Denis, une piste cyclable qui atteint des sommets www.lapresse.ca/dialogue/chr...
Reposted by Jesse Shapiro
How much are MPs entitled to know about research grants? Not as much as they think. A parliamentary committee is asking for researchers' personal information in what seems like an anti-DEI crusade, by @picardonhealth.bsky.social www.theglobeandmail.com/opinion/arti... via @theglobeandmail.com
Opinion: How much are MPs entitled to know about research grants? Not as much as they think
A parliamentary committee is asking for academics’ private information on a strange anti-DEI crusade
www.theglobeandmail.com
November 4, 2025 at 12:19 PM
How much are MPs entitled to know about research grants? Not as much as they think. A parliamentary committee is asking for researchers' personal information in what seems like an anti-DEI crusade, by @picardonhealth.bsky.social www.theglobeandmail.com/opinion/arti... via @theglobeandmail.com