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Fast Assay for Pathogen Identification and Characterisation

Deliverables

Clinical advice on relevant targets, samples, patient populations

Clinical advice on relevant targets, samples, patient populations.

Analysis of bacteremia pilot study teport

Analysis of bacteremia pilot study report.

Project handbook

Project handbook.

Sample collection B

Sample collection from known positive environmental samples and prescreen using method.

Randomized and blinded panels

Preparation of randomised and blinded panels for analysis of two extraction methods.

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Publications

Extended-spectrum beta-lactamases and plasmid diversity in urinary isolates of Escherichia coli in Croatia: a nation-wide, multicentric, retrospective study

Author(s): Marija Krilanović, Maja Tomić-Paradžik, Tomislav Meštrović, Nataša Beader, Zoran Herljević, Rick Conzemius, Ivan Barišić, Jasmina Vraneš, Vesna Elveđi-Gašparović, Branka Bedenić
Published in: Folia Microbiologica, 65/4, 2020, Page(s) 649-667, ISSN 0015-5632
Publisher: Academy of Sciences of the Czech Republic
DOI: 10.1007/s12223-019-00769-1

Epidemiology of colistin-resistant, carbapenemase-producing Enterobacteriaceae and Acinetobacter baumannii in Croatia

Author(s): Valentino D’Onofrio, Rick Conzemius, Dijana Varda-Brkić, Maja Bogdan, Andrea Grisold, Inge C. Gyssens, Branka Bedenić, Ivan Barišić
Published in: Infection, Genetics and Evolution, 81, 2020, Page(s) 104263, ISSN 1567-1348
Publisher: Elsevier BV
DOI: 10.1016/j.meegid.2020.104263

In-silico Design of DNA Oligonucleotides: Challenges and Approaches

Author(s): Ivan Barisic
Published in: Computational and Structural Biotechnology Journal, Vol 17, Iss , Pp 1056-1065 (2019), 1, 2019, Page(s) 1056-1065, ISSN 2001-0370
Publisher: Elsevier BV
DOI: 10.1016/j.csbj.2019.07.008

The Clinical Impact of Rapid Molecular Microbiological Diagnostics for Pathogen and Resistance Gene Identification in Patients With Sepsis: A Systematic Review

Author(s): Valentino D’Onofrio, Lene Salimans, Branka Bedenić, Reinoud Cartuyvels, Ivan Barišić, Inge C Gyssens
Published in: Open Forum Infectious Diseases, 7/10, 2020, ISSN 2328-8957
Publisher: Open Forum Infectious Diseases
DOI: 10.1093/ofid/ofaa352

Risk factors for mortality, ICU admission and bacteremia in patients suspected of sepsis at the Emergency department. A prospective cohort study

Author(s): Valentino D’Onofrio, Agnes Meersman, Sara Vijgen, Reinoud Cartuyvels, Peter Messiaen, Inge C Gyssens
Published in: Open Forum Infectious Diseases, 2020, ISSN 2328-8957
Publisher: Oxford academic
DOI: 10.1093/ofid/ofaa594

PRIMEval: Optimization and screening of multiplex oligonucleotide assays

Author(s): Rick Conzemius, Michaela Hendling, Stephan Pabinger, Ivan Barišić
Published in: Scientific Reports, 9/1, 2019, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-019-55883-4

Gram-negative bacteria as causative agents of ventilator-associated pneumonia and their respective resistance mechanisms

Author(s): Daniela Bandić-Pavlović, Tajana Zah-Bogović, Marta Žižek, Luka Bielen, Vesna Bratić, Pero Hrabač, Domagoj Slačanac, Slobodan Mihaljević, Branka Bedenić
Published in: Journal of Chemotherapy, 32/7, 2020, Page(s) 344-358, ISSN 1120-009X
Publisher: Maney Publishing
DOI: 10.1080/1120009x.2020.1793594

Emergence of multidrug-resistant Proteus mirabilis in a long-term care facility in Croatia

Author(s): Branka Bedenić, Nataša Firis, Vesna Elveđi-Gašparović, Marija Krilanović, Krešimir Matanović, Iva Štimac, Josefa Luxner, Jasmina Vraneš, Tomislav Meštrović, Gernot Zarfel, Andrea Grisold
Published in: Wiener klinische Wochenschrift, 128/11-12, 2016, Page(s) 404-413, ISSN 0043-5325
Publisher: Springer Verlag
DOI: 10.1007/s00508-016-1005-x

Molecular characterization of class b carbapenemases in advanced stage of dissemination and emergence of class d carbapenemases in Enterobacteriaceae from Croatia

Author(s): Branka Bedenić, Sanda Sardelić, Josefa Luxner, Zrinka Bošnjak, Dijana Varda-Brkić, Amarela Lukić-Grlić, Ivana Mareković, Sonja Frančula-Zaninović, Marija Krilanović, Dorotea Šijak, Andrea Grisold, Gernot Zarfel
Published in: Infection, Genetics and Evolution, 43, 2016, Page(s) 74-82, ISSN 1567-1348
Publisher: Elsevier BV
DOI: 10.1016/j.meegid.2016.05.011

Oli2go: an automated multiplex oligonucleotide design tool

Author(s): Michaela Hendling, Stephan Pabinger, Konrad Peters, Noa Wolff, Rick Conzemius, Ivan Barišić
Published in: Nucleic Acids Research, 46/W1, 2018, Page(s) W252-W256, ISSN 0305-1048
Publisher: Oxford University Press
DOI: 10.1093/nar/gky319

Arrival of carbapenem-hydrolyzing-oxacillinases in Acinetobacter baumannii in Bosnia and Herzegovina

Author(s): Tanja Petrović, Selma Uzunović, Ivan Barišić, Josefa Luxner, Andrea Grisold, Gernot Zarfel, Amir Ibrahimagić, Sanja Jakovac, Domagoj Slaćanac, Branka Bedenić
Published in: Infection, Genetics and Evolution, 58, 2018, Page(s) 192-198, ISSN 1567-1348
Publisher: Elsevier BV
DOI: 10.1016/j.meegid.2017.12.021

Epidemic spread of OXA-48 beta-lactamase in Croatia

Author(s): Branka Bedenić, Mia Slade, Lidija Žele Starčević, Sanda Sardelić, Mirna Vranić-Ladavac, Ana Benčić, Vlasta Zujić Atalić, Maja Bogdan, Marina Bubonja-Šonje, Maja Tomić-Paradžik, Tatjana Tot, Amarela Lukić-Grlić, Domagoj Drenjančević, Dijana Varda-Brkić, Daniela Bandić-Pavlović, Slobodan Mihaljević, Gernot Zarfel, Marija Gužvinec, Rick Conzemius, Ivan Barišić, Arjana Tambić-
Published in: Journal of Medical Microbiology, 67/8, 2018, Page(s) 1031-1041, ISSN 0022-2615
Publisher: Society for General Microbiology
DOI: 10.1099/jmm.0.000777

Boron Doped Diamond as a Low Biofouling Material in Aquatic Environments: Assessment of Pseudomonas aeruginosa Biofilm Formation

Author(s): Lee J. Simcox, Rui P. A. Pereira, Elizabeth M. H. Wellington, Julie V. Macpherson
Published in: ACS Applied Materials & Interfaces, 11/28, 2019, Page(s) 25024-25033, ISSN 1944-8244
Publisher: American Chemical Society
DOI: 10.1021/acsami.9b07245

Differentiating influenza from COVID-19 in patients presenting with suspected sepsis

Author(s): Valentino D’Onofrio, Eveline Van Steenkiste, Agnes Meersman, Luc Waumans, Reinoud Cartuyvels, Karlijn Van Halem, Peter Messiaen, Inge C. Gyssens
Published in: European Journal of Clinical Microbiology & Infectious Diseases, 2020, ISSN 0934-9723
Publisher: Springer Verlag
DOI: 10.1007/s10096-020-04109-x