{
    "Identifier": "3832FDB5A4BBA03F7E33000A17F91D8C1FB23EC8",
    "Last_Update": "2026-05-03T21:55:50",
    "Source": "ELIXIR-ENA",
    "Title": "Reliability of species detection in 16S microbiome analysis",
    "Abstract": "The use of NGS-based testing of the bacterial microbiota is often impeded by inconsistent or non-reproducible results, especially when applying different analysis pipelines and reference databases. We investigated five frequently used software packages by submitting the same monobacterial datasets to them, representing the V1-2 and the V3-4 regions of the 16S-rRNA gene of 26 well characterized strains. The results obtained were divergent and calculations of abundance did not yield the expected 100%. We investigated these inconsistencies and were able to attribute them to failures either of the pipelines themselves or of the reference databases they rely on. On the basis of these findings, we recommend certain standards which should help to render microbiome testing more consistent and reproducible, and thus useful in clinical practice.",
    "Keywords": [
        "ELIXIR-ENA"
    ],
    "Parameters": [
        "Lactococcus lactis",
        "Lacticaseibacillus rhamnosus",
        "Bacteroides fragilis",
        "Escherichia coli",
        "Bacteroides caccae",
        "Bifidobacterium longum",
        "Salinibacter ruber",
        "Alcanivorax borkumensis SK2",
        "Enterococcus gallinarum",
        "Agrobacterium radiobacter DSM 30147",
        "Paenibacillus aceti",
        "Staphylococcus aureus",
        "Lactobacillus gasseri",
        "Leuconostoc mesenteroides",
        "Idiomarina loihiensis",
        "Bacillus licheniformis",
        "Enterococcus durans",
        "Enterococcus faecium",
        "Alicyclobacillus acidiphilus",
        "Bacteroides thetaiotaomicron",
        "Limosilactobacillus reuteri",
        "Butyricimonas virosa",
        "Clostridium tertium",
        "Streptococcus oralis",
        "Paenibacillus barengoltzii",
        "Ligilactobacillus salivarius"
    ],
    "Instruments": [
        "586"
    ],
    "Platforms": [
        "349"
    ],
    "Temporal_Extent_Begin": "2022-10-29",
    "Temporal_Extent_End": "2022-10-29",
    "OnlineResourceUrl": "\/search-details?step=~0123832FDB5A4BBA03F7E33000A17F91D8C1FB23EC8"
}