Nathan Fraikin's Avatar

Nathan Fraikin

@nfrk92

Post-doc at TacC team / CNRS / Lyon 1- Catching bacteria on tape right in the act !

697
Followers
339
Following
15
Posts
20.11.2023
Joined
Posts Following

Latest posts by Nathan Fraikin @nfrk92

Two-part epoxy could be a good alternative, it should cure clearer than CA glue and with a refractive index close to that of glass.

11.02.2026 20:09 πŸ‘ 1 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0
Preview
a man stands in front of a board that says 30 85 50 95 55 75 and 40 ALT: a man stands in front of a board that says 30 85 50 95 55 75 and 40

Postdoc applying to MSCA fellowships :

11.02.2026 15:23 πŸ‘ 2 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Preview
a bald man says one hundred percent in front of his face ALT: a bald man says one hundred percent in front of his face
09.02.2026 12:54 πŸ‘ 0 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Two D-loop resolution systems enable natural genetic transformation in bacteria Natural transformation is a widespread mechanism driving genetic exchanges in bacteria. It proceeds by the capture and internalization of exogenous DNA in linear single strands, ultimately integrated in the genome by homologous recombination. It is unknown how the RecA-directed D-loop intermediate of this dedicated recombination pathway is processed. We report that resolution of the transformation D-loop depends on two endonucleases of opposing phylogenetic distribution in bacteria. One is YraN, which has co-evolved and interacts with the ComM helicase, known to extend DNA recombination at the transformation D-loop. The other is CoiA, which is restricted to the Bacillota. CoiA is shown to be a resolvase of the transformation D-loop, extended by the RadA helicase in these species. We demonstrate that both YraN and CoiA act synergistically with their cognate helicases. These findings reveal that bacteria have evolved two helicase/nuclease pairs for the maturation and recombination extension of the transformation D-loop. ### Competing Interest Statement The authors have declared no competing interest. Agence Nationale de la Recherche, https://ror.org/00rbzpz17, ANR-20-CE12-0004, ANR-10-BLAN-1331, ANR-17-CE13-0031, ANR-22-CE44-0044, ANR-10-LABX-62-IBEID, PIA/ANR-16-CONV-0005 Fondation pour la Recherche MΓ©dicale, https://ror.org/04w6kn183, FDT202001010890 European Union's Horizon research and innovation programme. Marie Skłodowska-Curie Postdoctoral Fellowships, 101208987 National Institute of Health, USA, R35GM128674

#microsky
Massive update of preprint with @polardlab.bsky.social!
Bacteria have evolved two systems to recombine extracellular DNA
www.biorxiv.org/content/10.1...
Kudos to lead authors LΓ©o Hardy, Violette Morales and Clothilde Rousseau, and to outstanding Dalia's lab and @epcrocha.bsky.social
πŸ§΅β¬‡οΈ

16.01.2026 16:23 πŸ‘ 18 πŸ” 8 πŸ’¬ 1 πŸ“Œ 0
Preview
Coupling DNA processing to early gene expression drives antibiotic resistance plasmid dissemination The rapid global spread of antibiotic resistance is mediated by conjugative plasmids, yet how these elements establish immediately after entering new bacterial hosts remains poorly understood. Here we...

New bioRxiv preprint from our Lesterlin lab
How early gene expression coupled to DNA processing boosts resistance plasmid spread.
With @nfrk92.bsky.social in collab with Y. Yamaichi lab
πŸ‘‰ doi.org/10.64898/202...

12.01.2026 08:56 πŸ‘ 20 πŸ” 12 πŸ’¬ 0 πŸ“Œ 0

New pub. from the lab !

We discovered that potato tubers exert intense selective pressure during Dickeya solani infection, driving the rapid emergence of mutations in the sRNA ArcZ. These mutations lead to the appearance of "social cheaters" that sweep through the pop. in as few as 30 generations.

22.12.2025 17:24 πŸ‘ 7 πŸ” 2 πŸ’¬ 1 πŸ“Œ 0
Preview
Poly-immunity arrays associated with Rhs toxins confer wide protection against competitors Martinkus et al. show that Photorhabdus and Xenorhabdus species encode arrays of immunity genes whose protein products neutralize toxins secreted by competitors. These arrays, often linked to Xer pass...

We propose immuno-centric view of secreted polymorphic toxin diversification and involvement of novel XPC systems in this process! Fantastic work of @jmartinkus.bsky.social with lab of @cascaleslab.bsky.social !
www.cell.com/current-biol...

15.12.2025 17:45 πŸ‘ 7 πŸ” 7 πŸ’¬ 0 πŸ“Œ 1
Preview
Selective elimination of donor bacteria enables global profiling of plasmid gene expression at early stages of conjugation Abstract. Conjugative plasmids are a major driving force for the dissemination of antimicrobial resistance. During conjugation, plasmid DNA is transferred

academic.oup.com/nar/article/... Collaboration with Y. Yamaichi. Killing donor bacteria in conjugation mixes using water enables transcriptomic profiling of early plasmid genes ! Superb tool for studying zygotic induction of these early genes, which include anti-SOS and anti-RM factors. #microsky

10.12.2025 18:06 πŸ‘ 33 πŸ” 19 πŸ’¬ 0 πŸ“Œ 0
Preview
Expanding the genetic toolbox of the obligate predatory bacterium Bdellovibrio bacteriovorus with inducible gene expression and CRISPR interference Inducible gene expression and CRISPR interference-mediated depletion in the predatory bacterium Bdellovibrio bacteriovorus.

🚨New paper out! #MicroSky
Studying obligate predators like Bdellovibrio bacteriovorus is trickyβ€”essential genes for predation are also essential for survival.
We expanded its genetic toolbox:
🧬promoters to fine-tune expression
🧬IPTG-inducible system
🧬CRISPRi for rapid knockdown
bit.ly/46GUn2c
1/4

17.09.2025 07:27 πŸ‘ 59 πŸ” 22 πŸ’¬ 2 πŸ“Œ 2
Preview
Exclusion systems preserve host cell homeostasis and fitness, ensuring successful dissemination of conjugative plasmids and associated resistance genes Abstract. Plasmid conjugation is a major driver of antibiotic resistance dissemination in bacteria. In addition to genes required for transfer and maintena

Exclusion systems, far from slowing down plasmid spread, are in fact essential to preserve host cell viability and thereby ensure the successful dissemination of conjugative plasmids and antibiotic resistance genes.

@nfrk92.bsky.social
@narjournal.bsky.social

academic.oup.com/nar/article/...

17.09.2025 10:17 πŸ‘ 33 πŸ” 20 πŸ’¬ 1 πŸ“Œ 0
Preview
Biofilm architecture determines the dissemination of conjugative plasmids | PNAS Plasmid conjugation is a contact-dependent horizontal gene transfer mechanism that significantly contributes to the dissemination of antibiotic res...

Biofilm architecture determines the dissemination of conjugative plasmids: We measured the spatiotemporal spread of plasmids in biofilms and found that plasmids only spread in some biofilm regions!

Collab with lab of @sbigot.bsky.social & Christian Lesterlin
www.pnas.org/doi/10.1073/...

28.04.2025 07:03 πŸ‘ 45 πŸ” 16 πŸ’¬ 1 πŸ“Œ 0

And a complete heresy to mix it in cocktails !

24.04.2025 16:59 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Addgene: A palette of bright and photostable monomeric fluorescent proteins for bacterial time-lapse imaging

www.addgene.org/browse/artic... (Available from Addgene @addgene.bsky.social )

24.04.2025 16:58 πŸ‘ 7 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Preview
A palette of bright and photostable monomeric fluorescent proteins for bacterial time-lapse imaging Bright and photostable monomeric fluorescent proteins enable long-term time-lapse imaging in E. coli.

Our set of new prokaryote-optimized fluorescent proteins is now published ! #microbiology #microsky #microscopy πŸ§«πŸ¦ πŸ”¬
www.science.org/doi/10.1126/...

23.04.2025 15:02 πŸ‘ 87 πŸ” 37 πŸ’¬ 8 πŸ“Œ 5

MMSB - Molecular Microbiology and Structural Biochemistry @mmsb-lyon.bsky.social is now on Bluesky!
πŸ‘‰ Follow us to know about our last publications, prizes, job offers, seminars, events,...

23.04.2025 14:28 πŸ‘ 8 πŸ” 6 πŸ’¬ 0 πŸ“Œ 0

Something with 1-10 mM Mg2+

23.04.2025 10:42 πŸ‘ 2 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

WHAAAAAT, we do !!!

09.04.2025 11:57 πŸ‘ 0 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

New preprint from the lab!! Check it out!

24.01.2025 12:49 πŸ‘ 25 πŸ” 9 πŸ’¬ 0 πŸ“Œ 0
Preview
Genetic Determinants of pOXA-48 Plasmid Maintenance and Propagation in Escherichia coli Conjugative plasmids are the main drivers of antibiotic resistance dissemination contributing to the emergence and extensive spread of multidrug resistance clinical bacterial pathogens. pOXA-48 plasmi...

New preprint from our Lesterlin Lab! Yannick Baffert and @nfrk92.bsky.social, in collaboration with @macerwan.bsky.social and @val-meve.bsky.social, shed light on the molecular mechanisms driving pOXA-48 plasmid maintenance and transfer. We reveal novel TA system, regulators, and T4SS components!

25.01.2025 09:20 πŸ‘ 26 πŸ” 14 πŸ’¬ 2 πŸ“Œ 0

which recombination pathway and which species are we talking about ?

29.12.2024 19:55 πŸ‘ 2 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0
Preview
a man in a lab coat is sitting at a desk with the words moi je suis une star des maladies infectieuses written below him ALT: a man in a lab coat is sitting at a desk with the words moi je suis une star des maladies infectieuses written below him

fr.wiktionary.org/wiki/Raoulte...

10.12.2024 07:47 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
Preview
sesame street count von count is singing into a microphone while wearing a tuxedo ALT: sesame street count von count is singing into a microphone while wearing a tuxedo
04.12.2024 13:57 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0

A great paradigm shift for the proximal-distal expression gradient in (super)integrons. Bravo Paula, Jose & team !

15.01.2024 20:31 πŸ‘ 1 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0
Post image

RIP Pierre. You were one of the best. Thank you for all you did for our field but more importantly, for me and all the people you helped. I will miss you. ❀️

08.12.2023 00:09 πŸ‘ 14 πŸ” 8 πŸ’¬ 0 πŸ“Œ 0

Gram-pos envelope is like a thick layer of homogenous porous material while gram-neg is more like a composite that keeps all kind of stuff out of the cell. My money's on gram-neg.

27.11.2023 21:38 πŸ‘ 1 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0

weapons allowed ?

27.11.2023 21:36 πŸ‘ 0 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0