2024

Silago, V., Oravcova, K. , Matthews, L. , Mshana, S. E., Claus, H. and Seni, J. (2024) Epidemiology and antimicrobial resistance trends of pathogens causing urinary tract infections in Mwanza, Tanzania: a comparative study during and after the implementation of the National Action Plan on Antimicrobial Resistance (2017-2022). International Journal of Infectious Diseases, 147, 107208. (doi: 10.1016/j.ijid.2024.107208) (PMID:39128601)

Dirks, R. P. et al. (2024) The human pathogen Mycobacterium tuberculosis and the fish pathogen Mycobacterium marinum trigger a core set of late innate immune response genes in zebrafish larvae. Biology, 13(9), 688. (doi: 10.3390/biology13090688)

Sajib, M. S. I. , Brunker, K. , Oravcova, K. , Everest, P. , Murphy, M. E. and Forde, T. (2024) Advances in host depletion and pathogen enrichment methods for rapid sequencing-based diagnosis of bloodstream infection. Journal of Molecular Diagnostics, 26(9), pp. 741-753. (doi: 10.1016/j.jmoldx.2024.05.008) (PMID:38925458)

Parcell, B. J., Pettigrew, K. A. and Oravcova, K. (2024) Application of pathogen genomics to outbreak investigation. In: Gillespie, S. H. (ed.) Antibiotic Resistance Protocols. Series: Methods in molecular biology (MIMB) (2833). Humana: New York, NY, pp. 161-183. ISBN 9781071639801 (doi: 10.1007/978-1-0716-3981-8_16)

2023

Akhmetova, A. et al. (2023) Genomic epidemiology of Mycobacterium bovis infection in sympatric badger and cattle populations in Northern Ireland. Microbial Genomics, 9(5), 001023. (doi: 10.1099/mgen.0.001023) (PMID:37227264) (PMCID:PMC10272874)

Pagnossin, D., Weir, W. , Smith, A., Fuentes, M. , Coelho, J. and Oravcova, K. (2023) Streptococcus canis genomic epidemiology reveals the potential for zoonotic transfer. Microbial Genomics, 9(3), 000974. (doi: 10.1099/mgen.0.000974) (PMID:37000493) (PMCID:PMC10132062)

2022

Neffe, L., Forde, T. L. , Oravcova, K. , Köhler, U., Bautsch, W., Tomasch, J. and Häussler, S. (2022) Genomic epidemiology of clinical ESBL-producing Enterobacteriaceae in a German hospital suggests infections are primarily community- and regionally-acquired. Microbial Genomics, 8(12), 000901. (doi: 10.1099/mgen.0.000901) (PMID:36748515) (PMCID:PMC9837565)

Pagnossin, D., Smith, A. , Oravcova, K. and Weir, W. (2022) Streptococcus canis, the underdog of the genus. Veterinary Microbiology, 273, 109524. (doi: 10.1016/j.vetmic.2022.109524) (PMID:35933975)

Kovacs, D., Silago, V., Msanga, D. R., Mshana, S. E., Seni, J., Oravcova, K. and Matthews, L. (2022) The hospital environment versus carriage: transmission pathways for third-generation cephalosporin-resistant bacteria in blood in neonates in a low-resource country healthcare setting. Scientific Reports, 12, 8347. (doi: 10.1038/s41598-022-11626-6) (PMID:35589773) (PMCID:PMC9120020)

Dennis, T. P.W., Mable, B. K. , Brunelle, B., Devault, A., Carter, R. W., Ling, C. L., Mmbaga, B. T., Halliday, J. E.B. , Oravcova, K. and Forde, T. L. (2022) Target-enrichment sequencing yields valuable genomic data for challenging-to-culture bacteria of public health importance. Microbial Genomics, 8(5), 000836. (doi: 10.1099/mgen.0.000836) (PMID:35622897) (PMCID:PMC9465068)

Benavides, J. A., Godreuil, S., Opazo-Capurro, A., Mahamat, O. O., Falcon, N., Oravcova, K. , Streicker, D. G. and Shiva, C. (2022) Long-term maintenance of multidrug-resistant Escherichia coli carried by vampire bats and shared with livestock in Peru. Science of the Total Environment, 810, 152045. (doi: 10.1016/j.scitotenv.2021.152045) (PMID:34883172)

2021

Kovacs, D., Msanga, D. R., Mshana, S. E., Bilal, M., Oravcova, K. and Matthews, L. (2021) Developing practical clinical tools for predicting neonatal mortality at a neonatal intensive care unit in Tanzania. BMC Pediatrics, 21, 537. (doi: 10.1186/s12887-021-03012-4) (PMID:34852794) (PMCID:PMC8638252)

Silago, V., Kovacs, D., Samson, H., Seni, J., Matthews, L. , Oravcová, K. , Lupindu, A. M., Hoza, A. S. and Mshana, S. E. (2021) Existence of multiple ESBL genes among phenotypically confirmed ESBL producing Klebsiella pneumoniae and Escherichia coli concurrently isolated from clinical, colonization and contamination samples from neonatal units at Bugando Medical Center, Mwanza, Tanzania. Antibiotics, 10(5), 476. (doi: 10.3390/antibiotics10050476) (PMID:33919117) (PMCID:PMC8143173)

Pagnossin, D., Smith, A. , Weir, W. , Crestani, C., Lindsay, D., Ure, R. and Oravcova, K. (2021) Complete genome sequences of three invasive strains of Streptococcus pyogenes subtype emm5.23 isolated in Scotland. Microbiology Resource Announcements, 10(15), e00101-21. (doi: 10.1128/MRA.00101-21) (PMID:33858921) (PMCID:PMC8050963)

2020

Silago, V., Kovacs, D., Msanga, D. R., Seni, J., Matthews, L. , Oravcová, K. , Zadoks, R. N. , Lupindu, A. M., Hoza, A. S. and Mshana, S. E. (2020) Bacteremia in critical care units at Bugando Medical Centre, Mwanza, Tanzania: the role of colonization and contaminated cots and mothers’ hands in cross-transmission of multidrug resistant Gram-negative bacteria. Antimicrobial Resistance and Infection Control, 9, 58. (doi: 10.1186/s13756-020-00721-w) (PMID:32375857) (PMCID:PMC7201549)

Sabiiti, W., Mtafya, B., De Lima, D. A., Dombay, E., Baron, V. O., Azam, K., Oravcova, K. , Sloan, D. J. and Gillespie, S. H. (2020) A tuberculosis molecular bacterial load assay (TB-MBLA). Journal of Visualized Experiments, 158, e60460. (doi: 10.3791/60460) (PMID:32420999)

Franco-Martínez, L., Martínez-Subiela, S., Cerón, J. J., Tecles, F., Eckersall, P. D. , Oravcova, K. and Tvarijonaviciute, A. (2020) Biomarkers of health and welfare: a One Health perspective from the laboratory side. Research in Veterinary Science, 128, pp. 299-307. (doi: 10.1016/j.rvsc.2019.12.012) (PMID:31869596)

Sabiiti, W. et al. (2020) Tuberculosis bacillary load, an early marker of disease severity: the utility of tuberculosis Molecular Bacterial Load Assay. Thorax, 75(7), pp. 606-608. (doi: 10.1136/thoraxjnl-2019-214238) (PMID:32354738) (PMCID:PMC7361026)

2018

Harkins, C. P. et al. (2018) The widespread use of topical antimicrobials enriches for resistance in Staphylococcus aureus isolated from atopic dermatitis patients. British Journal of Dermatology, 179(4), pp. 951-958. (doi: 10.1111/bjd.16722) (PMID:29729180) (PMCID:PMC6221151)

Parcell, B.J., Oravcova, K. , Pinheiro, M., Holden, M.T.G., Phillips, G., Turton, J.F. and Gillespie, S.H. (2018) Pseudomonas aeruginosa intensive care unit outbreak: winnowing of transmissions with molecular and genomic typing. Journal of Hospital Infection, 98(3), pp. 282-288. (doi: 10.1016/j.jhin.2017.12.005) (PMID:29229490) (PMCID:PMC5840502)

Harkins, C. P. et al. (2018) The microevolution and epidemiology of Staphylococcus aureus colonization during atopic eczema disease flare. Journal of Investigative Dermatology, 138(2), pp. 336-343. (doi: 10.1016/j.jid.2017.09.023) (PMID:28951239) (PMCID:PMC5780352)

2017

Gillespie, S. H., Sabiiti, W. and Oravcova, K. (2017) Mycobacterial load assay [Protocol]. In: Bishop-Lilly, K. (ed.) Diagnostic Bacteriology. Series: Methods in molecular biology (1616). Humana Press, pp. 89-105. ISBN 9781493970353 (doi: 10.1007/978-1-4939-7037-7_5)

2016

Kaclíková, E. and Oravcová, K. (2016) Identification of thermotolerant Cronobacter strains using multiplex real-time polymerase chain reaction. Journal of Food and Nutrition Research, 55(3), pp. 278-281.

Koreňová, J., Oravcová, K. , Véghová, A., Karpíšková, R. and Kuchta, T. (2016) Biofilm formation in various conditions is not a key factor of persistence potential if Listeria monocytogenes in food-processing environment. Journal of Food and Nutrition Research, 55(2), pp. 189-193.

2015

Hammond, R. J.H., Baron, V. O., Oravcova, K. , Lipworth, S. and Gillespie, S. H. (2015) Phenotypic resistance in mycobacteria: is it because I am old or fat that I resist you? Journal of Antimicrobial Chemotherapy, 70(10), pp. 2823-2827. (doi: 10.1093/jac/dkv178) (PMID:26163401)

Gillespie, S. H. et al. (2015) Genomic investigations unmask Mycoplasma amphoriforme, a new respiratory pathogen. Clinical Infectious Diseases, 60(3), pp. 381-388. (doi: 10.1093/cid/ciu820) (PMID:25344534) (PMCID:PMC4293396)

Hu, Y., Liu, A., Menendez, M. C., Garcia, M. J., Oravcova, K. , Gillespie, S. H., Davies, G. R., Mitchison, D. A. and Coates, A. R.M. (2015) HspX knock-out in Mycobacterium tuberculosis leads to shorter antibiotic treatment and lower relapse rate in a mouse model – A potential novel therapeutic target. Tuberculosis, 95(1), pp. 31-36. (doi: 10.1016/j.tube.2014.11.002) (PMID:25481272)

2014

Ling, C. L. et al. (2014) Tools for detection of Mycoplasma amphoriforme: a primary respiratory pathogen? Journal of Clinical Microbiology, 52(4), pp. 1177-1181. (doi: 10.1128/JCM.03049-13) (PMID:24478412) (PMCID:PMC3993489)

Articles

Silago, V., Oravcova, K. , Matthews, L. , Mshana, S. E., Claus, H. and Seni, J. (2024) Epidemiology and antimicrobial resistance trends of pathogens causing urinary tract infections in Mwanza, Tanzania: a comparative study during and after the implementation of the National Action Plan on Antimicrobial Resistance (2017-2022). International Journal of Infectious Diseases, 147, 107208. (doi: 10.1016/j.ijid.2024.107208) (PMID:39128601)

Dirks, R. P. et al. (2024) The human pathogen Mycobacterium tuberculosis and the fish pathogen Mycobacterium marinum trigger a core set of late innate immune response genes in zebrafish larvae. Biology, 13(9), 688. (doi: 10.3390/biology13090688)

Sajib, M. S. I. , Brunker, K. , Oravcova, K. , Everest, P. , Murphy, M. E. and Forde, T. (2024) Advances in host depletion and pathogen enrichment methods for rapid sequencing-based diagnosis of bloodstream infection. Journal of Molecular Diagnostics, 26(9), pp. 741-753. (doi: 10.1016/j.jmoldx.2024.05.008) (PMID:38925458)

Akhmetova, A. et al. (2023) Genomic epidemiology of Mycobacterium bovis infection in sympatric badger and cattle populations in Northern Ireland. Microbial Genomics, 9(5), 001023. (doi: 10.1099/mgen.0.001023) (PMID:37227264) (PMCID:PMC10272874)

Pagnossin, D., Weir, W. , Smith, A., Fuentes, M. , Coelho, J. and Oravcova, K. (2023) Streptococcus canis genomic epidemiology reveals the potential for zoonotic transfer. Microbial Genomics, 9(3), 000974. (doi: 10.1099/mgen.0.000974) (PMID:37000493) (PMCID:PMC10132062)

Neffe, L., Forde, T. L. , Oravcova, K. , Köhler, U., Bautsch, W., Tomasch, J. and Häussler, S. (2022) Genomic epidemiology of clinical ESBL-producing Enterobacteriaceae in a German hospital suggests infections are primarily community- and regionally-acquired. Microbial Genomics, 8(12), 000901. (doi: 10.1099/mgen.0.000901) (PMID:36748515) (PMCID:PMC9837565)

Pagnossin, D., Smith, A. , Oravcova, K. and Weir, W. (2022) Streptococcus canis, the underdog of the genus. Veterinary Microbiology, 273, 109524. (doi: 10.1016/j.vetmic.2022.109524) (PMID:35933975)

Kovacs, D., Silago, V., Msanga, D. R., Mshana, S. E., Seni, J., Oravcova, K. and Matthews, L. (2022) The hospital environment versus carriage: transmission pathways for third-generation cephalosporin-resistant bacteria in blood in neonates in a low-resource country healthcare setting. Scientific Reports, 12, 8347. (doi: 10.1038/s41598-022-11626-6) (PMID:35589773) (PMCID:PMC9120020)

Dennis, T. P.W., Mable, B. K. , Brunelle, B., Devault, A., Carter, R. W., Ling, C. L., Mmbaga, B. T., Halliday, J. E.B. , Oravcova, K. and Forde, T. L. (2022) Target-enrichment sequencing yields valuable genomic data for challenging-to-culture bacteria of public health importance. Microbial Genomics, 8(5), 000836. (doi: 10.1099/mgen.0.000836) (PMID:35622897) (PMCID:PMC9465068)

Benavides, J. A., Godreuil, S., Opazo-Capurro, A., Mahamat, O. O., Falcon, N., Oravcova, K. , Streicker, D. G. and Shiva, C. (2022) Long-term maintenance of multidrug-resistant Escherichia coli carried by vampire bats and shared with livestock in Peru. Science of the Total Environment, 810, 152045. (doi: 10.1016/j.scitotenv.2021.152045) (PMID:34883172)

Kovacs, D., Msanga, D. R., Mshana, S. E., Bilal, M., Oravcova, K. and Matthews, L. (2021) Developing practical clinical tools for predicting neonatal mortality at a neonatal intensive care unit in Tanzania. BMC Pediatrics, 21, 537. (doi: 10.1186/s12887-021-03012-4) (PMID:34852794) (PMCID:PMC8638252)

Silago, V., Kovacs, D., Samson, H., Seni, J., Matthews, L. , Oravcová, K. , Lupindu, A. M., Hoza, A. S. and Mshana, S. E. (2021) Existence of multiple ESBL genes among phenotypically confirmed ESBL producing Klebsiella pneumoniae and Escherichia coli concurrently isolated from clinical, colonization and contamination samples from neonatal units at Bugando Medical Center, Mwanza, Tanzania. Antibiotics, 10(5), 476. (doi: 10.3390/antibiotics10050476) (PMID:33919117) (PMCID:PMC8143173)

Pagnossin, D., Smith, A. , Weir, W. , Crestani, C., Lindsay, D., Ure, R. and Oravcova, K. (2021) Complete genome sequences of three invasive strains of Streptococcus pyogenes subtype emm5.23 isolated in Scotland. Microbiology Resource Announcements, 10(15), e00101-21. (doi: 10.1128/MRA.00101-21) (PMID:33858921) (PMCID:PMC8050963)

Silago, V., Kovacs, D., Msanga, D. R., Seni, J., Matthews, L. , Oravcová, K. , Zadoks, R. N. , Lupindu, A. M., Hoza, A. S. and Mshana, S. E. (2020) Bacteremia in critical care units at Bugando Medical Centre, Mwanza, Tanzania: the role of colonization and contaminated cots and mothers’ hands in cross-transmission of multidrug resistant Gram-negative bacteria. Antimicrobial Resistance and Infection Control, 9, 58. (doi: 10.1186/s13756-020-00721-w) (PMID:32375857) (PMCID:PMC7201549)

Sabiiti, W., Mtafya, B., De Lima, D. A., Dombay, E., Baron, V. O., Azam, K., Oravcova, K. , Sloan, D. J. and Gillespie, S. H. (2020) A tuberculosis molecular bacterial load assay (TB-MBLA). Journal of Visualized Experiments, 158, e60460. (doi: 10.3791/60460) (PMID:32420999)

Franco-Martínez, L., Martínez-Subiela, S., Cerón, J. J., Tecles, F., Eckersall, P. D. , Oravcova, K. and Tvarijonaviciute, A. (2020) Biomarkers of health and welfare: a One Health perspective from the laboratory side. Research in Veterinary Science, 128, pp. 299-307. (doi: 10.1016/j.rvsc.2019.12.012) (PMID:31869596)

Sabiiti, W. et al. (2020) Tuberculosis bacillary load, an early marker of disease severity: the utility of tuberculosis Molecular Bacterial Load Assay. Thorax, 75(7), pp. 606-608. (doi: 10.1136/thoraxjnl-2019-214238) (PMID:32354738) (PMCID:PMC7361026)

Harkins, C. P. et al. (2018) The widespread use of topical antimicrobials enriches for resistance in Staphylococcus aureus isolated from atopic dermatitis patients. British Journal of Dermatology, 179(4), pp. 951-958. (doi: 10.1111/bjd.16722) (PMID:29729180) (PMCID:PMC6221151)

Parcell, B.J., Oravcova, K. , Pinheiro, M., Holden, M.T.G., Phillips, G., Turton, J.F. and Gillespie, S.H. (2018) Pseudomonas aeruginosa intensive care unit outbreak: winnowing of transmissions with molecular and genomic typing. Journal of Hospital Infection, 98(3), pp. 282-288. (doi: 10.1016/j.jhin.2017.12.005) (PMID:29229490) (PMCID:PMC5840502)

Harkins, C. P. et al. (2018) The microevolution and epidemiology of Staphylococcus aureus colonization during atopic eczema disease flare. Journal of Investigative Dermatology, 138(2), pp. 336-343. (doi: 10.1016/j.jid.2017.09.023) (PMID:28951239) (PMCID:PMC5780352)

Kaclíková, E. and Oravcová, K. (2016) Identification of thermotolerant Cronobacter strains using multiplex real-time polymerase chain reaction. Journal of Food and Nutrition Research, 55(3), pp. 278-281.

Koreňová, J., Oravcová, K. , Véghová, A., Karpíšková, R. and Kuchta, T. (2016) Biofilm formation in various conditions is not a key factor of persistence potential if Listeria monocytogenes in food-processing environment. Journal of Food and Nutrition Research, 55(2), pp. 189-193.

Hammond, R. J.H., Baron, V. O., Oravcova, K. , Lipworth, S. and Gillespie, S. H. (2015) Phenotypic resistance in mycobacteria: is it because I am old or fat that I resist you? Journal of Antimicrobial Chemotherapy, 70(10), pp. 2823-2827. (doi: 10.1093/jac/dkv178) (PMID:26163401)

Gillespie, S. H. et al. (2015) Genomic investigations unmask Mycoplasma amphoriforme, a new respiratory pathogen. Clinical Infectious Diseases, 60(3), pp. 381-388. (doi: 10.1093/cid/ciu820) (PMID:25344534) (PMCID:PMC4293396)

Hu, Y., Liu, A., Menendez, M. C., Garcia, M. J., Oravcova, K. , Gillespie, S. H., Davies, G. R., Mitchison, D. A. and Coates, A. R.M. (2015) HspX knock-out in Mycobacterium tuberculosis leads to shorter antibiotic treatment and lower relapse rate in a mouse model – A potential novel therapeutic target. Tuberculosis, 95(1), pp. 31-36. (doi: 10.1016/j.tube.2014.11.002) (PMID:25481272)

Ling, C. L. et al. (2014) Tools for detection of Mycoplasma amphoriforme: a primary respiratory pathogen? Journal of Clinical Microbiology, 52(4), pp. 1177-1181. (doi: 10.1128/JCM.03049-13) (PMID:24478412) (PMCID:PMC3993489)

Book Sections

Parcell, B. J., Pettigrew, K. A. and Oravcova, K. (2024) Application of pathogen genomics to outbreak investigation. In: Gillespie, S. H. (ed.) Antibiotic Resistance Protocols. Series: Methods in molecular biology (MIMB) (2833). Humana: New York, NY, pp. 161-183. ISBN 9781071639801 (doi: 10.1007/978-1-0716-3981-8_16)

Gillespie, S. H., Sabiiti, W. and Oravcova, K. (2017) Mycobacterial load assay [Protocol]. In: Bishop-Lilly, K. (ed.) Diagnostic Bacteriology. Series: Methods in molecular biology (1616). Humana Press, pp. 89-105. ISBN 9781493970353 (doi: 10.1007/978-1-4939-7037-7_5)