Teemu Kallonen
PhD, MSc
teemu.kallonen@utu.fi ORCID identifier: https://orcid.org/0000-0003-1741-6486 |
Microbiology, Genomics, Bioinformatics
Clinical Microbiome Bank, Institue of Biomedicine, Faculty of Medicine, University of Turku and Clinical Microbiology, Turku University Hospital
I did my PhD at the University of Turku and the Pertussis reference laboratory, Finnish institute for health and welfare and defended my thesis in 2011. The topic of my research was the evolution and adaptation of Bordetella pertussis, the causative agent of whooping couch, after the initiation of vaccinations.
I did a postdoc (2012-2013) with Prof. Olli Lassila on B cell and plasma cell differentiation after which I changed bact to studying bacteria. I did a postdocs wiht Prof. Julian Parkhill and Prof. Sharon Peacock at the Wellcome Sanger Institute, UK (2014-2016), and Prof. Jukka Corander at the University of Oslo, Norway (2017-2019), using bioinformatic analyses to study whole-genome sequenced bacteria and antibiotic resistance.
A the moment my reseach is still concentrated on WGS analyses and antibiotic resistance as well as microbiome studies.
Main focus of my research is in bacterial genomics, including bioinformatic analyses of population structure, antibiotic resistance and other factors affecting the success of different clones. Recently I have increasingly been involved with several research project investigating the role of the gut microbiome in human diseases e.g. acute appendicitis and prostate cancer.
- High-resolution sweep metagenomics using ultrafast read mapping and inference (2020)
- Wellcome Open Research
(B1 Non-refereed article in a scientific journal) - The binding mechanism of adhesin P subtype to globotetraosylceramide is associated with systemic disease (2020)
- Journal of Biological Chemistry
(A1 Refereed original research article in a scientific journal) - Diversification of Colonization Factors in a Multidrug-Resistant Escherichia coli Lineage Evolving under Negative Frequency-Dependent Selection (2019)
- mBio
(A1 Refereed original research article in a scientific journal) - Emergence of ceftazidime-avibactam-resistant Klebsiella pneumoniae during treatment, Finland, December 2018 (2019)
- Eurosurveillance
(A1 Refereed original research article in a scientific journal) - Genomic analysis of Klebsiella pneumoniae isolates from Malawi reveals acquisition of multiple ESBL determinants across diverse lineages (2019)
- Journal of Antimicrobial Chemotherapy
(A1 Refereed original research article in a scientific journal) - Signatures of negative frequency dependent selection in colonisation factors and the evolution of a multi-drug resistant lineage of Escherichia coli (2019)
- mBio
(A1 Refereed original research article in a scientific journal) - The first human report of mobile colistin resistance gene, mcr-1, in Finland (2018)
- APMIS
(A1 Refereed original research article in a scientific journal) - Bach2 regulates AID-mediated immunoglobulin gene conversion and somatic hypermutation in DT40 B cells (2017)
- European Journal of Immunology
(A1 Refereed original research article in a scientific journal) - Genomic landscape of extended-spectrum β-lactamase resistance in Escherichia coli from an urban African setting (2017)
- Journal of Antimicrobial Chemotherapy
(A1 Refereed original research article in a scientific journal) - Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom (2017)
- Genome Medicine
(A1 Refereed original research article in a scientific journal) - Systematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131 (2017)
- Genome Research
(A1 Refereed original research article in a scientific journal) - Whole genome sequencing of ESBL-producing Escherichia coli isolated from patients, farm waste and canals in Thailand (2017)
- Genome Medicine
(A1 Refereed original research article in a scientific journal) - EPEC: A cocktail of virulence (2016)
- Nature Reviews Microbiology
(A1 Refereed original research article in a scientific journal) - Looking at Beijing's skyline (2015)
- Nature Reviews Microbiology
(A1 Refereed original research article in a scientific journal) - Whole-genome sequencing reveals the effect of vaccination on the evolution of Bordetella pertussis (2015)
- Scientific Reports
(A1 Refereed original research article in a scientific journal) - Proviral Integration Site for Moloney Murine Leukemia Virus (PIM) Kinases Promote Human T Helper 1 Cell Differentiation (2013)
- Journal of Biological Chemistry
(A1 Refereed original research article in a scientific journal) - Differences in avidity of IgG antibodies to pertussis toxin after acellular pertussis booster vaccination and natural infection (2012)
- Vaccine
(A1 Refereed original research article in a scientific journal) - Rapid detection of the recently emerged Bordetella pertussis strains with the ptxP3 pertussis toxin promoter allele by real-time PCR (2012)
- Clinical Microbiology and Infection
(A1 Refereed original research article in a scientific journal) - Differences in the genomic content of Bordetella pertussis isolates before and after introduction of pertussis vaccines in four European countries (2011)
- Infection, Genetics and Evolution
(A1 Refereed original research article in a scientific journal) - Molecular typing of Bordetella parapertussis isolates circulating in Pakistan (2011)
- FEMS Immunology and Medical Microbiology
(A1 Refereed original research article in a scientific journal)