Sergio Arredondo Alonso

Postdoctoral Fellow - Probabilistisk inferens laboratorium

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Email s.a.alonso@medisin.uio.no

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Visiting address Sognsvannsveien 9 Domus Medica 0372 Oslo

Postal address Postboks 1122 Blindern 0317 Oslo

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Academic interests

Microbial Genomics
Bacterial population genomics
Bacterial epidemiology
Oxford Nanopore and Illumina Sequencing
Plasmid Prediction

Background

Postdoctoral fellow (Scientia Fellows international fellowships programme). PhD in Computational Biology at University of Utrecht (the Netherlands). MSc in Bioinformatics at Universitat Autonoma de Barcelona (Spain)

Publications

Scientific articles and book chapters

Paganini, Julian A.; Kerkvliet, Jesse J.; Vader, Lisa; Plantinga, Nienke L.; Meneses, Rodrigo & Corander, Jukka [Show all 9 contributors for this article] (2024). PlasmidEC and gplas2: an optimized short-read approach to predict and reconstruct antibiotic resistance plasmids in Escherichia coli. Microbial Genomics. ISSN 2057-5858. 10(2). doi: 10.1099/mgen.0.001193.
Chaguza, Chrispin; Pöntinen, Anna Kaarina; Top, Janetta; Alonso, Sergio Arredondo; Freitas, Ana R. & Novais, Carla [Show all 12 contributors for this article] (2023). The population-level impact of Enterococcus faecalis genetics on intestinal colonization and extraintestinal infection. Microbiology spectrum. ISSN 2165-0497. 11(6). doi: 10.1128/spectrum.00201-23. Full text in Research Archive
Alonso, Sergio Arredondo; Gladstone, Rebecca Ashley; Pöntinen, Anna Kaarina; Gama, João Alves; Schürch, Anita C. & Lanza, Val F. [Show all 10 contributors for this article] (2023). Mge-cluster: a reference-free approach for typing bacterial plasmids. NAR Genomics and Bioinformatics. ISSN 2631-9268. 5(3). doi: 10.1093/nargab/lqad066. Full text in Research Archive
Alonso, Sergio Arredondo; Blundell-Hunter, George; Fu, Zuyi; Gladstone, Rebecca Ashley; Fillol-Salom, Alfred & Loraine, Jessica [Show all 25 contributors for this article] (2023). Evolutionary and functional history of the Escherichia coli K1 capsule. Nature Communications. ISSN 2041-1723. 14(1). doi: 10.1038/s41467-023-39052-w. Full text in Research Archive
Tonkin-Hill, Gerry; Gladstone, Rebecca Ashley; Pöntinen, Anna Kaarina; Alonso, Sergio Arredondo; Bentley, Stephen D. & Corander, Jukka (2023). Robust analysis of prokaryotic pangenome gene gain and loss rates with Panstripe. Genome Research. ISSN 1088-9051. 33(1), p. 129–140. doi: 10.1101/gr.277340.122. Full text in Research Archive
Paganini, Julian A.; Plantinga, Nienke L.; Alonso, Sergio Arredondo; Willems, Rob & Schürch, Anita C. (2021). Recovering escherichia coli plasmids in the absence of long-read sequencing data. Microorganisms. ISSN 2076-2607. 9(8). doi: 10.3390/microorganisms9081613. Full text in Research Archive
Alonso, Sergio Arredondo; Pöntinen, Anna Kaarina; Cleon, Francois Pierre Alexandre; Gladstone, Rebecca Ashley; Schürch, Anita C. & Johnsen, Pål Jarle [Show all 8 contributors for this article] (2021). A high-throughput multiplexing and selection strategy to complete bacterial genomes. GigaScience. ISSN 2047-217X. 10(12), p. 1–13. doi: 10.1093/gigascience/giab079. Full text in Research Archive
Pöntinen, Anna Kaarina; Top, Janetta; Alonso, Sergio Arredondo; Tonkin-Hill, Gerry; Freitas, Ana R. & Novais, Carla [Show all 21 contributors for this article] (2021). Apparent nosocomial adaptation of Enterococcus faecalis predates the modern hospital era. Nature Communications. ISSN 2041-1723. 12. doi: 10.1038/s41467-021-21749-5. Full text in Research Archive
Alonso, Sergio Arredondo; Top, Janetta; Corander, Jukka; Willems, Rob J. L. & Schürch, Anita C. (2021). Mode and dynamics of vanA-type vancomycin resistance dissemination in Dutch hospitals. Genome Medicine. ISSN 1756-994X. 13(1), p. 1–18. doi: 10.1186/s13073-020-00825-3. Full text in Research Archive

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Published May 6, 2021 8:05 PM - Last modified Jan. 20, 2022 10:02 AM