Publications
In preparation
Microbial interactions set the tempo and mode of antibiotic resistance evolution. L Zandbergen, J van den Heuvel, A Farr, B Zwaan, A de Visser, MGJ de Vos.
Multi-level selection of antimicrobial resistance in polymicrobial communities. L Zandbergen, M Bustamante, JM Luursema, T Hackl, MGJ de Vos.
Ecological legacy effects determine the evolvability of antimicrobial resistance. V Jansen, O Bouhlali, L Zandbergen, A Vlasblom, S Dunn, T Suurd, T van der Lelie, J Kool, R Nijland, A de Jong, OP Kuipers, A McNally, A de Visser, MGJ de Vos.
Urosepsis vs urinary tract infection isolates: a comparative screen. K Muller*, M Bustamante*, T Ijedema, D Madrid Iparraguirre, A Hamprecht, MGJ de Vos. *Equal contribution.
The impact of plasmids on the de-novo evolution of ciprofloxacin resistance in Lactococcus lactis. TJB van Eldijk, FJ Weissing, OP Kuipers, MGJ de Vos, GS van Doorn. Under review.
Catch it if you can: an eco-evolutionary perspective on antimicrobial resistance in a One Health context.
Preprints
Community context influences the conjugation efficiency of E. coli. M Bustamante, F Koopman, J Martens, JK Brons, J DelaFuente, T Hackl, OP Kuipers, S van Doorn, MGJ de Vos, bioRxiv 2024.01.30.577951. Resubmitted.
Iron regulates contrasting toxicity of uropathogenic Eschericia coli in macrophages and epithelial cells. Deepti Dabral, Hiren Ghosh, Masato Niwa, Tasuku Hirayama, Rinse de Boer, Marjon de Vos, Geert van den Bogaart. BioRxiv, 2022.
Published
Metabolic interactions shape a community’s phenotype. Chrats Melkonian, Michael Seidl, Justin JJ van der Hooft, Marjon GJ de Vos. Trends in Microbiology, 2022.
Using functional annotations to study pairwise interactions in urinary tract infection communities. Elena G. Lara, Isabelle van der Windt, Douwe Molenaar, Marjon G. J. de Vos, and Chrats Melkonian. Genes, 2021, 12(8), 1221.
The good and the bad: Ecological interactions between the urinary microbiota and uropathogens. LE Zandbergen, T Halverson, JK Brons, AJ Wolfe , MGJ de Vos. Frontiers in Microbiology, 2021,12:659450.
Polymicrobial infections: the influence of the ecological community on the development of infections. LE Zandbergen, MGJ de Vos. Tijdschrift voor Infectieziekten, 2020, 15 (6), 221-226. (Dutch manuscript)
Predicting evolution using regulatory architecture. Philippe Nghe*, Marjon de Vos*, Enzo Kingma*, Manjunatha Kogenaru, Frank Poelwijk, Liedewij Laan, Sander Tans. Annual Review of Biophysics, 2020, 49, 181-197. *Equal contribution
Characterization of fosfomycin heteroresistance among MDR Escherichia coli isolates from hospitalized patients in Rio de Janeiro, Brazil. Ana Carolina da Cruz Campos, Nathália Andrade, Natacha Couto, Nico Mutters, Marjon de Vos, Ana Cláudia Rosa, Paulo Damasco, Jerome lo ten Foe, Alexander Friedrich, Monika A. Chlebowicz-Flissikowska, and John Rossen. Journal of Global Antimicrobial Resistance, 2020.
Fast identification of Escherichia coli in urinary tract infections using a virulence gene based PCR approach in a novel thermal cycler. Jolanda Brons, Stefanie Vink, Marjon de Vos, Stefan Reuter, Ulrich Dobrindt, Jan Dirk van Elsas. Journal of Microbiological Methods, 2020, 169, 105799. #nextgenpcr
Microbial Evolutionary Medicine – from theory to clinical practice. S Breum Andersen, BJ Shapiro, C Vandenbroucke-Grauls, MGJ de Vos, evolmedworkshop 2018, PeerJ Preprint. Published in Lancet Infectious Diseases, April 30 2019
Ecology dictates evolution? About the importance of genetic and ecological constraints in adaptation. MGJ de Vos, SE Schoustra, JAGM de Visser. 2018, OSF Preprint. Published in EPL (Europhysics Letters), 2018, Volume 122, Number 5 Focus issue Evolutionary Modeling and Experimental Evolution – In Highlights of 2018
Polymicrobial infections: ecosystems with special properties. MGJ de Vos, JAGM de Visser, JWA Rossen, BJ Zwaan. Nederlands Tijdschrift voor Geneeskunde, 2018, 162 (D2224) (Dutch manuscript) English abstract [PDF]
Interaction networks, ecological stability, and collective antibiotic tolerance in polymicrobial infections. MGJ de Vos, Zagorski M, McNally A, Bollenbach T. 2017, Proceedings of the National Academy of Sciences. 2017, 114 (40), 10666–10671 [PDF][PDF SI]
Breaking evolutionary constraint with a tradeoff ratchet. MGJ de Vos, A Dawid, V Sunderlikova, SJ Tans. 2015, Proceedings of the National Academy of Sciences 112 (48), 14906-14911
Suppressive Drug Interactions between Antifungals. MGJ de Vos, T Bollenbach. 2014, Chemistry & Biology 21 (4), 439-440. Preview
Optimality in evolution: new insights from synthetic biology. *MGJ de Vos, *FJ Poelwijk, SJ Tans. 2013, Current opinion in biotechnology 24 (4), 797-802. *Equal contribution.
Environmental dependence of genetic constraint. MGJ de Vos, FJ Poelwijk, N Battich, JDT Ndika, SJ Tans. 2013, PLoS Genet 9 (6), e1003580
Optimality and evolution of transcriptionally regulated gene expression. FJ Poelwijk, PD Heyning, MGJ de Vos, DJ Kiviet, SJ Tans. 2011, BMC systems biology 5 (1), 128
Tradeoffs and optimality in the evolution of gene regulation. FJ Poelwijk, MGJ de Vos, SJ Tans. 2011, Cell 146 (3), 462-470
Multiple peaks and reciprocal sign epistasis in an empirically determined genotype-phenotype landscape. A Dawid, DJ Kiviet, M Kogenaru, M de Vos, SJ Tans. 2010, Chaos 20 (2), 02
Revealing evolutionary pathways by fitness landscape reconstruction. M Kogenaru, MGJ de Vos, SJ Tans. 2009, Critical reviews in biochemistry and molecular biology 44 (4), 169-174
Diversity of nifH gene pools in the rhizosphere of two cultivars of sorghum (Sorghum bicolor) treated with contrasting levels of nitrogen fertilizer. MRR Coelho, M De Vos, NP Carneiro, IE Marriel, E Paiva, L Seldin. 2008, FEMS microbiology letters 279 (1), 15-22
Identification of the Missing Links in Prokaryotic Pentose Oxidation Pathways – evidence for enzyme recruitment. Stan JJ Brouns, Jasper Walther, Ambrosius PL Snijders, Harmen JG van de Werken, Hanneke LDM Willemen, Petra Worm, Marjon GJ de Vos, Anders Andersson, Magnus Lundgren, Hortense FM Mazon, Robert HH van den Heuvel, Peter Nilsson, Laurent Salmon, Willem M de Vos, Phillip C Wright, Rolf Bernander, John van der Oost. 2006, Journal of Biological Chemistry 281 (37), 27378-27388
Reconstruction of central carbon metabolism in Sulfolobus solfataricus using a two-dimensional gel electrophoresis map, stable isotope labelling and DNA microarray analysis. Ambrosius PL Snijders, Jasper Walther, Stefan Peter, Iris Kinnman, Marjon GJ De Vos, Harmen JG Van de Werken, Stan JJ Brouns, John Van der Oost, Phillip C Wright. 2006, Proteomics 6 (5), 1518-1529.
A fast method for quantitative proteomics based on a combination between two‐dimensional electrophoresis and 15N‐metabolic labelling. APL Snijders, MGJ de Vos, B de Koning, PC Wright. 2005, Electrophoresis 26 (16), 3191-3199
Novel approach for peptide quantitation and sequencing based on 15N and 13C metabolic labeling. APL Snijders, MGJ de Vos, PC Wright. 2005, Journal of proteome research 4 (2), 578-585
microbecoevo 