Jesse Shapiro
@bjesseshapiro.bsky.social
📤 1705
📥 716
📝 406
Macrobe qui aime les microbes
http://www.shapirolab.ca/
pinned post!
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)
loading . . .
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...
https://www.nature.com/articles/s41467-025-60699-0
4 months ago
4
144
58
reposted by
Jesse Shapiro
Colin Carlson
2 days ago
🚨 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...
loading . . .
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
https://www.thinkglobalhealth.org/article/to-finish-the-pandemic-agreement-who-needs-a-trustworthy-viral-database
8
901
338
reposted by
Jesse Shapiro
Michael Hendricks 🇨🇦
about 20 hours ago
The mobilization of the research community by Gaynor Watson-Creed and others has been successful, and Parliament has withdrawn its abusive data request.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...
add a skeleton here at some point
2
17
9
reposted by
Jesse Shapiro
Sam Horsfield
1 day ago
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...
loading . . .
Pangenome graphs as a new paradigm in comparative genomics -
Pangenome graphs as a new paradigm in comparative genomics -
https://www.ebi.ac.uk/training/events/pangenome-graphs-new-paradigm-comparative-genomics/
1
15
11
reposted by
Jesse Shapiro
Vaughn Cooper
2 days ago
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...
2
5
8
reposted by
Jesse Shapiro
Tami Lieberman
2 days ago
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...
loading . . .
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...
https://cee.mit.edu/people/shared-faculty-search/
0
31
46
reposted by
Jesse Shapiro
Ran Blekhman
3 days ago
🧬 🦠 🏙️ 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...
2
33
12
reposted by
Jesse Shapiro
Amy D Willis
3 days ago
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
loading . . .
Apply - Interfolio {{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
https://apply.interfolio.com/176402
0
4
10
reposted by
Jesse Shapiro
Microbiology Society
3 days ago
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
1
5
6
reposted by
Jesse Shapiro
Mathieu Ferron
3 days ago
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...
loading . . .
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.
https://www.lapresse.ca/dialogue/chroniques/2025-11-04/un-graphique-qui-dit-tout/le-rev-saint-denis-une-piste-cyclable-qui-atteint-des-sommets.php
0
3
1
reposted by
Jesse Shapiro
Bastien Castagner🇨🇦
3 days ago
Continuons d'avancer! 🚲 Le REV Saint-Denis, une piste cyclable qui atteint des sommets
www.lapresse.ca/dialogue/chr...
0
1
1
reposted by
Jesse Shapiro
André Picard @picardonhealth
3 days ago
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
loading . . .
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
https://www.theglobeandmail.com/opinion/article-science-research-grants-mp-parliament-committee-dei/
3
95
87
reposted by
Jesse Shapiro
Fabrice Jean-Pierre
3 days ago
We should be paying more attention to this situation. An online letter has been put together and is being circulated to stop this data from being disclosed. Please sign the online letter here, if you are comfortable:
docs.google.com/forms/d/e/1F...
add a skeleton here at some point
0
5
5
reposted by
Jesse Shapiro
Rachel Germain
4 days ago
Applications are currently being accepted for UBC's ✨️ Biodiversity Postdoctoral Fellowship ✨️ (two positions!!), due Jan. 15 Please share far and wide 🚀 (See thread)
loading . . .
Postdoctoral Fellowship Opportunities
Biodiversity Postdoctoral Fellowship, 2-year (2026-2028) - 2 positions OPENAt UBC, we believe that attracting and sustaining a diverse workforce is key to the successful pursuit of excellence in resea...
https://biodiversity.ubc.ca/training-and-award-opportunities/postdoctoral-fellowship-opportunities
2
63
91
reposted by
Jesse Shapiro
Tomer Ullman
4 days ago
Nature suggests you use their "Manuscript Adviser" bot to get advice before submitting I uploaded the classic Watson & Crick paper about DNA structure, and the Adviser had this to say about one of the greatest paper endings of the century:
34
856
281
reposted by
Jesse Shapiro
Les Perreaux
7 days ago
My 11-year-old officially works harder to accommodate people at his birthday parties than the Quebec state.
add a skeleton here at some point
3
99
34
reposted by
Jesse Shapiro
Rachel M. Wheatley
8 days ago
🔊 Applications for the tenure-track illuminate global challenge fellowships at Queen’s are now open! Comes with 5 years protected research time, a PhD studentship, & 60k start-up. I had one of these before getting my FLF, happy to chat to anyone interested!
www.qub.ac.uk/Research/fel...
loading . . .
Our Illuminate Global Challenges Fellowships | Research | Queen's University Belfast
https://www.qub.ac.uk/Research/fellowships-at-queens/fellowship-academy/illuminate-fellowship/
1
9
24
reposted by
Jesse Shapiro
Colin Carlson
8 days ago
🚨 Exciting new work out today led by
@carolinecummings.bsky.social
! Do bats host deadly viruses? Yes - but only specific bats (that just happen to be found in a lot of places!). Challenging some big ideas in the zoonosis world with data. Well done Caroline and team!!
add a skeleton here at some point
5
33
12
reposted by
Jesse Shapiro
derek guy
8 days ago
JD Vance claims that diversity weakens unions, as people end up distrusting each other and not organizing. Let me tell you two menswear stories related to this claim. 🧵
loading . . .
348
8350
3516
reposted by
Jesse Shapiro
Landon Getz
8 days ago
Excited to share: DNA glycosylases are diverse antiviral effectors. They recognize phage base modifications and initiate genome destruction. A structure‑guided approach made the scope of this discovery possible! 🧪
#phagesky
doi.org/10.1101/2025...
#phage
#microbiology
loading . . .
Antiviral Defence is a Conserved Function of Diverse DNA Glycosylases
Bacteria are frequently attacked by viruses, known as phages, and rely on diverse defence systems like restriction endonucleases and CRISPR-Cas to survive. While phages can evade these defences by cov...
https://doi.org/10.1101/2025.10.29.685425
3
49
19
reposted by
Jesse Shapiro
James McInerney
8 days ago
I've often wondered about what we should call organisms whose similarity might be due to acquired genetic material. It got a little complicated, but I made a stab at it here Classifying Convergences in the Light of Horizontal Gene Transfer: Epaktovars and Xenotypes
academic.oup.com/mbe/article/...
loading . . .
Classifying Convergences in the Light of Horizontal Gene Transfer: Epaktovars and Xenotypes
Abstract. The classification of living systems presents significant challenges due to the prevalence of gene transfer between genomes. Traditional taxonomi
https://academic.oup.com/mbe/article/doi/10.1093/molbev/msaf279/8305426
2
37
17
reposted by
Jesse Shapiro
Claudia Bank
10 days ago
We have an open PhD position (application deadline 9 January 2026) in "Theory of fitness landscapes" at
@unibe.ch
🤓⛰️📊👩💻🎓:
banklab.github.io/positions/
Please share widely!
#QueerInSTEM
#DisabledInSTEM
#BlackInSTEM
#WomenInSTEM
#CarersInSTEM
#AcademicSky
#HigherED
0
36
40
reposted by
Jesse Shapiro
Oh The Urbanity!
12 days ago
“Being truly pro-cycling isn’t just about saying you like bikes. It’s about accepting that [...] we sometimes need to rebalance public space, which means, yes, removing a few parking spaces or reallocating a traffic lane.” “If you love cycling, make room for it” by
@jfrheault.bsky.social
loading . . .
Vélo Québec | If you love cycling, make room for it
The election campaign that’s coming to an end has been difficult for those who care about cycling development. With all the challenges municipalities are
https://www.velo.qc.ca/en/issues-en/if-you-love-cycling-make-room-for-it/
1
108
18
reposted by
Jesse Shapiro
Vaughn Cooper
12 days ago
I was delighted to speak with WTAE anchor Shannon Perrine about how the “inclusion” of students put our EvolvingSTEM program at risk, among many others. We continue to “engage” >2500 students annually throughout Western PA and with various partners in 10 states.
add a skeleton here at some point
0
20
4
circular AI shrimp are decidedly cursed
12 days ago
0
7
0
Sorry Toronto, but Montreal will be cheering for the Dodgers tonight!
add a skeleton here at some point
14 days ago
2
1
0
reposted by
Jesse Shapiro
Canadian History Ehx
15 days ago
On Oct. 23, 1945, the news broke that Jackie Robinson had been signed to play with the Montreal Royals. He would spend a season with the team before being promoted to the Brooklyn Dodgers on his way to the Hall of Fame. This is his story. 🧵 1/12
2
83
24
reposted by
Jesse Shapiro
Sophie Crevecoeur
15 days ago
🦠📢If, like us, you lie awake at night wondering how cyanobacteria can be so good at adapting to any conditions, or if you just think they're cool and need an excuse to visit
#Montreal
, please consider submitting an abstract to our session by November 25th
#ASLOSIL2026
www.aslo.org/aslo-sil-2026/
0
2
2
reposted by
Jesse Shapiro
Alvaro San Millan
16 days ago
New paper with my (amazing) friend and mentor
@jrpenades.bsky.social
Really looking forward to see what plasmid aficionados think of this one!! With
@asantoslopez.bsky.social
@wfigueroac3.bsky.social
Akshay Sabins and others
www.cell.com/cell-reports...
loading . . .
Non-conjugative plasmids limit their mobility to persist in nature
Sabnis et al. explain why non-conjugative plasmids move at a low rate in nature. While increased mobility can easily evolve by incorporating phage DNA into plasmids, this is disadvantageous because it...
https://www.cell.com/cell-reports/fulltext/S2211-1247(25)01227-6
1
76
43
reposted by
Jesse Shapiro
Ryan Ziels
17 days ago
I’m very happy this is finally out! Here, we showcase the combination of BONCAT and SIP metaproteomics to uncover rare and active microbes driving anaerobic acetate turnover. We are excited to see what other microbial metabolisms and ecosystems this approach can help to illuminate! 🦠
add a skeleton here at some point
2
28
16
reposted by
Jesse Shapiro
A. Murat Eren (Meren)
16 days ago
Please share this with anyone who may be interested in a post-doc in Germany:
jobs.awi.de/Vacancies/20...
This is quite an exciting opportunity to push the boundaries of what is known regarding the molecular basis of the formation and demise of photosymbiotic relationships in marine habitats.
1
44
49
reposted by
Jesse Shapiro
Elizabeth Ostrowski
18 days ago
Why can’t I have more content like this?
add a skeleton here at some point
0
1
1
reposted by
Jesse Shapiro
Canadian History Ehx
18 days ago
Outside of Canada, many assume that the entire country uses bagged milk. The truth is, only part of Canada have bagged milk in the fridge. But why? Well, it comes down when Canada made the transition to the metric system. This is the story! 🧵 1/9
3
139
55
reposted by
Jesse Shapiro
Sarah J Tucker
18 days ago
I'm delighted our paper is out:
doi.org/10.1093/isme...
With new SAR11 isolate genomes and time-series metagenomes, we reveal coastal and offshore SAR11 ecotypes, identify associated metabolic traits, and pinpoint selective gene sweeps as a likely evolutionary driver to niche partitioning. 🌊🦠
loading . . .
Habitat-specificity in SAR11 is associated with a few genes under high selection
Abstract. The order Pelagibacterales (SAR11) is the most abundant group of heterotrophic bacteria in the global surface ocean, where individual sublineages
https://doi.org/10.1093/ismejo/wraf216
2
26
20
reposted by
Jesse Shapiro
Kristian G. Andersen
22 days ago
And now NextStrain as well. Next up, will GISAID start charging open-source community tools to have access? That would completely shaft users who contributed to GISAID, where we never agreed to that and assumed GISAID would be good custodians of the data we contributed. They're not.
add a skeleton here at some point
10
79
58
reposted by
Jesse Shapiro
Professor Lesley Hoyles
23 days ago
Very cool phage study from
@jeremyjbarr.bsky.social
's lab. Isolation, engineering and ecology of temperate phages from the human gut
#microbiomesky
#phagesky
loading . . .
Isolation, engineering and ecology of temperate phages from the human gut - Nature
Human host-associated cellular products may act as induction agents for bacteriophages.
https://www.nature.com/articles/s41586-025-09614-7
0
15
6
reposted by
Jesse Shapiro
Tami Lieberman
24 days ago
We are recruiting new faculty in IMES at MIT! IMES (Institute for Medical Engineering and Science) is the MIT home of the famous HST program. As faculty are also appointed in a department at MIT, we have diverse research programs, all focused on human health.
faculty-searches.mit.edu/imes-search/
loading . . .
MIT Faculty Searches MIT INSTITUTE FOR MEDICAL ENGINEERING AND SCIENCE FACULTY SEARCH
https://faculty-searches.mit.edu/imes-search/
0
11
21
reposted by
Jesse Shapiro
Frédérique Le Roux
26 days ago
Phages evolve fast, or do they? In oysters, some stay identical for years. With >1,200 phages & 600 Vibrio genomes, we reveal long-term stability and new mobile elements. Proud of this collaborative work across our teams (Roscoff-UdeM and
@epcrocha.bsky.social
www.biorxiv.org/cgi/content/...
loading . . .
Ecological constraints foster both extreme viral-host lineage stability and mobile element diversity in a marine community
Phages are typically viewed as very rapidly evolving biological entities. Little is known, however, about whether and how phages can establish long-term genetic stability. We addressed this eco-evolut...
https://www.biorxiv.org/cgi/content/short/2025.10.10.681744v1
1
87
52
Montreal scene
24 days ago
0
6
0
reposted by
Jesse Shapiro
Michael Brockhurst
29 days ago
Three Bicentenary research fellowships on offer at
@officialuom.bsky.social
@fbmh-uom.bsky.social
for exceptional ECRs with <3y postdoc experience 3yrs salary + £30k pa research expenses Do you have a great idea & want to join
@mermanchester.bsky.social
?
www.bmh.manchester.ac.uk/research/sup...
loading . . .
Bicentenary Early Career Research Fellowships | Biology, Medicine and Health | University of Manchester
Find out about and apply for a Bicentenary Early Career Research Fellowship.
https://www.bmh.manchester.ac.uk/research/support/fellowships/bicentenary-early-career-research-fellowships/
0
21
40
Reading the acknowledgments section of my student's PhD thesis...
29 days ago
0
3
0
reposted by
Jesse Shapiro
Joshua Weitz
29 days ago
Meanwhile in Canada, there have been more reported measles cases in Alberta (cases: 1,923; population: ~5M) than reported in all of the US this year (cases: 1,563, population: ~340M). Consequence: "The Americas region is at risk of losing its measles-free status..."
globalnews.ca/news/1146683...
1
6
3
reposted by
Jesse Shapiro
Craig MacLean
29 days ago
New pre-print
www.biorxiv.org/content/10.1...
Plasmid-dependent phage (PDPs) are ubiquitous, but the selective pressures that they impose on plasmids are not well understood. Project led by Daniel Cazares in collaboration with
@brockhurstlab.bsky.social
!
#phagesky#microsky
loading . . .
Trade-offs between phage resistance and conjugative ability shape the ecological and evolutionary response of a multidrug resistance plasmid to plasmid-dependent phage
Phage therapy is a promising alternative to antibiotics to treat multidrug resistant infections. Plasmid dependent phages (PDPs) are particularly attractive as therapeutics because they can both kill ...
https://www.biorxiv.org/content/10.1101/2025.10.08.681082v1
1
51
29
reposted by
Jesse Shapiro
KevinDKohl
about 2 months ago
Pleased to share new work tinkering with and testing the concept of the holobiont
@isme-microbes.bsky.social
"Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities" 🌾🐭🦠
academic.oup.com/ismecommun/a...
loading . . .
Experimental evolution of a mammalian holobiont: bank voles selected for herbivorous capability evolved distinct and robust gut bacterial communities
Abstract. According to the “hologenome” theory of evolution natural selection and evolution can act through a conglomerate biological unit, the “holobiont”
https://academic.oup.com/ismecommun/advance-article/doi/10.1093/ismeco/ycaf160/8251380
1
14
12
Sabbatical planning: step 1.
about 1 month ago
3
39
0
reposted by
Jesse Shapiro
John Dennehy
about 1 month ago
www.cell.com/trends/ecolo...
New entry into the Disability in Ecology and Evolution series in TREE featuring me :)
loading . . .
Disability in ecology and evolution
In this TrendsTalk series 'Disability in ecology and evolution' in Trends in Ecology and Evolution, we will be hearing from people about their experiences being disabled in ecology and evolution. We a...
https://www.cell.com/trends/ecology-evolution/fulltext/S0169-5347(25)00262-9
0
19
6
reposted by
Jesse Shapiro
Julie Talbot
about 1 month ago
My department
@geographieudem.bsky.social
is looking for a professor in human geography specializing in the study of social-ecological transformations, political ecology, climate change, environmental justice and/or the geography of risks and infrastructures. Deadline November 10, share widely!
2
10
9
reposted by
Jesse Shapiro
Dave Baltrus 🦦
about 1 month ago
Here’s published version of our manuscript using GWAS to investigate tailocin sensitivity in Pseudomonas syringae. TL:DR pretty clear LPS is tailocin receptor but also that P.syringae often completely swaps out its entire O antigen biosynth pathway w/ recombination
academic.oup.com/g3journal/ad...
loading . . .
Genomic correlates of tailocin sensitivity in Pseudomonas syringae
Abstract. Phage-derived bacteriocins, also referred to as tailocins, are structures encoded by bacterial genomes and deployed into the extracellular enviro
https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkaf203/8243713?login=true
1
36
12
reposted by
Jesse Shapiro
Michael Brockhurst
about 1 month ago
New preprint! Ever wondered why only a fraction of genomes encode CRISPR immunity? 🧬 🦠 Turns out CRISPR is rarely beneficial against virulent phages, being most beneficial against those for which resistance mutations are rare! An epic effort by Rosanna Wright
www.biorxiv.org/content/10.1...
loading . . .
Resistance mutation supply modulates the benefit of CRISPR immunity against virulent phages
Only a fraction of bacterial genomes encode CRISPR-Cas systems but the selective causes of this variation are unexplained. How naturally virulent bacteriophages (phages) select for CRISPR immunity has...
https://www.biorxiv.org/content/10.1101/2025.10.05.680503v1
3
95
47
reposted by
Jesse Shapiro
Ákos T Kovács
about 1 month ago
Filamentous cheater phages drive bacterial and phage populations to lower fitness Pseudomonas aeruginosa VS Pf phage
@currentbiology.bsky.social
by
@nanamikubota.bsky.social
,
@shellyscrib.bsky.social
and
@vscooper.micropopbio.org
www.cell.com/current-biol...
#PhageSky
loading . . .
Filamentous cheater phages drive bacterial and phage populations to lower fitness
Kubota et al. show that bacteria can use their filamentous phage to outcompete other bacteria, but increased phage production enables the evolution of cheater miniphages with truncated genomes. Miniph...
https://www.cell.com/current-biology/abstract/S0960-9822(25)01198-4?dgcid=raven_jbs_aip_email
0
27
10
reposted by
Jesse Shapiro
Current Biology
about 1 month ago
Sad news: Jane Goodall has died. She did more than any other human for our understanding and appreciation of our closest relatives, the chimpanzees. That chimpanzees are Endangered tells you everything about our species and about what made her so exceptional.
www.nytimes.com/2025/10/01/o...
loading . . .
Jane Goodall, Eminent Primatologist Who Chronicled the Lives of Chimps, Dies at 91
https://www.nytimes.com/2025/10/01/obituaries/jane-goodall-dead.html?unlocked_article_code=1.qE8.uhQ3.RD92BtqgJsHG&smid=nytcore-android-share
1
90
22
Load more
feeds!
log in