Fernandez Fuentes D, Manfredi P, Jenal U, Zampieri M. Pareto optimality between growth-rate and lag-time couples metabolic noise to phenotypic heterogeneity in Escherichia coli. Nat Commun 12, 3204 (2021). https://doi.org/10.1038/s41467-021-23522-0 

Huber H, Lang H P, Lang D, Wüthrich D, Hinic V, Gerber C, Egli A, Meyer E. Rapid and Ultrasensitive Detection of Mutations and Genes Relevant to Antimicrobial Resistance in Bacteria. Global Challenges 2020, doi: 10.1002/gch2.20200066

Vock I, Aguilar-Bultet L, Egli A, Tamma PD, Tschudin-Sutter S. Infections in Patients Colonized With Extended-Spectrum Beta-Lactamase-Producing Enterobacterales - A Retrospective Cohort Study. Clin Infect Dis 2020. Online ahead of print.

Santi I, Manfredi P, Maffei E, Egli A, Jenal U. Evolution of Antibiotic Tolerance Shapes Resistance Development in Chronic Pseudomonas aeruginosa Infections. bioRxiv 2020.10.23.352104; doi: https://doi.org/10.1101/2020.10.23.352104  

Aguilar-Bultet L, Bagutti C, Egli A, Alt M, Maurer Pekerman L, Schindler R, Furger R, Eichenberger L, Roloff T, Steffen I, Huebner P, Stadler T, Tschudin-Sutter S. Identification of a cluster of Extended-Spectrum Beta-Lactamase producing Klebsiella pneumoniae sequence type 101 isolated from food and humans. Clin Infect Dis 2020, Online ahead of print.

Benz F, Huisman JS, Bakkeren E, Herter JA, Stadler T, Ackermann M, Diard M,Egli A*, Hall AR, Hardt WD, Bonhoeffer S. Plasmid- and strain-specific factors drive variation in ESBL-plasmid spread in vitro and in vivo. ISME J. 2020 Nov 4. doi: 10.1038/s41396-020-00819-4. Online ahead of print. PMID: 33149210; * shared last author

Liu X, Kimmey JM, Matarazzo L, de Bakker V, Van Maele L, Sirard JC, Nizet V, Veening JW. Exploration of Bacterial Bottlenecks and Streptococcus pneumoniae Pathogenesis by CRISPRi-Seq. Cell Host Microbe. 2020 Oct 22:S1931-3128(20)30559-X. doi: 10.1016/j.chom.2020.10.001. Epub ahead of print. PMID: 33120116.

Goldenberger D, Vuichard-Gysin D, Herzog K, Hinić V, Seth-Smith H, Egli A. First case of IMP-15-producing Pseudomonas aeruginosa in Switzerland: Challenging laboratory diagnosis using whole genome sequencing (WGS).  IDCases. 2020 Sep 2;22:e00933. doi: 10.1016/j.idcr.2020.e00933. eCollection 2020. PMID: 32983889

Laventie BJ, Jenal U. Surface Sensing and Adaptation in Bacteria. Annu Rev Microbiol. 2020 Sep 8;74:735-760. doi: 10.1146/annurev-micro-012120-063427. PMID: 32905753.

Sah R, Donovan S, Seth-Smith HMB, Bloemberg G, Wüthrich D, Stephan R, Kataria S, Kumar M, Singla S, Deswal V, Kaur A, Neumayr A, Hinic V,Egli A*, Kuenzli E. A Novel Lineage of Ceftriaxone-resistant Salmonella Typhi From India That Is Closely Related to XDR S. Typhi Found in Pakistan. Clin Infect Dis. 2020 Aug 22;71(5):1327-1330. doi: 10.1093/cid/ciz1204. PMID: 31872221; * shared last author

Weis C, Horn M, Rieck B, Cuénod A,Egli A, Borgwardt K. Topological and kernel-based microbial phenotype prediction from MALDI-TOF mass spectra.  Bioinformatics. 2020 Jul 1;36(Supplement_1):i30-i38. doi: 10.1093/bioinformatics/btaa429. PMID: 32657381

Hee CS, Habazettl J, Schmutz C, Schirmer T, Jenal U, Grzesiek S. Intercepting second-messenger signaling by rationally designed peptides sequestering c-di-GMP. Proc Natl Acad Sci U S A. 2020 Jul 21;117(29):17211-17220. doi: 10.1073/pnas.2001232117. Epub 2020 Jul 1. PMID: 32611811; PMCID: PMC7382256.

Vock I, Aguilar-Bultet L, Egli A, Tamma PD, Tschudin-Sutter S. Independent, External Validation of Clinical Prediction Rules for the Identification of Extended-Spectrum β-lactamase-producing Enterobacterales, University Hospital Basel, Switzerland, January 2010 to December 2016. Euro Surveill 2020; Jul;25(26):1900317.

Egli A, Schrenzel J, Greub G. Digital microbiology. Clin Microbiol Infect. 2020 Oct;26(10):1324-1331. doi: 10.1016/j.cmi.2020.06.023. Epub 2020 Jun 27. PMID: 32603804

Egli A, Battegay M, Büchler AC, Bühlmann P, Calandra T, Eckert P, Furrer H, Greub G, Jakob SM, Kaiser L, Leib SL, Marsch S, Meinshausen N, Pagani JL, Pugin J, Rätsch G, Schrenzel J, Schüpbach R, Siegemund M, Zamboni N, Zbinden R, Zinkernagel A, Borgwardt K.SPHN/PHRT: Forming a Swiss-Wide Infrastructure for Data-Driven Sepsis Research. Stud Health Technol Inform. 2020 Jun 16;270:1163-1167. doi: 10.3233/SHTI200346. PMID: 32570564

Zingg S, Nicoletti GJ, Kuster S, Junker M, Widmer AF, Egli A, Hinic V, Sendi P, Battegay M, Bättig V, Khanna N, Tschudin-Sutter S. Cefiderocol for extensively-drug resistant gram-negative bacterial infections: real-world experience from a case-series and review of the literature. Open Forum Infect Dis 2020;10.1093/ofid/ofaa185.

Balaban NQ, Helaine S, Lewis K, Ackermann M, Aldridge B, Andersson DI, Brynildsen MP, Bumann D, Camilli A, Collins JJ, Dehio C, Fortune S, Ghigo JM, Hardt WD, Harms A, Heinemann M, Hung DT, Jenal U, Levin BR, Michiels J, Storz G, Tan MW, Tenson T, Van Melderen L, Zinkernagel A. Definitions and guidelines for research on antibiotic persistence. Nat Rev Microbiol. 2019 Jul;17(7):441-448. doi: 10.1038/s41579-019-0196-3. Erratum in: Nat Rev Microbiol. 2019 Apr 29; PMID: 30980069; PMCID: PMC7136161.

Laventie BJ, Sangermani M, Estermann F, Manfredi P, Planes R, Hug I, Jaeger T, Meunier E, Broz P, Jenal U. A Surface-Induced Asymmetric Program Promotes Tissue Colonization by Pseudomonas aeruginosa. Cell Host Microbe. 2019 Jan 9;25(1):140-152.e6. doi: 10.1016/j.chom.2018.11.008. Epub 2018 Dec 20. PMID: 30581112.