DOME partnership with
DOE Joint Genome Institute (JGI)
The DOE JGI has recently launched the Emerging Technologies Opportunity Program (ETOP) in order to develop partnerships with groups developing new technologies that DOE JGI could establish to add value to the high throughput sequencing it currently carries out for its users. Six initiatives were chosen including a project proposed by Michael Wagner and Roman Stocker from the M.I.T. (Boston, USA) entitled "High-throughput sorting of microbial cells with specific functional traits for single cell genomics by combining labeling with heavy water, Raman microspectroscopy, microfluidics and flow cytometry". JGI will invest approximately $3.5 million over the next two years in this and the other ETOP projects.
News release at DOE JGI website
New paper in FEMS Microbiology Reviews
Novel avenues are available for the analysis of intestinal ecophysiology to yield new insights into complex host-symbiotic microbiota-pathogen processes, such colonization resistance against infections. This review summarizes bioinformatics tools for revealing hypothetical interactions from metagenomic data and highlights the value of gnotobiotic mouse models and new single-cell approaches for testing these hypotheses and studying the in vivo physiology of the gut microbiota.
Stecher B, Berry D, Loy A. 2013. Colonization resistance and microbial ecophysiology: Using gnotobiotic mouse models and single-cell technology to explore the intestinal jungle. FEMS Microbiol. Rev. Early online publication.
Chinese Academy of Sciences honors Michael Wagner with 2013 Einstein Professorship
The Chinese Academy of Sciences has named Michael Wagner an Einstein Professor for 2013. As part of the professorship, Michael will visit several institutes in China early next year. He subsequently will host two Chinese scholars for several months at DoME.
DoME to be member of the new Department of Microbiology
and Ecosystem Science
DoME joins forces with the Division of Terrestrial Ecosystem Research and the Division of Computational Systems Biology to form the new Department of Microbiology and Ecosystem Science. Michael Wagner will serve as head of the new department for the first two year term.
Dr. rer. nat. Barbara Sixt
Barbara successfully defended her PhD thesis entitled "Host-free metabolic activity of chlamydial symbionts of amoebae and their interaction with the cellular suicide machinery of metazoan host cells". The board of examiners included Jan Rupp, Thomas Decker, and Matthias Horn. Congratulations!
Federal Minister Töchterle visits DoME
Austrian Federal Minister for Science and Research Karlheinz Töchterle visited DoME today. Together with Eva Nowotny, head of the executive board of the University of Vienna, Heinz W. Engl, rector of the University of Vienna, Karl Schwaha, vice rector, and Horst Seidler, dean of the Faculty of Life Sciences, he was introduced by the DoME team to current research at the department.
Press report [German]
New FWF project
Dagmar Woebken and Stephanie Eichorst received funding for a new project from the Austrian Science Fund. The project will focus on the active free-living diazotrophs in terrestrial ecosystems and the factors influencing their activity using a single cell approach.
FWF Project database
New paper in PNAS
A DOME team encompassing David Berry, Alexander Loy, Arno Schintlmeister, Jochen Reichert, and Michael Wagner used NanoSIMS to identify
mucus-degrading bacteria in the mouse gut. Together with collaborators providing expertise in IR-MS measurements and animal experiments,
they showed that this important process is influenced also by non-degrading community members. The technique presented in this paper allows
for the first time direct functional investigation of microbes in the gut on a single cell level.
Press report [German]
New papers in Environmental Microbiology and Frontiers in Microbiology
DOME teams around Michael Wagner and Holger Daims led two genome projects of nitrifying microorganisms representing lineages of global importance.
The ammonium-oxidizing archaeon Ca. Nitrososphaera gargensis is the first member of the so-called soil group or group I.1b whose genome was sequenced.
This analysis showed that these organisms are metabolically much more flexible than their marine counterparts. The second study reports on the genome
of the major marine nitrite oxidizer Nitrospina gracilis and demonstrates that this widespread organism represents a novel bacterial phylum challenging
its previous classification.
Article on Nitrososphaera gargensis
Article on Nitrospina gracilis
New paper in Genome Biology
In this international collaboration Ilias Lagkouvardos and Matthias Horn contributed the analysis of the impact of lateral gene transfer on the evolution of amoeboid genomes to suggest that in amoebae, lateral gene transfer is reflective of trophic strategy and driven by the selective pressure of new ecological niches.
Michael Wagner elected as fellow in the American Academy of Microbiology
The American Academy of Microbiology is the leadership group of the American Society for Microbiology, the world's oldest and largest life-science organization. Academy fellows are elected annually through a highly selective, peer-review process, based on their records of scientific achievement and original contributions that have advanced microbiology. As a fellow, Michi joins a group of eminent leaders in the field of microbiology recognized for their excellence, originality, creativity and exemplary careers in basic and applied research, teaching, clinical and public health, industry or government service. The academy relies on fellows for authoritative advice and information on critical issues in microbiology, from responding to congressional inquiries to organizing meetings and workshops.
Homepage of the American Academy of Microbiology
New daime version released
daime is our digital image analysis and visualization software for analyzing 2D and 3D microscopy datasets of fluorescence-
labeled microorganisms. Version 2.0 is a major update with many new features and improvements.
Two new FWF projects
Holger Daims and Alex Loy received funding for new projects from the Austrain Science Fund. Alex will work on "The cold microbial majority - marine sulfate-reducing microorganisms". Holger aims at "Illuminating the Ecology of Nitrite-Oxidizing Bacteria".
FWF Project database
Karin Aistleitner, Alex Siegl win Pecha Kucha contest
Karin Aistleitner and Alex Siegl won the Pecha Kucha contest "Biology on Stage - 400 Seconds of Life" with her presentation "Training in the gym pays off: Amoebae as training ground for bacterial pathogens".
City of Vienna Award for Alex Loy
Alex Loy was awarded with the "Förderungspreis der Stadt Wien 2012" from the City of Vienna.
New paper in Nature
Milucka J, Ferdelman TG, Polerecky L, Franzke D, Wegener G, Schmid M, Lieberwirth I, Wagner M, Widdel F and Kuypers MMM. 2012. Zero-valent sulphur is a key intermediate in marine methane oxidation. Nature doi:10.1038/nature11656
Markus Schmid and Michael Wagner contributed Raman microspectrometry analyses in this international collaboration to discover that the archaea responsible for the anaerobic oxidation of methane also reduce sulfate. Disulphide formed in this reaction is then consumed by deltaproteobacterial partners rendering the archaeal sulfate reduction more energy efficient. Thus, the metabolic model of anaerobic methane oxidation has to be revised by integrating the two newly described metabolic processes.
Press report [German]
New WWTF project
Alex Loy and David Berry received funding for a new project from the Vienna Science and Technology Fund:
Nutrition and the intestinal microbiota-host symbiosis -- A holistic stable isotope-labeling approach to decipher key microbial players and quantitatively link single cell activity to system function.
WWTF Life Science Call 2012
New paper in PLoS Genetics
Penz T, Schmitz-Esser S, Kelly SE, Cass BN, Müller A, Woyke T, Malfatti SE, Hunter MS, Horn M. 2012. Comparative genomics suggests an independent origin of cytoplasmic incompatibility in Cardinium hertigii. PLoS Genetics 8: e1003012.
Together with an international team Thomas Penz and Matthias Horn deciphered the biology of a bacterial symbiont able to manipulate reproduction of its insect host and analysed the evolutionary history of this unusual trait.
Press report [German]
Open postdoc and PhD positions at DoME
Read more ...
Dr. rer. nat. Elena Tönshoff
Elena successfully defended her PhD thesis entitled "Diversity and ecology of bacteriocyte-associated symbionts in adelgids" and received the biggest doctoral cap ever. The board of examiners included Monika Bright, Wolfgang Miller, and Matthias Horn. Congratulations!
David Berry, Assistant Professor
David Berry was promoted to the position of an Assistant Professor (tenure track) and will start a new group at DoME.
Congratulations, great to have you on board!
DoME up in the trees
This summer the DoME team followed the tracks of our great ape ancestors in a high ropes course
in the Vienna Woods.
Master curriculum Microbial Ecology|
The master curriculum Microbial, Molecular & Chemical Ecology is a joint of project of the Departments of Microbial Ecology, Genetics in Ecology, Chemical Ecology and Ecosystems Research, and Computational Systems Biology. Students are trained in interdisciplinary sciences such as microbial ecology, symbiosis research, molecular biology & evolution, genetics, environmental chemistry, and bioinformatics. They interact with internationally renowned researchers, and acquire practical experience through courses in top-class laboratories with high-end instrumentation.
Masterstudium Mikrobielle Ökologie
Die Vertiefung Mikrobielle, molekulare und chemische Ökologie des Masterstudiengangs Ökologie bietet eine umfassende Ausbildung im Bereich der modernen molekularen mikrobiellen Ökologie. Diese Vertiefung ist ein gemeinsames Angebot der Departments Mikrobielle Ökologie, Ökogenetik, Computational Systems Biology und Chemische Ökologie und Ökosystemforschung.
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