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Article ; Online: Delayed cerebellar ataxia, A rare post-malaria neurological complication: Case report and review of the literature.

Muigg, Veronika / Maier, Marion Irmgard / Kuenzli, Esther / Neumayr, Andreas

2021 Volume 44, Page(s) 102177

Abstract: Delayed cerebellar ataxia (DCA) is a rare post-malarial neurological complication with unknown pathomechanism characterized by its self-limiting course and favorable outcome. We report a case of DCA following an uncomplicated Plasmodium falciparum ... ...

Abstract	Delayed cerebellar ataxia (DCA) is a rare post-malarial neurological complication with unknown pathomechanism characterized by its self-limiting course and favorable outcome. We report a case of DCA following an uncomplicated Plasmodium falciparum infection in a 30-year old Swiss traveler returning from Cameroon and discuss the case in light of the published literature.
MeSH term(s)	Adult ; Cerebellar Ataxia/etiology ; Humans ; Malaria ; Malaria, Falciparum/complications ; Malaria, Falciparum/drug therapy ; Medical History Taking ; Nervous System Diseases ; Plasmodium falciparum
Language	English
Publishing date	2021-10-21
Publishing country	Netherlands
Document type	Case Reports ; Journal Article ; Review
ZDB-ID	2170891-5
ISSN	1873-0442 ; 1477-8939
ISSN (online)	1873-0442
ISSN	1477-8939
DOI	10.1016/j.tmaid.2021.102177
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Article ; Online: Factors associated with non-carbapenemase mediated carbapenem resistance of Gram-negative bacteria: a retrospective case-control study.

Müller, Marius / Wiencierz, Andrea / Gehringer, Christian / Muigg, Veronika / Bassetti, Stefano / Siegemund, Martin / Hinic, Vladimira / Tschudin-Sutter, Sarah / Egli, Adrian

International microbiology : the official journal of the Spanish Society for Microbiology

2023 Volume 27, Issue 2, Page(s) 597–606

Abstract: Infections with carbapenemase-producing Gram-negative bacteria are related to increased morbidity and mortality, yet little is known regarding infections caused by non-beta-lactamase mediated carbapenem-resistant bacteria. Our objective was to identify ... ...

Abstract	Infections with carbapenemase-producing Gram-negative bacteria are related to increased morbidity and mortality, yet little is known regarding infections caused by non-beta-lactamase mediated carbapenem-resistant bacteria. Our objective was to identify risk factors for, and the clinical impact of infections caused by carbapenem-resistant carbapenemase-negative Enterobacterales and Pseudomonas aeruginosa. This retrospective matched case-control study was performed at the University Hospital of Basel, Switzerland, in 2016. We focused on other resistance mechanisms by excluding laboratory-confirmed carbapenemase-positive cases. Carbapenem resistance was set as the primary endpoint, and important risk factors were investigated by conditional logistic regression. The clinical impact of carbapenem resistance was estimated using regression models containing the resistance indicator as explanatory factor and adjusting for potential confounders. Seventy-five cases of infections with carbapenem-resistant, carbapenemase-negative bacteria were identified and matched with 75 controls with carbapenem-susceptible infections. The matched data set was well-balanced regarding age, gender, and comorbidity. Duration of prior carbapenem treatment (OR 1.15, [1.01, 1.31]) correlated with resistance to carbapenems. Our study showed that patients with carbapenem-resistant bacteria stayed 1.59 times (CI [0.81, 3.14]) longer in an ICU. The analyzed dataset did not provide evidence for strong clinical implications of resistance to carbapenems or increased mortality. The duration of prior carbapenem treatment seems to be a strong risk factor for the development of carbapenem resistance. The higher risk for a longer ICU stay could be a consequence of a carbapenem resistance. In contrast to carbapenemase-producers, the clinical impact of carbapenamase-negative, carbapenem-resistant strains may be limited. Trial registration: The study design was prospectively approved by the local Ethics Commission on 10.08.2017 (EKNZ BASEC 2017-00222).
MeSH term(s)	Humans ; Anti-Bacterial Agents/pharmacology ; Anti-Bacterial Agents/therapeutic use ; Case-Control Studies ; Retrospective Studies ; Gram-Negative Bacteria ; Carbapenems/pharmacology ; beta-Lactamases ; Microbial Sensitivity Tests ; Bacterial Proteins
Chemical Substances	Anti-Bacterial Agents ; carbapenemase (EC 3.5.2.6) ; Carbapenems ; beta-Lactamases (EC 3.5.2.6) ; Bacterial Proteins
Language	English
Publishing date	2023-08-09
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1454951-7
ISSN	1618-1905 ; 1139-6709
ISSN (online)	1618-1905
ISSN	1139-6709
DOI	10.1007/s10123-023-00405-6
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Article: Performance of four bacterial cell counting apps for smartphones

Moucka, Michael / Muigg, Veronika / Schlotterbeck, Ann-Kathrin / Stöger, Laurent / Gensch, Alexander / Heller, Stefanie / Egli, Adrian

Journal of microbiological methods. 2022 Aug., v. 199

2022

Abstract: Quantifying bacterial colony forming units is important in microbiological diagnostics. Recent progress in imaging technology allows automation of this tedious and error-prone task. We compared the accuracy of four smartphone colony counter applications ... ...

Abstract	Quantifying bacterial colony forming units is important in microbiological diagnostics. Recent progress in imaging technology allows automation of this tedious and error-prone task. We compared the accuracy of four smartphone colony counter applications conducting standardized measurements, using a self-built apparatus. One app showed high accuracy at lower colony counts.
Keywords	automation ; bacteria ; diagnostic techniques ; mobile telephones
Language	English
Dates of publication	2022-08
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	604916-3
ISSN	1872-8359 ; 0167-7012
ISSN (online)	1872-8359
ISSN	0167-7012
DOI	10.1016/j.mimet.2022.106508
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Article ; Online: Novel Organism Verification and Analysis (NOVA) study: identification of 35 clinical isolates representing potentially novel bacterial taxa using a pipeline based on whole genome sequencing.

Muigg, Veronika / Seth-Smith, Helena M B / Adam, Kai-Manuel / Weisser, Maja / Hinić, Vladimira / Blaich, Annette / Roloff, Tim / Heininger, Ulrich / Schmid, Hanna / Kohler, Maurus / Graf, Lukas / Winterflood, Dylan M / Schlaepfer, Pascal / Goldenberger, Daniel

BMC microbiology

2024 Volume 24, Issue 1, Page(s) 14

Abstract: Background: Reliable species identification of cultured isolates is essential in clinical bacteriology. We established a new study algorithm named NOVA - Novel Organism Verification and Analysis to systematically analyze bacterial isolates that cannot ... ...

Abstract	Background: Reliable species identification of cultured isolates is essential in clinical bacteriology. We established a new study algorithm named NOVA - Novel Organism Verification and Analysis to systematically analyze bacterial isolates that cannot be characterized by conventional identification procedures MALDI-TOF MS and partial 16 S rRNA gene sequencing using Whole Genome Sequencing (WGS). Results: We identified a total of 35 bacterial strains that represent potentially novel species. Corynebacterium sp. (n = 6) and Schaalia sp. (n = 5) were the predominant genera. Two strains each were identified within the genera Anaerococcus, Clostridium, Desulfovibrio, and Peptoniphilus, and one new species was detected within Citrobacter, Dermabacter, Helcococcus, Lancefieldella, Neisseria, Ochrobactrum (Brucella), Paenibacillus, Pantoea, Porphyromonas, Pseudoclavibacter, Pseudomonas, Psychrobacter, Pusillimonas, Rothia, Sneathia, and Tessaracoccus. Twenty-seven of 35 strains were isolated from deep tissue specimens or blood cultures. Seven out of 35 isolated strains identified were clinically relevant. In addition, 26 bacterial strains that could only be identified at the species level using WGS analysis, were mainly organisms that have been identified/classified very recently. Conclusion: Our new algorithm proved to be a powerful tool for detection and identification of novel bacterial organisms. Publicly available clinical and genomic data may help to better understand their clinical and ecological role. Our identification of 35 novel strains, 7 of which appear to be clinically relevant, shows the wide range of undescribed pathogens yet to define.
MeSH term(s)	Bacteria/genetics ; Whole Genome Sequencing ; Corynebacterium/genetics ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization/methods ; RNA, Ribosomal, 16S/genetics ; Bacterial Typing Techniques/methods
Chemical Substances	RNA, Ribosomal, 16S
Language	English
Publishing date	2024-01-05
Publishing country	England
Document type	Journal Article
ZDB-ID	2041505-9
ISSN	1471-2180 ; 1471-2180
ISSN (online)	1471-2180
ISSN	1471-2180
DOI	10.1186/s12866-023-03163-7
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Article ; Online: Performance of four bacterial cell counting apps for smartphones.

Moucka, Michael / Muigg, Veronika / Schlotterbeck, Ann-Kathrin / Stöger, Laurent / Gensch, Alexander / Heller, Stefanie / Egli, Adrian

Journal of microbiological methods

2022 Volume 199, Page(s) 106508

Abstract	Quantifying bacterial colony forming units is important in microbiological diagnostics. Recent progress in imaging technology allows automation of this tedious and error-prone task. We compared the accuracy of four smartphone colony counter applications conducting standardized measurements, using a self-built apparatus. One app showed high accuracy at lower colony counts.
MeSH term(s)	Automation ; Bacteria ; Cell Count ; Mobile Applications ; Smartphone
Language	English
Publishing date	2022-06-09
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	604916-3
ISSN	1872-8359 ; 0167-7012
ISSN (online)	1872-8359
ISSN	0167-7012
DOI	10.1016/j.mimet.2022.106508
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Article ; Online: Factors impacting the pre-analytical quality of blood cultures-Analysis at a tertiary medical center.

Romann, Lucas / Werlen, Laura / Rommers, Nikki / Hermann, Anja / Gisler, Isabelle / Bassetti, Stefano / Bingisser, Roland / Siegemund, Martin / Roloff, Tim / Weisser, Maja / Muigg, Veronika / Hinic, Vladimira / Osthoff, Michael / Franzeck, Fabian C / Egli, Adrian

PloS one

2023 Volume 18, Issue 3, Page(s) e0282918

Abstract: Background: Blood cultures (BC) are critical for the diagnosis of bloodstream infections, pathogen identification, and resistance testing. Guidelines recommend a blood volume of 8-10 mL per bottle as lower volumes result in decreased sensitivity. We ... ...

Abstract	Background: Blood cultures (BC) are critical for the diagnosis of bloodstream infections, pathogen identification, and resistance testing. Guidelines recommend a blood volume of 8-10 mL per bottle as lower volumes result in decreased sensitivity. We aimed to evaluate factors for non-adherence to recommended volumes and assess the effects on diagnostic performance. Methods: From February to April 2020, we measured collected blood volumes by weighing all BC containers from inpatient samples at the University Hospital Basel. Information on BC volumes was merged with clinical and microbiological data, as well as nursing staff schedules. We analyzed factors associated with (i) BC sampling volume, (ii) reaching recommended volumes (≥8 mL), (iii) BC positivity, and (iv) time to positivity using linear and generalized linear mixed effect models. Results: We evaluated a total of 4'118 BC bottles collected from 686 patients. A total of 1'495 (36.3%) of all bottles contained the recommended filling volume of ≥8 mL. Using a central venous and arterial catheter for drawing blood resulted in an increase of filling volume by 0.26 mL (95% CI 0.10, 0.41) and 0.50 mL (95% CI 0.31, 0.69) compared to peripheral venipuncture, respectively. Each additional nursing staff working at the time of blood drawing was associated with 6% higher odds of achieving the recommended filling volume. We found no significant correlation between the filling volume and the positivity rate. Conclusion: Our results indicate critical pre-analytical quality markers linked to BC collection procedures to reach recommended collection volumes. No significant impact on the positivity rate was found.
MeSH term(s)	Humans ; Blood Culture/methods ; Phlebotomy/methods ; Hematologic Tests ; Sepsis/diagnosis ; Hospitals ; Bacteremia/microbiology
Language	English
Publishing date	2023-03-16
Publishing country	United States
Document type	Journal Article
ZDB-ID	2267670-3
ISSN	1932-6203 ; 1932-6203
ISSN (online)	1932-6203
ISSN	1932-6203
DOI	10.1371/journal.pone.0282918
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Article ; Online: Tick-Borne Relapsing Fever Caused by Borrelia persica in Traveler to Central Asia, 2019.

Muigg, Veronika / Seth-Smith, Helena M B / Goldenberger, Daniel / Egli, Adrian / Nickel, Beatrice / Dürig, Roland / Kuenzli, Esther / Hinic, Vladimira / Neumayr, Andreas

Emerging infectious diseases

2020 Volume 26, Issue 4, Page(s) 824–826

Abstract: We report a case of tick-borne relapsing fever caused by Borrelia persica in a traveler returning to Switzerland from central Asia. After the disease was diagnosed by blood smear microscopy, the causative Borrelia species was confirmed by shotgun ... ...

Abstract	We report a case of tick-borne relapsing fever caused by Borrelia persica in a traveler returning to Switzerland from central Asia. After the disease was diagnosed by blood smear microscopy, the causative Borrelia species was confirmed by shotgun metagenomics sequencing. PCR and sequencing techniques provide highly sensitive diagnostic tools superior to microscopy.
MeSH term(s)	Asia ; Borrelia/genetics ; Humans ; Relapsing Fever/diagnosis ; Relapsing Fever/drug therapy ; Switzerland
Language	English
Publishing date	2020-03-24
Publishing country	United States
Document type	Case Reports ; Journal Article
ZDB-ID	1380686-5
ISSN	1080-6059 ; 1080-6040
ISSN (online)	1080-6059
ISSN	1080-6040
DOI	10.3201/2604.191771
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Article ; Online: Mysterious nematodes in gastric mucosal biopsies - A diagnostic challenge.

Muigg, Veronika / Al Toutonji, Ali / Ruf, Marie-Therese / Sydow, Veronique / Wampfler, Rahel / Poppert, Sven / Neumayr, Andreas

Travel medicine and infectious disease

2020 Volume 36, Page(s) 101781

MeSH term(s)	Animals ; Biopsy ; Feces ; Humans ; Nematoda ; Nematode Infections ; Parasite Egg Count
Language	English
Publishing date	2020-06-04
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	2170891-5
ISSN	1873-0442 ; 1477-8939
ISSN (online)	1873-0442
ISSN	1477-8939
DOI	10.1016/j.tmaid.2020.101781
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Article: Multicenter Technical Validation of 30 Rapid Antigen Tests for the Detection of SARS-CoV-2 (VALIDATE)

Greub, Gilbert / Caruana, Giorgia / Schweitzer, Michael / Imperiali, Mauro / Muigg, Veronika / Risch, Martin / Croxatto, Antony / Opota, Onya / Heller, Stefanie / Albertos Torres, Diana / Tritten, Marie-Lise / Leuzinger, Karoline / Hirsch, Hans H. / Lienhard, Reto / Egli, Adrian

Microorganisms. 2021 Dec. 15, v. 9, no. 12

2021

Abstract: During COVID19 pandemic, SARS-CoV-2 rapid antigen tests (RATs) were marketed with minimal or no performance data. We aimed at closing this gap by determining technical sensitivities and specificities of 30 RATs prior to market release. We developed a ... ...

Abstract	During COVID19 pandemic, SARS-CoV-2 rapid antigen tests (RATs) were marketed with minimal or no performance data. We aimed at closing this gap by determining technical sensitivities and specificities of 30 RATs prior to market release. We developed a standardized technical validation protocol and assessed 30 RATs across four diagnostic laboratories. RATs were tested in parallel using the Standard Q® (SD Biosensor/Roche) assay as internal reference. We used left-over universal transport/optimum media from nasopharyngeal swabs of 200 SARS-CoV-2 PCR-negative and 100 PCR-positive tested patients. Transport media was mixed with assay buffer and applied to RATs according to manufacturer instructions. Sensitivities were determined according to viral loads. Specificity of at least 99% and sensitivity of 95%, 90%, and 80% had to be reached for 10⁷, 10⁶, 10⁵ virus copies/mL, respectively. Sensitivities ranged from 43.5% to 98.6%, 62.3% to 100%, and 66.7% to 100% at 10⁵, 10⁶, 10⁷ copies/mL, respectively. Automated assay readers such as ExDia or LumiraDx showed higher performances. Specificities ranged from 88.8% to 100%. Only 15 of 30 (50%) RATs passed our technical validation. Due to the high failure rate of 50%, mainly caused by lack of sensitivity, we recommend a thorough validation of RATs prior to market release.
Keywords	COVID-19 infection ; Severe acute respiratory syndrome coronavirus 2 ; antigens ; automation ; markets ; pandemic ; viruses
Language	English
Dates of publication	2021-1215
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article
ZDB-ID	2720891-6
ISSN	2076-2607
ISSN	2076-2607
DOI	10.3390/microorganisms9122589
Database	NAL-Catalogue (AGRICOLA)

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Article: Diagnostic challenges within the

Muigg, Veronika / Cuénod, Aline / Purushothaman, Srinithi / Siegemund, Martin / Wittwer, Matthias / Pflüger, Valentin / Schmidt, Kristina M / Weisser, Maja / Ritz, Nicole / Widmer, Andreas / Goldenberger, Daniel / Hinic, Vladimira / Roloff, Tim / Søgaard, Kirstine K / Egli, Adrian / Seth-Smith, Helena M B

New microbes and new infections

2022 Volume 49-50, Page(s) 101040

Abstract: ... ...

Abstract	The
Language	English
Publishing date	2022-10-26
Publishing country	England
Document type	Journal Article
ZDB-ID	2750179-6
ISSN	2052-2975
ISSN	2052-2975
DOI	10.1016/j.nmni.2022.101040
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