ArticlePloS one2016
The Identification of Novel Diagnostic Marker Genes for the Detection of Beer Spoiling Pediococcus damnosus Strains Using the BlAst Diagnostic Gene findEr.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Comparative analysis of theFood science and biotechnology · 2025Article
- Depiction of the In Vitro and Genomic Basis of Resistance to Hop and High Hydrostatic Pressure ofGenes · 2023Article
- Genomic Analysis and In Vitro Investigation of the Hop Resistance Phenotype of Two NovelMicroorganisms · 2023Article
- Characterization of theFrontiers in microbiology · 2023Article
- Comparative Genomics of Acetic Acid Bacteria within the GenusMicroorganisms · 2022Article
- Comparative genomics ofCurrent research in microbial sciences · 2021Article
- The diversity among the species Tetragenococcus halophilus including new isolates from a lupine seed fermentation.BMC microbiology · 2021Article
- Selected Instrumental Techniques Applied in Food and Feed: Quality, Safety and Adulteration Analysis.Foods (Basel, Switzerland) · 2021Review
- A Plasmid-Encoded Putative Glycosyltransferase Is Involved in Hop Tolerance and Beer Spoilage in Lactobacillus brevis.Applied and environmental microbiology · 2020Article
- Proteomic Analysis ofFrontiers in microbiology · 2019Article
- Comparative Genomics of Lactobacillus brevis Reveals a Significant Plasmidome Overlap of Brewery and Insect Isolates.Current microbiology · 2019Article
- Multiple Genome Sequences ofGenome announcements · 2017Article
- Next-generation sequencing approaches for improvement of lactic acid bacteria-fermented plant-based beverages.AIMS microbiology · 2017Review
- Multiple Genome Sequences of Important Beer-Spoiling Lactic Acid Bacteria.Genome announcements · 2016Article
- Multiple Genome Sequences of the Important Beer-Spoiling Species Lactobacillus backii.Genome announcements · 2016Article
Corrections and comments
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Authors and funding
5 authors.
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Abstract
As the number of bacterial genomes increases dramatically, the demand for easy to use tools with transparent functionality and comprehensible output for applied comparative genomics grows as well. We present BlAst Diagnostic Gene findEr (BADGE), a tool for the rapid prediction of diagnostic marker genes (DMGs) for the differentiation of bacterial groups (e.g. pathogenic / nonpathogenic). DMG identification settings can be modified easily and installing and running BADGE does not require specific bioinformatics skills. During the BADGE run the user is informed step by step about the DMG finding process, thus making it easy to evaluate the impact of chosen settings and options. On the basis of an example with relevance for beer brewing, being one of the oldest biotechnological processes known, we show a straightforward procedure, from phenotyping, genome sequencing, assembly and annotation, up to a discriminant marker gene PCR assay, making comparative genomics a means to an end. The value and the functionality of BADGE were thoroughly examined, resulting in the successful identification and validation of an outstanding novel DMG (fabZ) for the discrimination of harmless and harmful contaminations of Pediococcus damnosus, which can be applied for spoilage risk determination in breweries. Concomitantly, we present and compare five complete P. damnosus genomes sequenced in this study, finding that the ability to produce the unwanted, spoilage associated off-flavor diacetyl is a plasmid encoded trait in this important beer spoiling species.
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