Browse by Basel Contributors ID
2023Jelli, Eric and Ohmura, Takuya and Netter, Niklas and Abt, Martin and Jiménez-Siebert, Eva and Neuhaus, Konstantin and Rode, Daniel K. H. and Nadell, Carey D. and Drescher, Knut. (2023) Single-cell segmentation in bacterial biofilms with an optimized deep learning method enables tracking of cell lineages and measurements of growth rates. Molecular Microbiology, 119 (6). pp. 659-676. Hallatschek, Oskar and Datta, Sujit S. and Drescher, Knut and Dunkel, Jörn and Elgeti, Jens and Waclaw, Bartek and Wingreen, Ned S.. (2023) Proliferating active matter. Nature Reviews Physics. pp. 1-13. Vidakovic, Lucia and Mikhaleva, Sofya and Jeckel, Hannah and Nisnevich, Valerya and Strenger, Kerstin and Neuhaus, Konstantin and Raveendran, Keerthana and Ben-Moshe, Noa Bossel and Aznaourova, Marina and Nosho, Kazuki and Drescher, Antje and Schmeck, Bernd and Schulte, Leon N. and Persat, Alexandre and Avraham, Roi and Drescher, Knut. (2023) Biofilm formation on human immune cells is a multicellular predation strategy of Vibrio cholerae. Cell, 186 (12). pp. 2690-2704.e20. Skinner, Dominic J. and Jeckel, Hannah and Martin, Adam C. and Drescher, Knut and Dunkel, Jörn. (2023) Topological packing statistics of living and nonliving matter. Science Advances, 9 (36). eadg1261. Manner, Christina and Dias Teixeira, Raphael and Saha, Dibya and Kaczmarczyk, Andreas and Zemp, Raphaela and Wyss, Fabian and Jaeger, Tina and Laventie, Benoit-Joseph and Boyer, Sebastien and Malone, Jacob G. and Qvortrup, Katrine and Andersen, Jens Bo and Givskov, Michael and Tolker-Nielsen, Tim and Hiller, Sebastian and Drescher, Knut and Jenal, Urs. (2023) A genetic switch controls Pseudomonas aeruginosa surface colonization. Nature Microbiology, 8 (8). pp. 1520-1533. 2022Teschler, Jennifer K. and Jiménez-Siebert, Eva and Jeckel, Hannah and Singh, Praveen K. and Park, Jin Hwan and Pukatzki, Stefan and Nadell, Carey D. and Drescher, Knut and Yildiz, Fitnat H.. (2022) VxrB Influences Antagonism within Biofilms by Controlling Competition through Extracellular Matrix Production and Type 6 Secretion. mBio, 13 (4). e0188522. Teschler, Jennifer K. and Nadell, Carey D. and Drescher, Knut and Yildiz, Fitnat H.. (2022) Mechanisms underlying Vibrio cholerae biofilm formation and dispersion. Annual Reviews of Microbiology, 76. pp. 503-532. Ren, Zhi and Jeckel, Hannah and Simon-Soro, Aurea and Xiang, Zhenting and Liu, Yuan and Cavalcanti, Indira M. and Xiao, Jin and Tin, Nyi-Nyi and Hara, Anderson and Drescher, Knut and Koo, Hyun. (2022) Interkingdom assemblages in human saliva display group-level surface mobility and disease-promoting emergent functions. Proceedings of the National Academy of Sciences of the United States of America, 119 (41). e2209699119. Jeckel, Hannah and Díaz-Pascual, Francisco and Skinner, Dominic J. and Song, Boya and Jiménez-Siebert, Eva and Strenger, Kerstin and Jelli, Eric and Vaidya, Sanika and Dunkel, Jörn and Drescher, Knut. (2022) Shared biophysical mechanisms determine early biofilm architecture development across different bacterial species. PLoS Biology, 20 (10). e3001846. 2021Diaz-Pascual, Francisco and Lempp, Martin and Nosho, Kazuki and Jeckel, Hannah and Jo, Jeanyoung K. and Neuhaus, Konstantin and Hartmann, Raimo and Jelli, Eric and Hansen, Mads Frederik and Price-Whelan, Alexa and Dietrich, Lars E. P. and Link, Hannes and Drescher, Knut. (2021) Spatial alanine metabolism determines local growth dynamics of Escherichia coli colonies. Singh, Praveen K. and Rode, Daniel K. H. and Buffard, Pauline and Nosho, Kazuki and Bayer, Miriam and Jeckel, Hannah and Jelli, Eric and Neuhaus, Konstantin and Jiménez-Siebert, Eva and Peschek, Nikolai and Glatter, Timo and Papenfort, Kai and Drescher, Knut. (2021) Vibrio cholerae biofilm dispersal regulator causes cell release from matrix through type IV pilus retraction. Maestre-Reyna, Manuel and Huang, Wei-Cheng and Wu, Wen-Jin and Singh, Praveen K. and Hartmann, Raimo and Wang, Po-Hsun and Lee, Cheng-Chung and Hikima, Takaaki and Yamamoto, Masaki and Bessho, Yoshitaka and Drescher, Knut and Tsai, Ming-Daw and Wang, Andrew H.-J.. (2021) Vibrio cholerae biofilm scaffolding protein RbmA shows an intrinsic, phosphate-dependent autoproteolysis activity. IUBMB Life, 73 (2). pp. 418-431. Skinner, Dominic J. and Song, Boya and Jeckel, Hannah and Jelli, Eric and Drescher, Knut and Dunkel, Jörn. (2021) Topological Metric Detects Hidden Order in Disordered Media. Physical Review Letters, 126 (4). 048101. Jeckel, Hannah and Drescher, Knut. (2021) Advances and opportunities in image analysis of bacterial cells and communities. FEMS Microbiology Reviews, 45 (4). fuaa062. Hartmann, Raimo and Jeckel, Hannah and Jelli, Eric and Singh, Praveen K. and Vaidya, Sanika and Bayer, Miriam and Rode, Daniel K. H. and Vidakovic, Lucia and Díaz-Pascual, Francisco and Fong, Jiunn C. N. and Dragoš, Anna and Lamprecht, Olga and Thöming, Janne G. and Netter, Niklas and Häussler, Susanne and Nadell, Carey D. and Sourjik, Victor and Kovács, Ákos T. and Yildiz, Fitnat H. and Drescher, Knut. (2021) Quantitative image analysis of microbial communities with BiofilmQ. Nature Microbiology, 6 (2). pp. 151-156. Wimmi, Stephan and Balinovic, Alexander and Jeckel, Hannah and Selinger, Lisa and Lampaki, Dimitrios and Eisemann, Emma and Meuskens, Ina and Linke, Dirk and Drescher, Knut and Endesfelder, Ulrike and Diepold, Andreas. (2021) Author Correction: Dynamic relocalization of cytosolic type III secretion system components prevents premature protein secretion at low external pH. Nature communications, 12 (1). p. 2685. Diaz-Pascual, Francisco and Lempp, Martin and Nosho, Kazuki and Jeckel, Hannah and Jo, Jeanyoung K. and Neuhaus, Konstantin and Hartmann, Raimo and Jelli, Eric and Hansen, Mads Frederik and Price-Whelan, Alexa and Dietrich, Lars E. P. and Link, Hannes and Drescher, Knut. (2021) Spatial alanine metabolism determines local growth dynamics of textitEscherichia coli colonies. eLife, 10. e70794. Bond, Matthew C. and Vidakovic, Lucia and Singh, Praveen K. and Drescher, Knut and Nadell, Carey D.. (2021) Matrix-trapped viruses can prevent invasion of bacterial biofilms by colonizing cells. eLife, 10. e65355. Yordanov, Stoyan and Neuhaus, Konstantin and Hartmann, Raimo and Díaz-Pascual , Francisco and Vidakovic, Lucia and Singh, Praveen K. and Drescher, Knut. (2021) Single-objective high-resolution confocal light sheet fluorescence microscopy for standard biological sample geometries. Biomedical Optics Express, 12 (6). pp. 3372-3391. Wimmi, Stephan and Balinovic, Alexander and Jeckel, Hannah and Selinger, Lisa and Lampaki, Dimitrios and Eisemann, Emma and Meuskens, Ina and Linke, Dirk and Drescher, Knut and Endesfelder, Ulrike and Diepold, Andreas. (2021) Dynamic relocalization of cytosolic type III secretion system components prevents premature protein secretion at low external pH. Nature communications, 12 (1). p. 1625. Wong, Gerard C. L. and Antani, Jyot D. and Lele, Pushkar P. and Chen, Jing and Nan, Beiyan and Kühn, Marco J. and Persat, Alexandre and Bru, Jean-Louis and Molin Høyland-Kroghsbo, Nina and Siryaporn, Albert and Conrad, Jacinta C. and Carrara, Francesco and Yawata, Yutaka and Stocker, Roman and Brun, Yves V. and Whitfield, Gregory B. and Lee, Calvin K. and de Anda, Jaime and Schmidt, William C. and Golestanian, Ramin and O'Toole, George A. and Floyd, Kyle A. and Yildiz, Fitnat H. and Yang, Shuai and Jin, Fan and Toyofuku, Masanori and Eberl, Leo and Nomura, Nobuhiko and Zacharoff, Lori A. and El-Naggar, Mohamed Y. and Yalcin, Sibel Ebru and Malvankar, Nikhil S. and Rojas-Andrade, Mauricio D. and Hochbaum, Allon I. and Yan, Jing and Stone, Howard A. and Wingreen, Ned S. and Bassler, Bonnie L. and Wu, Yilin and Xu, Haoran and Drescher, Knut and Dunkel, Jörn. (2021) Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation. Physical biology, 18 (5). 051501. 2020Simmons, Emilia L. and Bond, Matthew C. and Koskella, Britt and Drescher, Knut and Bucci, Vanni and Nadell, Carey D.. (2020) Biofilm Structure Promotes Coexistence of Phage-Resistant and Phage-Susceptible Bacteria. mSystems, 5 (3). e00877-19. Brückner, Stefan and Schubert, Rajib and Kraushaar, Timo and Hartmann, Raimo and Hoffmann, Daniel and Jelli, Eric and Drescher, Knut and Müller, Daniel J. and Oliver Essen, Lars and Mösch, Hans-Ulrich. (2020) Kin discrimination in social yeast is mediated by cell surface receptors of the Flo11 adhesin family. eLife, 9. e55587. Gallego-Hernandez, A. L. and DePas, W. H. and Park, J. H. and Teschler, J. K. and Hartmann, R. and Jeckel, H. and Drescher, K. and Beyhan, S. and Newman, D. K. and Yildiz, F. H.. (2020) Upregulation of virulence genes promotes Vibrio cholerae biofilm hyperinfectivity. Proceedings of the National Academy of Sciences of the United States of America, 117 (20). pp. 11010-11017. Schwechheimer, Carmen and Hebert, Kassidy and Tripathi, Sarvind and Singh, Praveen K. and Floyd, Kyle A. and Brown, Elise R. and Porcella, Monique E. and Osorio, Jacqueline and Kiblen, Joseph T. M. and Pagliai, Fernando A. and Drescher, Knut and Rubin, Seth M. and Yildiz, Fitnat H.. (2020) A tyrosine phosphoregulatory system controls exopolysaccharide biosynthesis and biofilm formation in Vibrio cholerae. PLoS Pathogens, 16 (8). e1008745. Otto, Simon B. and Martin, Marivic and Schäfer, Daniel and Hartmann, Raimo and Drescher, Knut and Brix, Susanne and Dragoš, Anna and Kovács, Ákos T.. (2020) Privatization of Biofilm Matrix in Structurally Heterogeneous Biofilms. mSystems, 5 (4). e00425-20. Hartmann, Raimo and van Teeseling, Muriel C. F. and Thanbichler, Martin and Drescher, Knut. (2020) BacStalk: A comprehensive and interactive image analysis software tool for bacterial cell biology. Molecular Microbiology, 114 (1). pp. 140-150. Rode, Daniel K. H. and Singh, Praveen K. and Drescher, Knut. (2020) Multicellular and unicellular responses of microbial biofilms to stress. Biological Chemistry, 401 (12). pp. 1365-1374. Peschek, Nikolai and Herzog, Roman and Singh, Praveen K. and Sprenger, Marcel and Meyer, Fabian and Fröhlich, Kathrin S. and Schröger, Luise and Bramkamp, Marc and Drescher, Knut and Papenfort, Kai. (2020) RNA-mediated control of cell shape modulates antibiotic resistance in Vibrio cholerae. Nature Communications, 11. p. 6067. Ishikawa, Takuji and Pedley, T. J. and Drescher, Knut and Goldstein, Raymond E.. (2020) Stability of dancing Volvox. Journal of Fluid Mechanics, 903. A11. 2019Hartmann, Raimo and Singh, Praveen K. and Pearce, Philip and Mok, Rachel and Song, Boya and Díaz-Pascual, Francisco and Dunkel, Jörn and Drescher, Knut. (2019) Emergence of three-dimensional order and structure in growing biofilms. Nature Physics, 15 (3). pp. 251-256. Jeckel, Hannah and Jelli, Eric and Hartmann, Raimo and Singh, Praveen K. and Mok, Rachel and Totz, Jan Frederik and Vidakovic, Lucia and Eckhardt, Bruno and Dunkel, Jörn and Drescher, Knut. (2019) Learning the space-time phase diagram of bacterial swarm expansion. Proceedings of the National Academy of Sciences of the United States of America, 116 (5). pp. 1489-1494. Drescher, Knut. (2019) Bakterielle Multizellularität in Biofilmen. BIOspektrum, 25 (3). pp. 258-260. Jeckel, Hannah and Matthey, Noémie and Drescher, Knut. (2019) Common concepts for bacterial collectives. eLife, 8. e47019. Nisbett, Lisa-Marie and Binnenkade, Lucas and Bacon, Bezalel and Hossain, Sajjad and Kotloski, Nicholas J. and Brutinel, Evan D. and Hartmann, Raimo and Drescher, Knut and Arora, Dhruv P. and Muralidharan, Sandhya and Thormann, Kai M. and Gralnick, Jeffrey A. and Boon, Elizabeth M.. (2019) NosP Signaling Modulates the NO/H-NOX-Mediated Multicomponent c-Di-GMP Network and Biofilm Formation in Shewanella oneidensis. Biochemistry, 58 (48). pp. 4827-4841. Colin, Remy and Drescher, Knut and Sourjik, Victor. (2019) Chemotactic behaviour of Escherichia coli at high cell density. Nature Communications, 10 (1). p. 5329. Pearce, Philip and Song, Boya and Skinner, Dominic J. and Mok, Rachel and Hartmann, Raimo and Singh, Praveen K. and Jeckel, Hannah and Oishi, Jeffrey S. and Drescher, Knut and Dunkel, Jörn. (2019) Flow-Induced Symmetry Breaking in Growing Bacterial Biofilms. Physical Review Letters, 123 (25). p. 258101. Díaz-Pascual, Francisco and Hartmann, Raimo and Lempp, Martin and Vidakovic, Lucia and Song, Boya and Jeckel, Hannah and Thormann, Kai M. and Yildiz, Fitnat H. and Dunkel, Jörn and Link, Hannes and Nadell, Carey D. and Drescher, Knut. (2019) Breakdown of Vibrio cholerae biofilm architecture induced by antibiotics disrupts community barrier function. Nature Microbiology, 4 (12). pp. 2136-2145. 2018Simmons, Matthew and Drescher, Knut and Nadell, Carey D. and Bucci, Vanni. (2018) Phage mobility is a core determinant of phage-bacteria coexistence in biofilms. ISME Journal, 12 (2). pp. 531-543. Vidakovic, Lucia and Singh, Praveen K. and Hartmann, Raimo and Nadell, Carey D. and Drescher, Knut. (2018) Dynamic biofilm architecture confers individual and collective mechanisms of viral protection. Nature Microbiology, 3 (1). pp. 26-31. Martínez-García, Ricardo and Nadell, Carey D. and Hartmann, Raimo and Drescher, Knut and Bonachela, Juan A.. (2018) Cell adhesion and fluid flow jointly initiate genotype spatial distribution in biofilms. PLoS Computational Biology, 14 (4). e1006094. Dragoš, Anna and Kiesewalter, Heiko and Martin, Marivic and Hsu, Chih-Yu and Hartmann, Raimo and Wechsler, Tobias and Eriksen, Carsten and Brix, Susanne and Drescher, Knut and Stanley-Wall, Nicola and Kümmerli, Rolf and Kovács, Ákos T.. (2018) Division of Labor during Biofilm Matrix Production. Current Biology, 28 (12). pp. 1903-1913.e5. Beuter, Dominik and Gomes-Filho, José Vicente and Randau, Lennart and Díaz-Pascual, Francisco and Drescher, Knut and Link, Hannes. (2018) Selective Enrichment of Slow-Growing Bacteria in a Metabolism-Wide CRISPRi Library with a TIMER Protein. ACS Synthetic Biology, 7 (12). pp. 2775-2782. 2017Nadell, Carey D. and Ricaurte, Deirdre and Yan, Jing and Drescher, Knut and Bassler, Bonnie L.. (2017) Flow environment and matrix structure interact to determine spatial competition in Pseudomonas aeruginosa biofilms. eLife, 6. e21855. Fong, Jiunn C. N. and Rogers, Andrew and Michael, Alicia K. and Parsley, Nicole C. and Cornell, William-Cole and Lin, Yu-Cheng and Singh, Praveen K. and Hartmann, Raimo and Drescher, Knut and Vinogradov, Evgeny and Dietrich, Lars E. P. and Partch, Carrie L. and Yildiz, Fitnat H.. (2017) Structural dynamics of RbmA governs plasticity of Vibrio cholerae biofilms. eLife, 6. e26163. Singh, Praveen K. and Bartalomej, Sabina and Hartmann, Raimo and Jeckel, Hannah and Vidakovic, Lucia and Nadell, Carey D. and Drescher, Knut. (2017) Vibrio cholerae Combines Individual and Collective Sensing to Trigger Biofilm Dispersal. Current Biology, 27 (21). pp. 3359-3366.e7. 2016Drescher, Knut and Dunkel, Jörn and Nadell, Carey D. and van Teeffelen, Sven and Grnja, Ivan and Wingreen, Ned S. and Stone, Howard A. and Bassler, Bonnie L.. (2016) Architectural transitions in Vibrio cholerae biofilms at single-cell resolution. Proceedings of the National Academy of Sciences of the United States of America, 113 (14). E2066-E2072. Nadell, Carey D. and Drescher, Knut and Foster, Kevin R.. (2016) Spatial structure, cooperation and competition in biofilms. Nature Reviews Microbiology, 14 (9). pp. 589-600. Besharova, Olga and Suchanek, Verena M. and Hartmann, Raimo and Drescher, Knut and Sourjik, Victor. (2016) Diversification of Gene Expression during Formation of Static Submerged Biofilms by Escherichia coli. Frontiers in Microbiology, 7. p. 1568. Nadell, Carey D. and Hartmann, Raimo and Drescher, Knut. (2016) An Emerging Grip on the Growth of Grounded Bacteria. ACS Nano, 10 (10). pp. 9109-9110. 2015Nadell, Carey D. and Drescher, Knut and Wingreen, Ned S. and Bassler, Bonnie L.. (2015) Extracellular matrix structure governs invasion resistance in bacterial biofilms. ISME Journal, 9 (8). pp. 1700-1709. Persat, Alexandre and Nadell, Carey D. and Kim, Minyoung Kevin and Ingremeau, Francois and Siryaporn, Albert and Drescher, Knut and Wingreen, Ned S. and Bassler, Bonnie L. and Gitai, Zemer and Stone, Howard A.. (2015) The mechanical world of bacteria. Cell, 161 (5). pp. 988-997. 2014Kim, Minyoung Kevin and Drescher, Knut and Pak, On Shun and Bassler, Bonnie L. and Stone, Howard A.. (2014) Filaments in curved streamlines: Rapid formation of; Staphylococcus aureus; biofilm streamers. New Journal of Physics, 16 (6). 065024. Drescher, Knut and Nadell, Carey D. and Stone, Howard A. and Wingreen, Ned S. and Bassler, Bonnie L.. (2014) Solutions to the public goods dilemma in bacterial biofilms. Current Biology, 24 (1). pp. 50-55. 2013Sareh, Sina and Rossiter, Jonathan and Conn, Andrew and Drescher, Knut and Goldstein, Raymond E.. (2013) Swimming like algae: biomimetic soft artificial cilia. Journal of the Royal Society, Interface, 10 (78). p. 20120666. Nadell, Carey D. and Bucci, Vanni and Drescher, Knut and Levin, Simon A. and Bassler, Bonnie L. and Xavier, João B.. (2013) Cutting through the complexity of cell collectives. Proceedings of the Royal Society B: Biological Sciences, 280 (1755). p. 20122770. Dunkel, Jörn and Heidenreich, Sebastian and Drescher, Knut and Wensink, Henricus H. and Bär, Markus and Goldstein, Raymond E.. (2013) Fluid dynamics of bacterial turbulence. Physical Review Letters, 110 (22). p. 228102. Drescher, Knut and Shen, Yi and Bassler, Bonnie L. and Stone, Howard A.. (2013) Biofilm streamers cause catastrophic disruption of flow with consequences for environmental and medical systems. Proceedings of the National Academy of Sciences of the United States of America, 110 (11). pp. 4345-4350. O'Loughlin, Colleen T. and Miller, Laura C. and Siryaporn, Albert and Drescher, Knut and Semmelhack, Martin F. and Bassler, Bonnie L.. (2013) A quorum-sensing inhibitor blocks Pseudomonas aeruginosa virulence and biofilm formation. Proceedings of the National Academy of Sciences of the United States of America, 110 (44). pp. 17981-17986. 2012Wensink, Henricus H. and Dunkel, Jörn and Heidenreich, Sebastian and Drescher, Knut and Goldstein, Raymond E. and Löwen, Hartmut and Yeomans, Julia M.. (2012) Meso-scale turbulence in living fluids. Proceedings of the National Academy of Sciences of the United States of America, 109 (36). pp. 14308-14313. 2011Solari, Cristian A. and Drescher, Knut and Ganguly, Sujoy and Kessler, John O. and Michod, Richard E. and Goldstein, Raymond E.. (2011) Flagellar phenotypic plasticity in volvocalean algae correlates with Péclet number. Journal of the Royal Society, Interface, 8 (63). pp. 1409-1417. Solari, Cristian A. and Drescher, Knut and Goldstein, Raymond E.. (2011) The flagellar photoresponse in Volvox species. Journal of Phycology, 47 (3). pp. 580-583. Drescher, Knut and Dunkel, Jörn and Cisneros, Luis H. and Ganguly, Sujoy and Goldstein, Raymond E.. (2011) Fluid dynamics and noise in bacterial cell-cell and cell-surface scattering. Proceedings of the National Academy of Sciences of the United States of America, 108 (27). pp. 10940-10945. 2010Drescher, Knut and Goldstein, Raymond E. and Tuval, Idan. (2010) Fidelity of adaptive phototaxis. Proceedings of the National Academy of Sciences of the United States of America, 107 (25). pp. 11171-11176. Drescher, Knut and Goldstein, Raymond E. and Michel, Nicolas and Polin, Marco and Tuval, Idan. (2010) Direct measurement of the flow field around swimming microorganisms. Physical Review Letters, 105 (16). p. 168101. 2009Bulte, Daniel P. and Drescher, Knut and Jezzard, Peter. (2009) Comparison of hypercapnia-based calibration techniques for measurement of cerebral oxygen metabolism with MRI. Magnetic Resonance in Medicine, 61 (2). pp. 391-398. Drescher, Knut and Leptos, Kyriacos C. and Goldstein, Raymond E.. (2009) How to track protists in three dimensions. Review of Scientific Instruments, 80 (1). 014301. Drescher, Knut and Leptos, Kyriacos C. and Tuval, Idan and Ishikawa, Takuji and Pedley, Timothy J. and Goldstein, Raymond E.. (2009) Dancing volvox: hydrodynamic bound states of swimming algae. Physical Review Letters, 102 (16). p. 168101. Polin, Marco and Tuval, Idan and Drescher, Knut and Gollub, J. P. and Goldstein, Raymond E.. (2009) Chlamydomonas swims with two "gears" in a eukaryotic version of run-and-tumble locomotion. Science, 325 (5939). pp. 487-490. |
