Journal Article (10)

1.
Journal Article
Parab, L.; Pal, S.; Dhar, R.: Transcription factor binding process is the primary driver of noise in gene expression. PLoS Genetics 18 (12), e1010535 (2022)
2.
Journal Article
Ardré, M.; Doulcier, G.; Brenner, N.; Rainey, P. B.: A leader cell triggers end of lag phase in populations of Pseudomonas fluorescens. microLife 3, uqac022 (2022)
3.
Journal Article
Hernandez-Beltran, J. C. R.; Miró Pina, V.; Siri‐Jégousse, A.; Palau, S.; Peña‐Miller, R.; González Casanova, A.: Segregational instability of multicopy plasmids: a population genetics approach. Ecology and Evolution 12 (12), e9469 (2022)
4.
Journal Article
Bourrat, P.; Doulcier, G.; Rose, C. J.; Rainey, P. B.; Hammerschmidt, K.: Tradeoff breaking as a model of evolutionary transitions in individuality and limits of the fitness-decoupling metaphor. eLife 11, e73715 (2022)
5.
Journal Article
Garza, D. R.; von Meijenfeldt, F. A. B.; van Dijk, B.; Boleij, A.; Huynen, M. A.; Dutilh, B. E.: Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes. BMC Ecology and Evolution 22, 101 (2022)
6.
Journal Article
Hugoson, E.; Guliaev, A.; Ammunét, T.; Guy, L.: Host adaptation in Legionellales Is 1.9 Ga, coincident with eukaryogenesis. Molecular Biology and Evolution 39 (3), msac037 (2022)
7.
Journal Article
Juncheng, E.; Kim, Y.; Bielecki, J.; Sikorski, M.; de Wijn, R.; Fortmann-Grote, C.; Sztuk-Dambietz, J.; Koliyadu, J. C. P.; Letrun, R.; Kirkwood, H. J. et al.; Sato, T.; Bean, R.; Mancuso, A. P.; Kim, C.: Expected resolution limits of x-ray free-electron laser single-particle imaging for realistic source and detector properties. Structural Dynamics 9 (6), 064101 (2022)
8.
Journal Article
Theodosiou, L.; Farr, A.; Rainey, P. B.: Barcoding populations of Pseudomonas fluorescens SBW25. Journal of Molecular Evolution: the Journal of the International Society of Molecular Evolution 91, pp. 254 - 262 (2022)
9.
Journal Article
van Dijk, B.: Cacatoo: building, exploring, and sharing spatiallystructured models of biological systems. The Journal of Open Source Software 7 (70), 3948 (2022)
10.
Journal Article
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)

Conference Report (1)

11.
Conference Report
Fortmann-Grote, C.; Rainey, P. B.: From genome annotation to knowledge graph: the case of Pseudomonas fluorescens SBW25. Intelligent Systems for Molecular Biology, July 13, 2022., (2022)

Thesis - PhD (1)

12.
Thesis - PhD
Barnett, M.: How bias in the production of phenotypic variation shapes and is shaped by adaptive evolution. Dissertation, x, 127 pp., Faculty of Mathematics and Natural Sciences at Kiel University, Kiel (2022)

Thesis - Master (2)

13.
Thesis - Master
Arriens, V.: There are at least two distinct distributions of IS-elements in Escherichia coli genomes. Master, vi, 32 pp., Universität zu Lübeck, Lübeck (2022)
14.
Thesis - Master
Bharadwaj, P. V.: Inferring REPIN duplication in Pseudomonas chlororaphis. Master, 47 pp., Department of Biological Sciences, Indian Institute of Science Education and Research, Bhopal (2022)

Working Paper (3)

15.
Working Paper
Romeyer Dherbey, J.; Parab, L.; Gallie, J.; Bertels, F.: E. coli-ΦX174 genotype to phenotype map reveals flexibility and diversity in LPS structures. (submitted)
16.
Working Paper
Wortel, M. T.; Agashe, D.; Bailey, S. F.; Bank, C.; Bisschop, K.; Blankers, T.; Cairns, J.; Colizzi, E. S.; Cusseddu, D.; Desai, M. M. et al.; van Dijk, B.; Egas, M.; Ellers, J.; Groot, A. T.; Heckel, D. G.; Johnson, M. L.; Kraaijeveld, K.; Krug, J.; Laan, L.; Laessig, M.; Lind, P. A.; Meijer, J.; Noble, L. M.; Okasha, S.; Rainey, P. B.; Rozen, D. E.; Shitut, S.; Tans, S. J.; Tenaillon, O.; Teotonio, H.; de Visser, J. A. G. M.; Vroomans, R. M. A.; Werner, G. D. A.; Wertheim, B.; Pennings, P. S.: The why, what and how of predicting evolution across biology: from disease to biotechnology to biodiversity. EcoEvoRxiv Preprints (2022)
17.
Working Paper
Ardré, M.; Doulcier, G.; Brenner, N.; Rainey, P. B.: Interaction among bacterial cells triggers exit from lag phase. (submitted)
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