Congratulations to Marian, Vladimir and Noushin for their new paper in Environmental Microbiomes describing the global reactions of our pet inoculant Pseudomonas veronii into non-sterile and contaminated soils!
EEM-LabNews and Updates
Inoculant transcriptome in soils
New paper from Manupriyam
New publication in mSystems
Welcome to Helena
We are very happy to welcome Helena Todorov as new postdoc in the group. Helena will be working on recognition of cell images in microbial communities.
Congratulations to Diogo for passing his PhD exam
Congratulations to Diogo, for successfully passing his PhD exam last Friday January 22! An excellent finish of his research on new RbsB variants as possible sensory proteins in bacterial bioreporters. All the best for your future career, Diogo!
Pseudomonas nitroreducens genome
Congratulations to Nico, Vladimir, Lenka and Claire, for their new publication on the genome of Pseudomonas nitroreducens, the first bacterium to degrade 2-hydroxybiphenyl! In contrast to previous reports, we find that the P. nitroreducens genome has three replicons and two new exciting ICEs.
Bacterial cell type recognition through machine-learned classifiers
Congratulations to Birge, Noushin and Ambrin on their newest publication on the concept to use trained algorithms to recognize bacterial cell types in known and unknown communities from multiparametric flow cytometry data! Brilliant!
NCCR Microbiomes has started!
Our new NCCR Swisswide project initiative on Microbiomes has started! As Director of this NCCR I am very excited to see this important research topic being pursued across Switzerland in multi-collaborative research. For more information, see the NCCR website.
Welcome to Senka, Isaline and Tania
Welcome to Senka, Isaline and Tania, who started their PhD research in the group and will work on the new soil communities projects.
Congrats to Birge for her PhD
Congratulations to Birge for successfully defending her PhD thesis last Thursday! We wish you all the best for your future career as an entrepreneur! Keep us posted about the developments.
Pseudomonas veronii multi-omics integrative study published
Congratulations to Noushin on the publication of her new paper on the multi-omics integrative modeling of Pseudomonas veronii physiology.
npj Systems Biology and Applications 6, Article number 1 (2020)
Welcome to Maxime Batsch
Welcome to Maxime, our new internship Master student from the University of Lyon, who will study interactions in synthetic microbial communities using picoliter droplet growth containers.
We are very happy and proud that the Swiss Government has decided to support our new collaborative initiative NCCR Microbiomes, which will enable us to work with 20+ groups on microbiome studies and engineering. We are waiting for a new website to be launched on this initiative. You can watch a short content movie here.
Congrats to Manu for passing his PhD defense
Manu successfully passed his PhD defense last Wednesday. Congratulations, Manu!
New Sinergia project to start on Microbial Interactions in Soil Communities
The SNF approved a new Sinergia project between our group and that of Prof. Christian Mazza at the University of Fribourg, to study interactions between microbial species in soil communities and develop a new mathematical framework to describe such interactions. If you are interested, drop me a line.
Congrats to Birge for her InnoTREK grant
Congratulations to Birge for receiving an InnoTREK grant that will permit her to follow her start-up idea on machine-learned classification of flow cytometry microbiota data, to be carried out at the Institute of Microbiology in collaboration with the CHUV! Bravo!
Shadows of Ribose-binding protein mutants
Congratulations to Diogo, Artur, Shantanu, Vladimir and Aurélie, for their new publication on ribose-binding-protein engineering, appearing tomorrow: www.nature.com/articles/s41598-019-53507-5.
Thanks to their continued efforts, we have been able to shed ourselves of some of the shadows cast by previous irreproducible 'high-impact' work on ribose-binding-protein engineering.
Welcome to Cédric and Samuel
We are happy to welcome Cédric Schneider, who is joing our lab for his civil service, working on biosensor development,
and to Samuel Aubert, first step Master student in Biology, who is working on the conjugative system of ICEclc.
ICE replication in single cells observed
Congratulations to Roxane and François for their beautiful work showing how ICEclc is replicated in individual cells preparing for conjugative transfer.
Reference: Delavat, F., Moritz, R. and J. R. van der Meer. (2019) Transient replication in specialized cells favors transfer of an integrative and conjugative element. mBio 10(3): e01133-19
Good-bye to Maxime and Nora, Welcome to Andrea, Senka and Caroline
This is the last week for Maxime, finishing his Master's project on the design and engineering of phenol-responsive ribose-binding protein mutants, and for Nora, who helped Birge on the lake water communities project. Thank you so much, both of you, for the wonderful time and your endless energy! We will miss you. All the best for your future studies and careers.
Welcome to Andrea, our new PhD student working on the ICE project
and to Senka and Caroline, two new master students, who will start their projects mid-February.
Good-bye to Simone and Dainora
This month is the last for Simone Hargraves, who did her First-Step project in the lab under supervision of Roxane, working on the role of oxidative stress on ICE activation.
And of Dainora Jankunaite, visiting student from Aalborg University, who did a four-month internship in the lab under supervision of Vladimir, working on the development of BRET-bacterial sensors.
Thank you, Simone and Dainora! It was a pleasure having you in the lab. All the best for the continuation of your studies.