Genomes and Genes
Affiliation: Swiss Federal Institute of Technology
- Experimental evolution of aging in a bacteriumMartin Ackermann
Institute of Integrative Biology, ETH Zurich, CH 8092 Zurich, Switzerland
BMC Evol Biol 7:126. 2007..We tested the generality of this theory by experimental evolution with Caulobacter crescentus, a bacterium whose asymmetric division allows mother and daughter to be distinguished...
- Stabilization of the genome of the mismatch repair deficient Mycobacterium tuberculosis by context-dependent codon choiceRoger M Wanner
Institut fur Medizinische Mikrobiologie, Universitat Zurich, Gloriastrasse 30 32, CH 8006 Zurich, Switzerland
BMC Genomics 9:249. 2008..Here, we analyzed how these opposing forces shaped genome stability in the human pathogen Mycobacterium tuberculosis. M. tuberculosis lacks a mismatch repair system, and this renders nucleotide repeats particularly unstable...
- Self-destructive cooperation mediated by phenotypic noiseMartin Ackermann
Institute of Integrative Biology, ETH Zurich, 8092 Zurich, Switzerland
Nature 454:987-90. 2008....
- On the evolutionary origin of agingMartin Ackermann
Institute of Integrative Biology, ETHZ, 8092 Zurich, Switzerland
Aging Cell 6:235-44. 2007..Aging might thus be a more fundamental aspect of cellular organisms than assumed so far...
- DNA sequences shaped by selection for stabilityMartin Ackermann
Division of Biological Sciences, University of California San Diego, La Jolla, California, United States of America
PLoS Genet 2:e22. 2006..This indicates that selection for stability, rather than for the generation of variation, substantially influences how information is encoded in the genome...
- Stabilization of cooperative virulence by the expression of an avirulent phenotypeMédéric Diard
Institute of Microbiology, ETH Zurich, Wolfgang Pauli Str 10, 8093 Zurich, Switzerland
Nature 494:353-6. 2013..This points to a key role of bistable virulence gene expression in stabilizing cooperative virulence and may lead the way to new approaches for controlling pathogens...
- The cost of virulence: retarded growth of Salmonella Typhimurium cells expressing type III secretion system 1Alexander Sturm
Institute of Microbiology, ETH Zurich, Zurich, Switzerland
PLoS Pathog 7:e1002143. 2011..This raises important questions about compensating mechanisms during host infection which ensure successful propagation of the genotype...
- A simple screen to identify promoters conferring high levels of phenotypic noiseNikki E Freed
Institute of Integrative Biology, Eidgenossische Technische Hochschule ETH Zurich, Zurich, Switzerland
PLoS Genet 4:e1000307. 2008..Typhimurium genome. This approach can be applied to many other bacterial and eukaryotic systems as a simple method for identifying genes with noisy expression...
- Bistable expression of virulence genes in salmonella leads to the formation of an antibiotic-tolerant subpopulationMarkus Arnoldini
Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland Department of Environmental Microbiology, Eawag, Dubendorf, Switzerland
PLoS Biol 12:e1001928. 2014....
- Patterns of evolutionary conservation of essential genes correlate with their compensabilityTobias Bergmiller
Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland
PLoS Genet 8:e1002803. 2012....
- Analysis of fluorescent reporters indicates heterogeneity in glucose uptake and utilization in clonal bacterial populationsNela Nikolic
Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland
BMC Microbiol 13:258. 2013..In these experiments, E. coli MG1655 strains containing different transcriptional GFP reporters were grown in chemostats and reporter expression was measured with flow cytometry...
- Single-cell time-lapse analysis of depletion of the universally conserved essential protein YgjDTobias Bergmiller
Department of Environmental Sciences, ETH Zurich, Switzerland, and Department of Environmental Microbiology, Eawag, Switzerland
BMC Microbiol 11:118. 2011..Here, we put ygjD under control of an inducible promoter, and used time-lapse microscopy and single cell analysis to investigate the phenotypic consequences of the depletion of YgjD protein from growing cells...
- How type 1 fimbriae help Escherichia coli to evade extracellular antibioticsIma Avalos Vizcarra
Laboratory of Applied Mechanobiology, Department of Health Sciences and Technology, ETH Zurich, 8093 Zurich, Switzerland
Sci Rep 6:18109. 2016..Fimbriae thus promote antibiotic evasion which is particularly relevant in the context of chronic infections. ..
- Antagonism between bacteriostatic and bactericidal antibiotics is prevalentPaolo S Ocampo
Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland Department of Environmental Microbiology, Eawag, Dubendorf, Switzerland
Antimicrob Agents Chemother 58:4573-82. 2014....
- Cecum lymph node dendritic cells harbor slow-growing bacteria phenotypically tolerant to antibiotic treatmentPatrick Kaiser
Institute of Microbiology, Eidgenössische Technische Hochschule ETH, Zurich, Switzerland
PLoS Biol 12:e1001793. 2014..Administration of LPS or CpG, known elicitors of innate immune defense, reduced the loads of tolerant bacteria. Thus, manipulating innate immunity may augment the in vivo activity of antibiotics...
- Evolution of stress response in the face of unreliable environmental signalsMarkus Arnoldini
Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Switzerland
PLoS Comput Biol 8:e1002627. 2012....
- Gut inflammation can boost horizontal gene transfer between pathogenic and commensal EnterobacteriaceaeBärbel Stecher
Institute of Microbiology, ETH Zurich, 8093 Zurich, Switzerland
Proc Natl Acad Sci U S A 109:1269-74. 2012..These blooms may favor reassortment of plasmid-encoded genes between pathogens and commensals fostering the spread of fitness-, virulence-, and antibiotic-resistance determinants...
- Evolution of cooperation: two for one?Martin Ackermann
Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093, USA
Curr Biol 14:R73-4. 2004..How can cooperation thrive in a selfish world? Recent evolution experiments show how bacteria themselves can generate conditions that make cooperation a winning strategy. At least in the short term...
- Bacteria as a new model system for aging studies: investigations using light microscopyMartin Ackermann
Institute of Integrative Biology, ETH Zurich, Switzerland
Biotechniques 44:564-7. 2008..This indicates that aging is a more fundamental property of organisms than was previously assumed. Bacteria can now be used as very simple model system for investigating why and how organisms age...
- Pole age affects cell size and the timing of cell division in Methylobacterium extorquens AM1Tobias Bergmiller
ETH Zurich, Department of Environmental Sciences, Zurich, Switzerland
J Bacteriol 193:5216-21. 2011..In addition, they raise questions about functional differences between cells of different ages and the coupling of cell division to cell size...
- The constancy of gene conservation across divergent bacterial ordersOlin K Silander
Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland 8092
BMC Res Notes 2:2. 2009..Here we compare levels of gene conservation across three bacterial groups to test for changes in gene functionality...
- Metabolic specialization and the assembly of microbial communitiesDavid R Johnson
Department of Environmental Systems Science, Swiss Federal Institute of Technology Zurich ETHZ, Zurich, Switzerland
ISME J 6:1985-91. 2012....
- The role of bacteriocins as selfish genetic elementsR Fredrik Inglis
Department of Environmental Sciences, ETH Zurich, Zurich, Switzerland
Biol Lett 9:20121173. 2013..This suggests that bacteriocins can act primarily as selfish genetic elements promoting their own transmission in the population, which may help explain their unique ecology and evolution...
- Division of labour and the evolution of multicellularityIaroslav Ispolatov
Department of Zoology, University of British Columbia, 6270 University Boulevard, Vancouver, British Columbia, Canada
Proc Biol Sci 279:1768-76. 2012..Stickiness can increase evolutionarily owing to the fitness advantage generated by the division of labour between cells in an aggregate...
- Bacterial growth properties at low optical densitiesMaja Novak
Institute of Integrative Biology, ETH Zurich, Zurich 8093, Switzerland
Antonie Van Leeuwenhoek 96:267-74. 2009..Significant adaptation of the evolved populations to the nutrient conditions in which they evolved for 20,000 generations was observed...
- Senescence in a bacterium with asymmetric divisionMartin Ackermann
Division of Molecular Microbiology, Biozentrum, University of Basel, CH 4056 Basel, Switzerland
Science 300:1920. 2003
- The effect of multifunctionality on the rate of evolution in yeastMarcel Salathé
Mol Biol Evol 23:721-2. 2006..However, the magnitude of this effect is small, and the results do not support the notion that multifunctionality limits a gene's rate of evolution...
- Evolution of niche width and adaptive diversificationMartin Ackermann
Division of Biological Sciences, University of California, San Diego, California 92093, USA
Evolution 58:2599-612. 2004..These results refine the conditions for adaptive diversification due to competition and formulate them in a way that might be more amenable for experimental investigations...