Bader, Oliver

[["dc.bibliographiccitation.firstpage","15"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Current Biology : CB"],["dc.bibliographiccitation.lastpage","27"],["dc.bibliographiccitation.volume","28"],["dc.contributor.author","Carreté, Laia"],["dc.contributor.author","Ksiezopolska, Ewa"],["dc.contributor.author","Pegueroles, Cinta"],["dc.contributor.author","Gómez-Molero, Emilia"],["dc.contributor.author","Saus, Ester"],["dc.contributor.author","Iraola-Guzmán, Susana"],["dc.contributor.author","Loska, Damian"],["dc.contributor.author","Bader, Oliver"],["dc.contributor.author","Fairhead, Cecile"],["dc.contributor.author","Gabaldón, Toni"],["dc.date.accessioned","2019-07-09T11:45:13Z"],["dc.date.available","2019-07-09T11:45:13Z"],["dc.date.issued","2018"],["dc.description.abstract","Candida glabrata is an opportunistic fungal pathogen that ranks as the second most common cause of systemic candidiasis. Despite its genus name, this yeast is more closely related to the model yeast Saccharomyces cerevisiae than to other Candida pathogens, and hence its ability to infect humans is thought to have emerged independently. Moreover, C. glabrata has all the necessary genes to undergo a sexual cycle but is considered an asexual organism due to the lack of direct evidence of sexual reproduction. To reconstruct the recent evolution of this pathogen and find footprints of sexual reproduction, we assessed genomic and phenotypic variation across 33 globally distributed C. glabrata isolates. We cataloged extensive copy-number variation, which particularly affects genes encoding cell-wall-associated proteins, including adhesins. The observed level of genetic variation in C. glabrata is significantly higher than that found in Candida albicans. This variation is structured into seven deeply divergent clades, which show recent geographical dispersion and large within-clade genomic and phenotypic differences. We show compelling evidence of recent admixture between differentiated lineages and of purifying selection on mating genes, which provides the first evidence for the existence of an active sexual cycle in this yeast. Altogether, our data point to a recent global spread of previously genetically isolated populations and suggest that humans are only a secondary niche for this yeast."],["dc.identifier.doi","10.1016/j.cub.2017.11.027"],["dc.identifier.pmid","29249661"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15061"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59185"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation","info:eu-repo/grantAgreement/EC/FP7/310325/EU//NONCODEVOL"],["dc.relation","info:eu-repo/grantAgreement/EC/H2020/642095/EU//OPATHY"],["dc.relation","info:eu-repo/grantAgreement/EC/FP7/606786/EU//IMRESFUN"],["dc.relation.issn","1879-0445"],["dc.rights","CC BY-NC-ND 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by-nc-nd/4.0"],["dc.subject.ddc","610"],["dc.title","Patterns of Genomic Variation in the Opportunistic Pathogen Candida glabrata Suggest the Existence of Mating and a Secondary Association with Humans."],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","112"],["dc.bibliographiccitation.journal","Frontiers in Microbiology"],["dc.bibliographiccitation.volume","10"],["dc.contributor.author","Carreté, Laia"],["dc.contributor.author","Ksiezopolska, Ewa"],["dc.contributor.author","Gómez-Molero, Emilia"],["dc.contributor.author","Angoulvant, Adela"],["dc.contributor.author","Bader, Oliver"],["dc.contributor.author","Fairhead, Cécile"],["dc.contributor.author","Gabaldón, Toni"],["dc.date.accessioned","2019-07-09T11:50:27Z"],["dc.date.available","2019-07-09T11:50:27Z"],["dc.date.issued","2019"],["dc.description.abstract","Candida glabrata is an opportunistic fungal pathogen that currently ranks as the second most common cause of candidiasis. Although the mechanisms underlying virulence and drug resistance in C. glabrata are now starting to be elucidated, we still lack a good understanding of how this yeast adapts during the course of an infection. Outstanding questions are whether the observed genomic plasticity of C. glabrata plays a role during infection, or what levels of genetic variation exist within an infecting clonal population. To shed light onto the genomic variation within infecting C. glabrata populations, we compared the genomes of 11 pairs and one trio of serial clinical isolates, each obtained from a single patient. Our results provide a catalog of genetic variations existing within clonal infecting isolates, and reveal an enrichment of non-synonymous changes in genes encoding cell-wall proteins. Genetic variation and the presence of non-synonymous mutations and copy number variations accumulated within the host, suggest that clonal populations entail a non-negligible level of genetic variation that may reflect selection processes that occur within the human body. As we show here, these genomic changes can underlie phenotypic differences in traits that are relevant for infection."],["dc.identifier.doi","10.3389/fmicb.2019.00112"],["dc.identifier.pmid","30809200"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15942"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59775"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation","info:eu-repo/grantAgreement/EC/H2020/724173/EU//RETVOLUTION"],["dc.relation","info:eu-repo/grantAgreement/EC/H2020/642095/EU//OPATHY"],["dc.relation.issn","1664-302X"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.subject.ddc","610"],["dc.title","Genome Comparisons of Candida glabrata Serial Clinical Isolates Reveal Patterns of Genetic Variation in Infecting Clonal Populations"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1"],["dc.bibliographiccitation.journal","European Journal of Microbiology and Immunology"],["dc.bibliographiccitation.lastpage","10"],["dc.contributor.author","Emele, Matthias F."],["dc.contributor.author","Karg, Matti"],["dc.contributor.author","Hotzel, Helmut"],["dc.contributor.author","Graaf-van Bloois, Linda"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Bader, Oliver"],["dc.contributor.author","Zautner, Andreas E."],["dc.date.accessioned","2019-07-09T11:51:43Z"],["dc.date.available","2019-07-09T11:51:43Z"],["dc.date.issued","2019"],["dc.description.abstract","ampylobacter fetus is a causative agent of intestinal illness and, occasionally, severe systemic infections and meningitis. C. fetus currently comprises three subspecies: C. fetus subspecies fetus (Cff), C. fetus subspecies venerealis (Cfv), and C. fetus subspecies testudinum (Cft). Cff and Cfv are primarily associated with mammals whereas Cft is associated with reptiles. To offer an alternative to laborious sequence-based techniques such as multilocus sequence typing (MLST) and polymerase chain reaction (PCR)-ribotyping for this species, the purpose of the study was to develop a typing scheme based on proteotyping. In total, 41 representative C. fetus strains were analyzed by intact cell mass spectrometry and compared to MLST results. Biomarkers detected in the mass spectrum of C. fetus subsp. fetus reference strain LMG 6442 (NCTC 10842) as well as corresponding isoforms were associated with the respective amino acid sequences and added to the C. fetus proteotyping scheme. In combination, the 9 identified biomarkers allow the differentiation of Cft subspecies strains from Cff and Cfv subspecies strains. Biomarkers to distinguish between Cff and Cfv were not found. The results of the study show the potential of proteotyping to differentiate different subspecies, but also the limitations of the method."],["dc.identifier.doi","10.1556/1886.2019.00006"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/16175"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59994"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.issn","2062-8633"],["dc.rights","CC BY-NC 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by-nc/4.0"],["dc.subject.ddc","610"],["dc.title","Differentiation of Campylobacter fetus subspecies by proteotyping"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.artnumber","4244"],["dc.bibliographiccitation.issue","1"],["dc.bibliographiccitation.journal","Scientific Reports"],["dc.bibliographiccitation.volume","9"],["dc.contributor.author","Emele, Matthias Frederik"],["dc.contributor.author","Možina, Sonja Smole"],["dc.contributor.author","Lugert, Raimond"],["dc.contributor.author","Bohne, Wolfgang"],["dc.contributor.author","Masanta, Wycliffe Omurwa"],["dc.contributor.author","Riedel, Thomas"],["dc.contributor.author","Groß, Uwe"],["dc.contributor.author","Bader, Oliver"],["dc.contributor.author","Zautner, Andreas Erich"],["dc.date.accessioned","2019-07-09T11:50:14Z"],["dc.date.available","2019-07-09T11:50:14Z"],["dc.date.issued","2019"],["dc.description.abstract","Besides Campylobacter jejuni, Campylobacter coli is the most common bacterial cause of gastroenteritis worldwide. C. coli is subdivided into three clades, which are associated with sample source. Clade 1 isolates are associated with acute diarrhea in humans whereas clade 2 and 3 isolates are more commonly obtained from environmental waters. The phylogenetic classification of an isolate is commonly done using laborious multilocus sequence typing (MLST). The aim of this study was to establish a proteotyping scheme using MALDI-TOF MS to offer an alternative to sequence-based methods. A total of 97 clade-representative C. coli isolates were analyzed by MALDI-TOF-based intact cell mass spectrometry (ICMS) and evaluated to establish a C. coli proteotyping scheme. MLST was used as reference method. Different isoforms of the detectable biomarkers, resulting in biomarker mass shifts, were associated with their amino acid sequences and included into the C. coli proteotyping scheme. In total, we identified 16 biomarkers to differentiate C. coli into the three clades and three additional sub-clades of clade 1. In this study, proteotyping has been successfully adapted to C. coli. The established C. coli clades and sub-clades can be discriminated using this method. Especially the clinically relevant clade 1 isolates can be differentiated clearly."],["dc.identifier.doi","10.1038/s41598-019-40842-w"],["dc.identifier.pmid","30862911"],["dc.identifier.purl","https://resolver.sub.uni-goettingen.de/purl?gs-1/15886"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/59727"],["dc.language.iso","en"],["dc.notes.intern","Merged from goescholar"],["dc.relation.issn","2045-2322"],["dc.rights","CC BY 4.0"],["dc.rights.uri","https://creativecommons.org/licenses/by/4.0"],["dc.subject.ddc","610"],["dc.title","Proteotyping as alternate typing method to differentiate Campylobacter coli clades"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.version","published_version"],["dspace.entity.type","Publication"]]