Institut für Medizinische Mikrobiologie

[["dc.bibliographiccitation.firstpage","720"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","Microorganisms"],["dc.bibliographiccitation.volume","9"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Bohne, Wolfgang"],["dc.contributor.author","Hasdemir, Ufuk"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Pfeifer, Yvonne"],["dc.contributor.author","Bunk, Boyke"],["dc.contributor.author","Riedel, Thomas"],["dc.contributor.author","Spröer, Cathrin"],["dc.contributor.author","Overmann, Jörg"],["dc.contributor.author","Zautner, Andreas E."],["dc.contributor.author","Frickmann, Hagen"],["dc.date.accessioned","2021-06-01T09:42:39Z"],["dc.date.available","2021-06-01T09:42:39Z"],["dc.date.issued","2021"],["dc.description.abstract","Mobile genetic elements, such as plasmids, facilitate the spread of antibiotic resistance genes in Enterobacterales. In line with this, we investigated the plasmid-resistome of seven blaOXA-48 gene-carrying Klebsiella pneumoniae isolates, which were isolated between 2013 and 2014 at the University Medical Center in Göttingen, Germany. All isolates were subjected to complete genome sequencing including the reconstruction of entire plasmid sequences. In addition, phenotypic resistance testing was conducted. The seven isolates comprised both disease-associated isolates and colonizers isolated from five patients. They fell into two clusters of three sequence type (ST)101 and two ST11 isolates, respectively; and ST15 and ST23 singletons. The seven isolates harbored various plasmids of the incompatibility (Inc) groups IncF, IncL/M, IncN, IncR, and a novel plasmid chimera. All blaOXA-48 genes were encoded on the IncL/M plasmids. Of note, distinct phenotypical resistance patterns associated with different sets of resistance genes encoded by IncL/M and IncR plasmids were observed among isolates of the ST101 cluster in spite of high phylogenetic relatedness of the bacterial chromosomes, suggesting nosocomial transmission. This highlights the importance of plasmid uptake and plasmid recombination events for the fast generation of resistance variability after clonal transmission. In conclusion, this study contributes a piece in the puzzle of molecular epidemiology of resistance gene-carrying plasmids in K. pneumoniae in Germany."],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/microorganisms9040720"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/85312"],["dc.language.iso","en"],["dc.notes.intern","DOI-Import GROB-425"],["dc.relation.eissn","2076-2607"],["dc.relation.orgunit","Institut für Medizinische Mikrobiologie"],["dc.rights","CC BY 4.0"],["dc.title","Detection of a New Resistance-Mediating Plasmid Chimera in a blaOXA-48-Positive Klebsiella pneumoniae Strain at a German University Hospital"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","6"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Journal of Antimicrobial Chemotherapy"],["dc.bibliographiccitation.lastpage","10"],["dc.bibliographiccitation.volume","74"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Riedel, Thomas"],["dc.contributor.author","Laukien, Friederike"],["dc.contributor.author","Schober, Isabel"],["dc.contributor.author","Oehmig, Ines"],["dc.contributor.author","Zimmermann, Ortrud"],["dc.contributor.author","Overmann, Jörg"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Zautner, Andreas E."],["dc.contributor.author","Bohne, Wolfgang"],["dc.date.accessioned","2020-08-06T06:17:51Z"],["dc.date.available","2020-08-06T06:17:51Z"],["dc.date.issued","2019"],["dc.description.abstract","The identification and characterization of clinical Clostridioides difficile isolates with reduced fidaxomicin susceptibility."],["dc.identifier.doi","10.1093/jac/dky375"],["dc.identifier.pmid","30247587"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/67529"],["dc.language.iso","en"],["dc.relation.eissn","1460-2091"],["dc.relation.issn","0305-7453"],["dc.title","Characterization of a clinical Clostridioides difficile isolate with markedly reduced fidaxomicin susceptibility and a V1143D mutation in rpoB"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.journal","European Journal of Microbiology and Immunology"],["dc.contributor.author","Dörschug, Anja"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Hahn, Andreas"],["dc.contributor.author","Hillebrecht, Anke"],["dc.contributor.author","Blaschke, Sabine"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Heimesaat, Markus M"],["dc.contributor.author","Frickmann, Hagen"],["dc.contributor.author","Zautner, Andreas E"],["dc.date.accessioned","2020-10-02T09:16:53Z"],["dc.date.available","2020-10-02T09:16:53Z"],["dc.date.issued","2020-09-25"],["dc.description.abstract","To efficiently monitor the COVID-19 pandemic for surveillance purposes, reliable serological rapid diagnostic tests (RDTs) are desirable for settings where well-established high-throughput bench-top solutions are not available. Here, we have evaluated such an RDT."],["dc.identifier.doi","10.1556/1886.2020.00029"],["dc.identifier.pmid","32979256"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/67928"],["dc.language.iso","en"],["dc.relation.issn","2062-509X"],["dc.title","Evaluation of the Xiamen AmonMed Biotechnology rapid diagnostic test COVID-19 IgM/IgG test kit (Colloidal gold)"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","481"],["dc.bibliographiccitation.issue","8"],["dc.bibliographiccitation.journal","Journal of Antibiotics"],["dc.bibliographiccitation.volume","9"],["dc.contributor.author","Tilkorn, Friederike K. M. T."],["dc.contributor.author","Frickmann, Hagen"],["dc.contributor.author","Simon, Isabel S."],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Horn, Sebastian"],["dc.contributor.author","Zimmermann, Ortrud"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Bohne, Wolfgang"],["dc.contributor.author","Zautner, Andreas Erich"],["dc.date.accessioned","2020-08-06T06:04:43Z"],["dc.date.available","2020-08-06T06:04:43Z"],["dc.date.issued","2020"],["dc.description.abstract","Young children are frequently colonized with Clostridioides (C.) difficile. Depending on their resistance patterns, antibiotic treatment can facilitate gastrointestinal spreading in colonized individuals, potentially leading to transmission to others. C. difficile was isolated from stool samples from infants born in two hospitals in Göttingen and Darmstadt, Germany. All isolates were subjected to phenotypic antimicrobial resistance testing, PCR-based screening for toxin genes and mass spectrometry-based exclusion of ribotypes 027 and 176. Within an initial cohort of 324 neonates with a longitudinal survey of C. difficile, 137 strains were isolated from 48 individuals. Antimicrobial resistance was recorded against metronidazole in one (0.7%), erythromycin in 16 (11.7%) and moxifloxacin in 2 (1.5%) of the strains, whereas no resistance was observed against vancomycin (0.0%) or rifampicin (0.0%). Newly observed resistance against erythromycin in children with detection of previously completely sensitive isolates was reported for C. difficile isolates from 2 out of 48 children. In 20 children (42%), non-toxigenic strains were detected, and from 27 children (56%), toxigenic strains were isolated, while both toxigenic and non-toxigenic strains were recorded for 1 child (2%). Ribotypes 027 or 176 were not observed. In conclusion, the German C. difficile strains isolated from the children showed mild to moderate resistance with predominance of macrolide resistance, a substance class which is frequently applied in children. The observed switches to the dominance of macrolide-resistant isolates suggests likely selection of resistant C. difficile strains already in children"],["dc.identifier.doi","10.3390/antibiotics9080481"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/17510"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/67527"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.publisher","MDPI"],["dc.relation.eissn","2079-6382"],["dc.relation.issn","2079-6382"],["dc.relation.orgunit","Institut für Medizinische Mikrobiologie"],["dc.rights","https://creativecommons.org/licenses/by/4.0/"],["dc.rights.uri","https://goescholar.uni-goettingen.de/licenses"],["dc.subject.gro","C. difficile"],["dc.subject.gro","Rifaximin"],["dc.title","Antimicrobial Resistance Patterns in Clostridioides difficile Strains Isolated from Neonates in Germany"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.journal","Frontiers in Microbiology"],["dc.bibliographiccitation.volume","12"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Oehmig, Ines"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Zautner, Andreas E."],["dc.contributor.author","Bohne, Wolfgang"],["dc.date.accessioned","2021-09-01T06:38:18Z"],["dc.date.available","2021-09-01T06:38:18Z"],["dc.date.issued","2021"],["dc.description.abstract","Flagellar motility is important for the pathogenesis of many intestinal pathogens, allowing bacteria to move to their preferred ecological niche. Clostridioides difficile is currently the major cause for bacterial health care-associated intestinal infections in the western world. Most clinical strains produce peritrichous flagella and are motile in soft-agar. However, little knowledge exists on the C. difficile swimming behaviour and its regulation at the level of individual cells. We report here on the swimming strategy of C. difficile at the single cell level and its dependency on environmental parameters. A comprehensive analysis of motility parameters from several thousand bacteria was achieved with the aid of a recently developed bacterial tracking programme. C. difficile motility was found to be strongly dependent on the matrix elasticity of the medium. Long run phases of all four motile C. difficile clades were only observed in the presence of high molecular weight molecules such as polyvinylpyrrolidone (PVP) and mucin, which suggests an adaptation of the motility apparatus to the mucin-rich intestinal environment. Increasing mucin or PVP concentrations lead to longer and straighter runs with increased travelled distance per run and fewer turnarounds that result in a higher net displacement of the bacteria. The observed C. difficile swimming pattern under these conditions is characterised by bidirectional, alternating back and forth run phases, interrupted by a short stop without an apparent reorientation or tumbling phase. This motility type was not described before for peritrichous bacteria and is more similar to some previously described polar monotrichous bacteria."],["dc.description.abstract","Flagellar motility is important for the pathogenesis of many intestinal pathogens, allowing bacteria to move to their preferred ecological niche. Clostridioides difficile is currently the major cause for bacterial health care-associated intestinal infections in the western world. Most clinical strains produce peritrichous flagella and are motile in soft-agar. However, little knowledge exists on the C. difficile swimming behaviour and its regulation at the level of individual cells. We report here on the swimming strategy of C. difficile at the single cell level and its dependency on environmental parameters. A comprehensive analysis of motility parameters from several thousand bacteria was achieved with the aid of a recently developed bacterial tracking programme. C. difficile motility was found to be strongly dependent on the matrix elasticity of the medium. Long run phases of all four motile C. difficile clades were only observed in the presence of high molecular weight molecules such as polyvinylpyrrolidone (PVP) and mucin, which suggests an adaptation of the motility apparatus to the mucin-rich intestinal environment. Increasing mucin or PVP concentrations lead to longer and straighter runs with increased travelled distance per run and fewer turnarounds that result in a higher net displacement of the bacteria. The observed C. difficile swimming pattern under these conditions is characterised by bidirectional, alternating back and forth run phases, interrupted by a short stop without an apparent reorientation or tumbling phase. This motility type was not described before for peritrichous bacteria and is more similar to some previously described polar monotrichous bacteria."],["dc.identifier.doi","10.3389/fmicb.2021.715220"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/88905"],["dc.notes.intern","DOI-Import GROB-455"],["dc.relation.eissn","1664-302X"],["dc.title","Clostridioides difficile Single Cell Swimming Strategy: A Novel Motility Pattern Regulated by Viscoelastic Properties of the Environment"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","78"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Diagnostics"],["dc.bibliographiccitation.volume","11"],["dc.contributor.author","Dörschug, Anja"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Hahn, Andreas"],["dc.contributor.author","Hillebrecht, Anke"],["dc.contributor.author","Blaschke, Sabine"],["dc.contributor.author","Mese, Kemal"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Dierks, Sascha"],["dc.contributor.author","Frickmann, Hagen"],["dc.contributor.author","Zautner, Andreas E."],["dc.date.accessioned","2021-04-14T08:29:44Z"],["dc.date.available","2021-04-14T08:29:44Z"],["dc.date.issued","2021"],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/diagnostics11010078"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/82978"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-399"],["dc.relation.eissn","2075-4418"],["dc.relation.orgunit","Institut für Medizinische Mikrobiologie"],["dc.rights","CC BY 4.0"],["dc.title","Comparison of Five Serological Assays for the Detection of SARS-CoV-2 Antibodies"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","166"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","BMC Bioinformatics"],["dc.bibliographiccitation.volume","21"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Oehmig, Ines"],["dc.contributor.author","Dretzke, Jerôme"],["dc.contributor.author","Zautner, Andreas E."],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Bohne, Wolfgang"],["dc.date.accessioned","2020-08-06T06:12:05Z"],["dc.date.available","2020-08-06T06:12:05Z"],["dc.date.issued","2020"],["dc.description.abstract","Motility in bacteria forms the basis for taxis and is in some pathogenic bacteria important for virulence. Video tracking of motile bacteria allows the monitoring of bacterial swimming behaviour and taxis on the level of individual cells, which is a prerequisite to study the underlying molecular mechanisms."],["dc.identifier.doi","10.1186/s12859-020-3495-9"],["dc.identifier.pmid","32349658"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/17240"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/67528"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.eissn","1471-2105"],["dc.relation.issn","1471-2105"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.title","YSMR: a video tracking and analysis program for bacterial motility"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","426"],["dc.bibliographiccitation.issue","3"],["dc.bibliographiccitation.journal","Diagnostics"],["dc.bibliographiccitation.volume","11"],["dc.contributor.author","Dörschug, Anja"],["dc.contributor.author","Frickmann, Hagen"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Yilmaz, Elif"],["dc.contributor.author","Mese, Kemal"],["dc.contributor.author","Hahn, Andreas"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Zautner, Andreas E."],["dc.date.accessioned","2021-04-14T08:27:55Z"],["dc.date.available","2021-04-14T08:27:55Z"],["dc.date.issued","2021"],["dc.description.sponsorship","Open-Access-Publikationsfonds 2021"],["dc.identifier.doi","10.3390/diagnostics11030426"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/82450"],["dc.language.iso","en"],["dc.notes.intern","DOI Import GROB-399"],["dc.relation.eissn","2075-4418"],["dc.relation.orgunit","Institut für Medizinische Mikrobiologie"],["dc.rights","CC BY 4.0"],["dc.title","Comparative Assessment of Sera from Individuals after S-Gene RNA-Based SARS-CoV-2 Vaccination with Spike-Protein-Based and Nucleocapsid-Based Serological Assays"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.subtype","original_ja"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","2404"],["dc.bibliographiccitation.issue","11"],["dc.bibliographiccitation.journal","Journal of Clinical Medicine"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Dierks, Sascha"],["dc.contributor.author","Bader, Oliver"],["dc.contributor.author","Schwanbeck, Julian"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Weig, Michael"],["dc.contributor.author","Mese, Kemal"],["dc.contributor.author","Lugert, Raimond"],["dc.contributor.author","Bohne, Wolfgang"],["dc.contributor.author","Hahn, Andreas"],["dc.contributor.author","Zautner, Andreas"],["dc.contributor.author","Feltgen, Nicolas"],["dc.contributor.author","Torkieh, Setare"],["dc.contributor.author","Denker, Fenja"],["dc.contributor.author","Lauermann, Peer"],["dc.contributor.author","Storch, Marcus"],["dc.contributor.author","Frickmann, Hagen"],["dc.date.accessioned","2021-07-05T15:00:47Z"],["dc.date.available","2021-07-05T15:00:47Z"],["dc.date.issued","2021"],["dc.description.abstract","This study was performed as a head-to-head comparison of the performance characteristics of (1) two SARS-CoV-2-specific rapid antigen assays with real-time PCR as gold standard as well as (2) a fully automated high-throughput transcription-mediated amplification (TMA) assay and real-time PCR in a latent class analysis-based test comparison without a gold standard with several hundred samples in a low prevalence “real world” setting. Recorded sensitivity and specificity of the NADAL and the LumiraDx antigen assays and the Hologic Aptima SARS-CoV-2 TMA assay were 0.1429 (0.0194, 0.5835), 0.7644 (0.7016, 0.8174), and 0.7157 (0, 1) as well as 0.4545 (0.2022, 0.7326), 0.9954 (0.9817, 0.9988), and 0.9997 (not estimable), respectively. Agreement kappa between the positive results of the two antigen-based assays was 0.060 (0.002, 0.167) and 0.659 (0.492, 0.825) for TMA and real-time PCR. Samples with low viral load as indicated by cycle threshold (Ct) values > 30 were generally missed by both antigen assays, while 1:10 pooling suggested higher sensitivity of TMA compared to real-time PCR. In conclusion, both sensitivity and specificity speak in favor of the use of the LumiraDx rather than the NADAL antigen assay, while TMA results are comparably as accurate as PCR, when applied in a low prevalence setting."],["dc.description.abstract","This study was performed as a head-to-head comparison of the performance characteristics of (1) two SARS-CoV-2-specific rapid antigen assays with real-time PCR as gold standard as well as (2) a fully automated high-throughput transcription-mediated amplification (TMA) assay and real-time PCR in a latent class analysis-based test comparison without a gold standard with several hundred samples in a low prevalence “real world” setting. Recorded sensitivity and specificity of the NADAL and the LumiraDx antigen assays and the Hologic Aptima SARS-CoV-2 TMA assay were 0.1429 (0.0194, 0.5835), 0.7644 (0.7016, 0.8174), and 0.7157 (0, 1) as well as 0.4545 (0.2022, 0.7326), 0.9954 (0.9817, 0.9988), and 0.9997 (not estimable), respectively. Agreement kappa between the positive results of the two antigen-based assays was 0.060 (0.002, 0.167) and 0.659 (0.492, 0.825) for TMA and real-time PCR. Samples with low viral load as indicated by cycle threshold (Ct) values > 30 were generally missed by both antigen assays, while 1:10 pooling suggested higher sensitivity of TMA compared to real-time PCR. In conclusion, both sensitivity and specificity speak in favor of the use of the LumiraDx rather than the NADAL antigen assay, while TMA results are comparably as accurate as PCR, when applied in a low prevalence setting."],["dc.identifier.doi","10.3390/jcm10112404"],["dc.identifier.pii","jcm10112404"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/87903"],["dc.language.iso","en"],["dc.notes.intern","DOI Import DOI-Import GROB-441"],["dc.publisher","MDPI"],["dc.relation.eissn","2077-0383"],["dc.rights","https://creativecommons.org/licenses/by/4.0/"],["dc.title","Diagnosing SARS-CoV-2 with Antigen Testing, Transcription-Mediated Amplification and Real-Time PCR"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dspace.entity.type","Publication"]]