JSM3 2022

Conference Program

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Wednesday, 04th of May:

14:00 - 15:00h

Registration

15:00 - 15:20h

Welcome Speech "New Waves of thinking" by Kilian ZUCHAN (BIP)

  • Information about the program, schedule, lunch and additional activities

15:20 - 15:30h

"Statement for the first IM2B-wide JSM3" by David PIGNOL (BIAM)

15:30 - 16:30h

Talk Session #1

  • Chair: Alice DECOMBE (AFMB)

  • Speaker #1: Manon DASSA-VALZER (BIAM)

      • Metal transport in a multicellular bacterium.

  • Speaker #2: Giulia PESCE (AFMB)

      • Henipavirus W proteins: intrinsic disorder and amyloid-like fibrillation.

  • Speaker #3: Raphaël RACHEDI (LCB)

      • New insights into the function of HetC: a protein essential to cell differentiation in the multicellular cyanobacterium Anabaena PCC 7120.

16:30 - 17:15h

Coffee break / Small Poster Session

17:15 - 18:00h

Keynote Lecture: Birte HÖCKER, University of Bayreuth, Germany

  • On the evolution and design of proteins.

Chaired by Kilian ZUCHAN (BIP)

18:00 - 19:15h

Extended Poster Session

Thursday, 05th of May:

Thurday Morning Sessions

09:00 - 09:30h

Late Registration

09:30 - 10:15h

Keynote Lecture: Enrico ORSI, Technical University of Denmark in Copenhagen

  • Faster, better, stronger - Improving the design-build-test-learn cycle of nontraditional microorganisms for accelerating their biotechnological exploitation.

Chaired by Giulia D'ERMO (BIP)

10:15 - 11:00h

Talk Session #2

  • Chair: Giulia D'ERMO (BIP)

  • Speaker #4: Rabja POPALL (MIO)

      • Cultivated hydrogenotrophic microbial consortia from an alkaline hydrothermal spring in a serpentinization context, Prony Bay, New Caledonia.

  • Speaker #5: Sofia RIGOU (IGS)

      • Giant viruses discovered through permafrost metagenomics.

11:00 - 11:40h

Coffee break / Small Poster Session

11:40 - 12:40h

Talk Session #3

  • Chair: Brice BARBAT (LCB)

  • Speaker #6: Hugo BISIO (IGS)

      • Evolution from icosahedral to amphora shaped giant virions revealed by CRISPR/Cas9.

  • Speaker #7: Chloé BAUMAS (MIO)

      • New waves of sampling according to marine prokaryotes targeted communities.

  • Speaker #8: Nicola CURCI (AFMB)

      • Structural and functional studies of novel CAZymes families.

12:40 - 13:10h

Workshop Session: Bertrand THIOLLIER, Chromatography specialist, Cytiva

  • "Gel Filtration chromatography."

13:10 - 14:45h

Lunch

  • Grab your lunch tickets and eat at the Sodexo Cantine in the CNRS Joseph Aiguier campus

Thurday Afternoon Sessions

14:45 - 15:45h

Talk Session #4

  • Chair: Anna ALDINIO-COLBACHINI (BIP)

  • Speaker #9: Corentin BAUSSIER (LCB)

      • sRNA control of an essential process protects E. coli from antibiotics during oxidative stress.

  • Speaker #10: Andrea FASANO (BIP)

      • Reversible or irreversible catalysis of H+/H2 conversion by FeFe hydrogenases.

  • Speaker #11: Marie GRANDJEAN (LISM)

      • Disulfide-bond formation in Pseudomonas aeruginosa cytoplasm? The Patrx2 paradox.

15:45 - 16:15h

Workshop Session: Philippe GABANT, Co-founder & CSO, Syngulon

  • "Revealing the potential of bacteriocins at the age of synthetic biology"

16:15 - 16:30h

Group Picture JSM3 2022 All Participants

  • We meet in front of the stairs directly at the main entrance

16:30 - 17:00h

Coffee break / Small Poster Session

17:00 - 18:00h

Talk Session #5

  • Chair: Chloé BAUMAS (MIO)

  • Speaker #12: Alessio BONUCCI (BIP)

      • Combining EPR and NMR spectroscopies to investigate the function and dynamics of XRCC4 protein involved in the non-homologous DNA end joining pathway.

  • Speaker #13: Ao ZHANG (LCB)

      • Characterization of PrkA Protein in Bacillus subtilis.

  • Speaker #14: Boris TAILLEFER (LISM)

      • Phenotypic heterogeneity of the type VI secretion system.

18:00 - 19:15h

Extended Poster Session

Friday, 06th of May:

Friday Morning Sessions

09:00 - 09:30h

Late Registration

09:30 - 10:15h

Keynote Lecture: Nicholas TAYLOR - Novo Nordisk Foundation Center for Protein Research - University of Copenhagen

  • Powering the bacterial flagellar motor.

Chaired by Ketty TAMBURRINI (AFMB/BBF)

10:15 - 11:00h

Talk Session #6

  • Chair: Ketty TAMBURRINI (AMFB/BFF)

  • Speaker #15: Solène BEAUVOIS (LISM)

      • The PAAR tip protein is required for the function of the type VI secretion system.

  • Speaker #16: Marta MENEGHELLO (BIP)

      • Exploring the reduction substrate of formate dehydrogenase: CO2 or HCO3 ?

11:00 - 11:40h

Coffee break / Small Poster Session

11:40 - 13:00h

Talk Session #7

  • Chair: Andrea FASANO (BIP)

  • Speaker #17: Brice BARBAT (LCB)

      • Structure/function investigations on XcpD secretin of Pseudomonas aeruginosa.

  • Speaker #18: Alejandro VILLALTA-CASARES (IGS)

      • Mimivirus protects and compacts its genome in a 30 nm helical structure.

  • Speaker #19: Julian BULSSICO (LCB)

      • Single-phage techniques to study waves of phage epidemics in the presence of antibiotics.

  • Speaker #20: Yvann BOURIGAULT (LISM)

      • Microscopic characterization and antibacterial activity of the type VI secretion system of the Pseudomonas fluorescens MFE01 strain.

13:00 - 14:45h

Lunch

  • Grab your lunch tickets and eat at the Sodexo Cantine in the CNRS Joseph Aiguier campus

Friday Afternoon Sessions

14:45 - 15:45h

Talk Session #8

  • Chair: tba

  • Speaker #21: Tonia DARGHAM (LISM)

      • Selection of new therapeutic targets in relation with lipid metabolism in Mycobacterium abscessus.

  • Speaker #22: Romain AVELLAN (LISM)

      • LipInTB: New selective inhibitors for deciphering lipid metabolism in Mycobacterium tuberculosis.

  • Speaker #23: Céline DINET (LCB)

      • Biomimetic approach for the reconstitution of bacterial biochemical oscillator.

15:45 - 16:00h

  • Short Break

16:00 - 17:00h

Closing ceremony:

  • Poster Prize Announcement

  • Talk Prize Announcement

  • Farewell

17:00 - 22:00h

Apéro

We are obligated to remind all the participants that the SARS-CoV-2 pandemic is still not yet over and while we will not check the pass sanitaire, we recommend everyone who wants to wear a sanitary mask.

Abstracts of the Keynote Lectures:

Birte HÖCKER, University of Bayreuth

Time: Wednesday 04. of May (17:15 - 18:00h)

Title: On the evolution and design of proteins

Nature has generated an impressive diversity of proteins. We want to understand how these diverse structures and functions evolved and how we can apply observed mechanism to problems of protein design. The methods we apply range from generating and screening of mutant libraries via repurposing of active sites or binding pockets all the way to de novo design. Here I will provide an overview and show some highlights from our recent applications that span from the repurposing of a repressor to a plant sensor, via evolution-guided design by chimeragenesis to the de novo design of TIM-barrel proteins.

Enrico ORSI, Technical University of Denmark in Copenhagen

Time: Thursday 05. of May (09:30 - 10:15h)

Title: Faster, better, stronger - Improving the design-build-test-learn cycle of nontraditional microorganisms for accelerating their biotechnological exploitation

The increasing level of greenhouse gasses emissions calls for a transition from a fossil-based towards a circular, bio-based economy. Throughout this paradigm shift, new technologies must be developed for the sustainable production of chemicals. A possible solution is offered by the use of microorganism as cell factories: engineered platforms that can efficiently convert cheap, renewable feedstocks into added-value products. However, microbes are complex systems, and an understanding of their metabolism is required before implementing rational engineering endeavors. The use of iterative design-build-test-learn (DBTL) cycles aids this type of investigation. Nevertheless, especially for nontraditional microorganisms, the different cycle’s modules are usually not well established or standardized. In this talk, I will illustrate how the improvement of different DBTL cycle parts for the nontraditional bacterium Rhodobacter sphaeroides advanced its status as cell factory for the production of isoprenoids, relevant molecules for the bio-based economy. Finally, I will discuss the emerging concept of growth-coupled design as a mean to further accelerate DBTL cycles in cell factories. Altogether, these example illustrate how improved DBTL pipelines are a key aspect to consider for the true exploitation of microorganisms within industrial bitoechnology.

Nicholas TAYLOR - Novo Nordisk Foundation Center for Protein Research - University of Copenhagen

Time: Friday 06. of May (09:30 - 10:15h)

Title: Powering the bacterial flagellar motor

Bacteria rotate large filaments known as flagella to swim, which is important to discover new niches or in infectious disease. Rotation of these flagella is powered by the flagellar motor, an extremely complex biological rotary nanomotor connected through a flexible hook to the filament. The motor consists of a large rotor surrounded by, ion channels known as MotAB, which power rotation of the rotor. The exact mechanism of action of these stator units, however, remained unknown.

Using cryo-electron microscopy, we obtained structural insight into these MotAB ion channels. Based on structures of several homologues, we reveal that they actually have 5:2 stoichiometry, rather than the widely accepted 4:2. We furthermore obtained structures of mimics of different states of activated stator units, which we validate using swimming assays. Together, and combined with prior data, our data allow us to propose an ion pathway as well as to model the likely interaction site between the stator unit and the flagellar rotor. Finally, we propose a rotary mechanism involving rotation of MotA around the peptidoglycan-anchored MotB, to power flagellar rotation.

Abstracts of the Workshops:

Bertrand THIOLLIER, Chromatography specialist, Cytiva

Time: Thursday 05. of May (12:40 - 13:10h)

Title: "Gel Filtration chromatography"

Used for structural or analytical studies, or for polishing chromatography steps, Gel Filtration chromatography (or SEC) is one of the most used technique in protein purification. How to run and optimize results and carefully use these high valued columns?

Philippe GABANT, Co-founder & CSO, Syngulon

Time: Thursday 05. of May (15:45 - 16:15h)

Title: "Revealing the potential of bacteriocins at the age of synthetic biology”

The continuous emergence of microbial resistance is widely becoming recognized as an imminent threat to global human health pushing for the development of new molecules. Bacteriocins are antimicrobial peptides naturally produced by bacteria to protect their ecological niches. They are active against antibiotic-resistant bacteria and currently under consideration as real alternatives or complements to common antibiotics. These peptides have been highly studied, novel bacteriocins are regularly reported and several sequence databases on these peptides are currently maintained. To allow a rapid screening of these peptides activities we applied the advances in synthetic biology in combination with cell-free protein synthesis technologies. This collection of genes called PARAGEN allows for the first time to compare antimicrobial peptides and combination thereof on different microbes including pathogenic bacteria. This growing bacteriocin collection represents a streamlined pipeline for selection, production, and screening of bacteriocins as well as a reservoir of ready-to-use antimicrobials against virtually any class of relevant bacteria, offering a potent arsenal for the coming post-antibiotic world. The new developments of PARAGEN and results obtained using this synthetic gene collection will be presented.