Publications of Frederic Bertels

Colombi, E.; Bertels, F.; Doulcier, G.; McConnell, E.; Pichugina, T.; Sohn, K. H.; Straub, C.; McCann, H.; Rainey, P. B.: Rapid dissemination of host-metabolism-manipulating transposon-like entities via integrative and conjugative elements. PNAS 121 (11), e2309263121 (2024)

Romeyer Dherbey, J.; Parab, L.; Gallie, J.; Bertels, F.: Stepwise evolution of E. coli C and ΦX174 reveals unexpected Lipopolysaccharide (LPS) diversity. Molecular Biology and Evolution 40 (7), msad154 (2023)

Fortmann-Grote, C.; von Irmer, J.; Bertels, F.: RAREFAN: A webservice to identify REPINs and RAYTs in bacterial genomes. Peer Community Journal 3, e19 (2023)

Bertels, F.; Rainey, P. B.: Ancient Darwinian replicators nested within eubacterial genomes. Bioessays 45 (2), 2200085 (2023)

van Dijk, B.; Bertels, F.; Stolk, L.; Takeuchi, N.; Rainey, P. B.: Transposable elements promote the evolution of genome streamlining. Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences 377 (1842), 20200477 (2022)

Bertels, F.; Metzner, K. J.; Regoes, R. R.: Convergent evolution as an indicator for selection during acute HIV-1 infection. Peer Community Journal 1, e4 (2021)

Park, H. J.; Gokhale, C. S.; Bertels, F.: How sequence populations persist inside bacterial genomes. Genetics 217 (7), iyab027 (2021)

Bertels, F.; Leemann, C.; Metzner, K. J.; Regoes, R.: Parallel evolution of HIV-1 in a long-term experiment. Molecular Biology and Evolution 36 (11), pp. 2400 - 2414 (2019)

Gallie, J.; Bertels, F.; Remigi, P.; Ferguson, G. C.; Nestmann, S.; Rainey, P. B.: Repeated phenotypic evolution by different genetic routes in Pseudomonas fluorescens SBW25. Molecular Biology and Evolution 36 (5), pp. 1071 - 1085 (2019)

Bons, E.; Bertels, F.; Regoes, R. R.: Estimating the mutational fitness effects distribution during early HIV infection. Virus Evolution 4 (2), vey029 (2018)

Bertels, F.; Gallie, J.; Rainey, P. B.: Identification and characterization of domesticated bacterial transposases. Genome Biology and Evolution 9 (8), pp. 2110 - 2121 (2017)

Bertels, F.; Gokhale, C. S.; Traulsen, A.: Discovering complete quasispecies in bacterial genomes. Genetics 206 (4), pp. 2149 - 2157 (2017)

Zeng, Q.; Wang, J.; Bertels, F.; Giordano, P. R.; Chilvers, M. I.; Huntley, R. B.; Vargas, J. M.; Sundin, G. W.; Jacobs, J. L.; Yang, C.-H.: Recombination of virulence genes in divergent acidovorax avenae strains that infect a common host. Molecular Plant-Microbe Interactions 30 (10), pp. 813 - 828 (2017)

Gallie, J.; Libby, E.; Bertels, F.; Remigi, P.; Jendresen, C. B.; Ferguson, G. C.; Desprat, N.; Buffing, M. F.; Sauer, U.; Beaumont, H. J. E. et al.; Martinussen, J.; Kilstrup, M.; Rainey, P. B.: Bistability in a metabolic network underpins the De Novo Evolution of colony switching in Pseudomonas fluorescens. PLoS Biology 13 (3), e1002109 (2015)

Bertels, F.; Silander, O. K.; Pachkov, M.; Rainey, P. B.; van Nimwegen, E.: Automated reconstruction of whole-genome phylogenies from short-sequence reads. Molecular Biology and Evolution 31 (5), pp. 1077 - 1088 (2014)

Ferguson, G. C.; Bertels, F.; Rainey, P. B.: Adaptive divergence in experimental populations of Pseudomonas fluorescens. V. Insight into the niche specialist fuzzy spreader compels revision of the model Pseudomonas radiation. Genetics 195 (4), pp. 1319 - 1335 (2013)

McCann, H. C.; Rikkerink, E. H. A.; Bertels, F.; Fiers, M.; Lu, A.; George, J. R.-; Andersen, M. T.; Gleave, A. P.; Haubold, B.; Wohlers, M. W. et al.; Guttman, D. S.; Wang, P. W.; Straub, C.; Vanneste, J. L.; Rainey, P. B.; Templeton, M. D.: Genomic analysis of the kiwifruit pathogen Pseudomonas syringae pv. actnidiae provides insight into the origins of an emergent plant disease. PLoS Pathogens 9 (7), e1003503 (2013)

Bertels, F.; Rainey, P. B.: Within-genome evolution of REPINs: a new familiy of miniature mobile DNA in bacteria. PLoS Genetics 7 (6), e1002132 (2011)

Bertels, F.; Rainey, P. B.: Curiosities of REPINs and RAYTs. Mobile genetic elements 1 (4), pp. 262 - 268 (2011)

Fortmann-Grote, C.; Bertels, F.; Irmer, J.: RAREFAN: a publicly accessible bioinformatic pipeline on a cloud server - Implementation and limitations. Workshop on "Life Science/Bioinformatics and HPC 2023, at GWDG (2023)