"Southern Ocean plankton metagenomics"
Supervised by Loïs Maignien
"Ecology of unusual Archaeal phyla in the microbenthos of abyssal
Supervised by Blandine Trouche
Interested microbiology and bioinformtics MSc. students, don't
hesistate to contact us for more info.
to Florian Trigodet for the succesful defense of his PhD on the Role of electroactive Bacteria in
stainless steel ennoblement
(photo credit: Yann Moalic)
to Clarisse Lemonnier for the succesful defense of her PhD on Dynamics and control of coastal
bacterioplankton community structure in the bay of Brest
(photo credit: Feriel Bouderka)
now open for the EBAME5 workshop:
Bioinformatics Applications for Microbial Ecogenomics" with similar
program than last year, with a two weeks format for more hands on
Apply untill May 13 to participate. More info here
(photo credit: Damien Courtine)
to Ashley Grosche in our group! Ashley just finished her PhD in
geomicrobiology of hydrothermal vents at Rutgers U. As a postdoc
in our group, she will investigate the terrestrial biosphere,
deep under the surface, as part of the Science for clean energy H2020
Ashley started with collecting sample from CarbFix monitoring
wells in Iceland!
now open for the EBAME4 workshop:
"Emerging Bioinformatics Applications for Microbial Ecogenomics"
Apply untill June 25 to participate. More info here
(photo credit: Meren)
onboard the R/V Sonne to sample deep-sea sediments from the Atacama
trench! Follow the expedition blog here
Septempber 2017 Welcome to Blandine Trouche in
the group and congaratulation for her PhD fellowship. Blandine will
work on biogeography of deep-sea microorganisms using 'omics approaches
part of THE
ABYSS project with IFREMER and the Genoscope.
June 2017 Workshop annoucement: the third
will take place in Brest, October 21-27, 2017. Join us for a week of
bioinformatics for microbial ecogenomics!! Apply until June 26.
May 2017 NewPhD
fellowship available in the lab on ecology and biogeography of deep
sea microorganisms. Apply before May 29.
Documentary about our ACE expedition on the French TV!
Damien Courtine is going to the source (code), as visiting
PhD student in Merenlab at UChicago!
January 18, 2017
I'm on board the R/V Akademik Treshnikov for ACE leg 2: 40 days of
sampling between Hobart and Punta Arenas!
December 16, 2016 The lab boards the R/V Akademik Treschnikov
for an amazing
Antarctic Circumnavigation Expedition, with the aim to better
understand planktonic microorganisms involved in carbon cycling in the
Southern Ocean. Follow the ACE science here, and ship route here
September 28, 2016 Emerging
Bioinformatics Applications for Microbial EcoGenomics
We are hosting the 2nd EBAME workshop at IUEM on October 7, from 13:00
to 16:00. Entrance is free! IUEM amphi D. Program is here
August 9, 2016
The editorial that finalizes our "Frontiers in Microbiology" Research
Topic: New insights into microbial ecology through subtle nucleotide
variations. A great collection of papers highlighting the importance of
high-resolution methods for amplicon studies!
May 20, 2016 Sabrina Belendis is on board the R/V Minerva Uno
for the MicroMare2015 Cruise led by Violetta la Conno at IAMC. She is
sampling Deep Hypersaline Anoxic Basins and mud volcanoes in the
March 14, 2016
to Dr. Sabrina Berlendis in
the LM2E. Sabrina will carry research on
Deep Hypersaline Anoxic Lakes as a postdoc research associate, together
with colleagues at IAMC in
Messina. She is the recipient of the Postdoctoral fellowship in
deep-sea Archaea and Bacteria from the Region
January 31, 2016
Congratulation to Florian Trigodet for his Academia-Industry PhD
Florian will use our Ecogenomics toolbox to study electron transfer in
marine electroactive biofilms during biocorrosion, a joint project with
September 14, 2015
EBAME Workshop on September 24. Program now available here! Free attendance thanks to
the support of the IUEM and the EUROPOLE
July 8, 2015
Congratulations to Clarisse Lemonnier for her new PhD scholarship!
will carry out research for the next three years on coastal marine
microbial communities dynamics.
May 22, 2015 Postdoctoral fellowship in EcoGenomics of
deep-sea Archaea and Bacteria available at the LM2E. See here for Job
description and application
May 9, 2015 Just embarked on the R/V "Pourquoi pas?"
the MoMARsat 2015 campaign until May 1st. With the ROV VICTOR, we will
sample the "Lucky Strike"
hydrothermal vent field and perform maintenance of the deep-sea long
term observatory sensor/samplers. Follow the science
March 27, 2015 LM2E seminar: welcome to Fréderic Mahé, author
(et al.) of SWARM and VSEARCH, who is
visiting us for a presentation of his recent work on marker gene
March 25, 2015 New postdoc opportunity
to work on ecology of extremophiles using
amplicon/genomics/metagenomics approaches. Interested candidate
should apply before May 1st 2015!Appointment
starting on June 1st 2015 at the latest.
March 20, 2015 Welcome
to Maria-Antonietta Nisi, researcher at IAMC, Napples!
Maria-Antonietta will join our lab for two weeks to work on amplicon
datafrom the Mediteranean deep anoxic hypersaline
March 9-16, 2015
Participation to the Ocean
Sampling Day jamboree. The MicroB3
project gathered an amazing scientific party at EBI (Hinxton, UK) to
analyze the Ocean Sampling Day data. Results soon!
October 22, 2014
I embark on board the R/V Urania for the Saline2014 cruise. We will
explore Deep Hypersaline Lakes of East Mediterranean Sea. Follow our
science at sea here and with #saline2014
October 10, 2014
New paper online
in Environmental Microbiology: The effects of
variable sample biomass on comparative metagenomics
Preprint in the publications section
October 1, 2014
Welcome to Damien Courtine at
the LM2E and congratulation for his new PhD scholarship! Damien will
use comparative genomics to get insights on extremophile ecology,
evolution and phylogeography.
May 13, 2014 New application deadline for the PhD
project on genomics of
extremophiles. Last day for application is June 3, 2014. Online
application on the doctoral school portal
April 27, 2014 PhD
scholarship available for three years to work on
comparative and functional genomics of Extremophiles! See here
for more info and how to apply.
March 27, 2014
Adjunct Scientist appointment at the Marine Biological
Laboratory for the next 3 years. Really looking forward to continue
collaborations initiated during the postdoctoral position at the Bay
Paul center and Co-PI new projects!
March 7, 2014
Frontiers in Microbiology, Special
issue on "Oligotyping". Last week to submit an abstract! A very
interesting way to (re)visit your 16s gene amplicon data!
Feb 01, 2014
release of this home page at IUEM! This site will present my
teaching and mentoring activities at the IUEM (European Academic
Insitute for the Sea, in Brest- France).