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    Specimen Nov 29, 2021

    Syntrophobacter

    DenmarkSyddanmarkÆrø
    Sequenced

    Record

    Dataset
    Microflora Danica: Bacterial 16S rRNA genes (UMIs)
    Basis of record
    Material sample

    Taxon

    Scientific name
    Syntrophobacter
    Taxon ID
    ASV:e74f360761b7ec021da284b56583b823
    Kingdom
    Bacteria
    Phylum
    Desulfobacterota
    Class
    Syntrophobacteria
    Order
    Syntrophobacterales
    Family
    Syntrophobacteraceae
    Genus
    Syntrophobacter
    Rank
    Genus
    GBIF Backbone Taxonomy

    Syntrophobacter Boone & Bryant, 1984

    KingdomBacteriaPhylumDesulfobacterotaClassSyntrophobacteriaOrderSyntrophobacteralesFamilySyntrophobacteraceaeGenusSyntrophobacter
    • Taxon ID not found
    Catalogue of Life

    Syntrophobacter Boone & Bryant, 1984

    DomainBacteriaKingdomPseudomonadatiPhylumPseudomonadotaClassDeltaproteobacteriaOrderSyntrophobacteralesFamilySyntrophobacteraceaeGenusSyntrophobacter
    • Taxon ID not found
    Identification references
    Identification remarks
    SINTAX annotation confidence: 0.80, against reference database: MFD 16S rRNA gene reference database

    Location

    Continent
    Europe
    Inferred
    Country or area
    Denmark
    Country derived from coordinatesInferred
    Decimal latitude
    54.866
    Country derived from coordinates
    Decimal longitude
    10.348
    Country derived from coordinates
    Geodetic datum
    EPSG:4326
    Country derived from coordinates
    Location according to GADM
    DenmarkSyddanmarkÆrø
    Loading map...

    Occurrence

    Occurrence ID
    MFD06973:FLASV245497.1379
    Organism quantity
    1
    Organism quantity type
    DNA sequence reads
    Sex
    Occurrence status
    Present
    Inferred
    Associated sequences
    Event ID
    MFD06973
    Event date
    2021-11-29
    Sampling protocol
    Sample size value
    17,856
    Sample size unit
    DNA sequence reads
    Material sample ID
    https://www.ncbi.nlm.nih.gov/biosample/SAMN39871044

    Other

    Record licence
    CC BY 4.0
    Inferred
    Identifier
    MFD06973:FLASV245497.1379
    GBIF ID
    5137842836

    DNA derived data

    0000087
    https://zenodo.org/records/12605769
    0000044
    16S
    0000041
    Single
    0000050
    Oxford Nanopore PromethION
    annealingTempUnit
    Degrees Celsius
    annealingTemp
    60
    0000092
    Microflora Danica: the atlas of Danish environmental microbiomes
    amplificationReactionVolume
    50
    0000090
    https://www.biorxiv.org/content/10.1101/2024.06.27.600767v1
    pcr_primer_name_reverse
    lu_16S_1391R_v7
    pcr_primer_forward
    NNNYRNNNYRNNNYRNNN AGRGTTYGATYMTGGCTCAG
    pcr_primer_reference
    https://doi.org/10.1101/2024.06.27.600767 | https://www.nature.com/articles/s41592-020-01041-y#Sec7
    pcr_primer_name_forward
    lu_16S_8F_v10
    pcr_primer_reverse
    NNNYRNNNYRNNNYRNNN GACGGGCGGTGWGTRCA
    dna_sequence
    AATGAACGCTGGCGGCGTGCTTAACACATGCAAGTCGAACGAGAAAGGCGAATTTCGGTTTGCCGAGTAAAGTGGCGTACGGGTGAGTAACGCGTAGGCAACCTGCCCATGTGTAAGGGATAACAGAGCGAAAGTTCTGCTAATACCGGATACGATCATGGATCGAGAGGTCGATGATGAAAGTCTGCCACTCGGAGAAGCAGACGCACATGGAGGGGCCTGCGTCCTATCAGCTAGTTGGTAGGGTAACGGCCTACCAAGGCGACGACGGGTAGCTGGTCTGAGAGGATGATCAGCCACACTGGCACTGGAACACGGGCCAGACTCCTACGGGAGGCAGCAGTGAGGAATTTTGCGCAATGGCCGCAAGGCTGACGCAGCAACGCCGCGTGGGTGATGAAGGCCTTCGGGTCGTAAAGCCCTGTCAGGTGGGAAGAAAGTCACGAGGTCGAATAGGCTTAGTGTTTGACGGTACCACCAGAGGAAGCACCGGCTAACTCCGTGCCAGCAGCCGCGGTAATACGGAGGGTGCGAGCGTTATTCGGAATTACTGGGCGTAAAGCGCGTGCAGGCGGGAGAGTAAGTCTGATGTGAAAGCCCCGGGCTTAACCTGGGAAGTGCATTGGATACTGCTTTTCTTGAGTACTGGAGAGGAAGGGGGAATTCCCGGTGTAGAGGTGAAATTCGTAGAGATCGGGAGGAATACCAGTGGCGAAGGCGCCCTTCTGGACGGTTACTGACGCTGAGACGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGATCACTAGGTGTAGCGGGTACTCATTCCTGCTGTGCCGTAGCTAACGCGTTAAGTGATCCGCCTGGGGATTACGGTCGCAAGACTAAAACTCAAAGGAATTGACGGGGGCCCGCACAAGCGGTGGAGTATGTGGTTTAATTCGACGCAACGCGAAGAACCTTACCTGGGCTTGACATCCCCGGACATGCATAGAAATATGTCTTTCCCTTTCGGGGGACCGGGAGACAGGTGCTGCATGGCTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCCTGCCTTTAGTTGCCATCATTAAGTTGGGCACTCTAGAGGGACTGCCGGTGTTAAACCGGAGGAAGGTGGGGATGACGTCAAGTCCTCATGGCCTTTATGCCCAGGGCTACACACGTACTACAATGGGCGGTACAAAGGGAAGCAAACTCGCGAGGGTGAGCCAACCCCAAAAAGCCGTTCACAGTTCGGATTGGAGTCTGCAACTCGACTCCATGAAGGTGGAATCGCTAGTAATCGCGGATCAGCATGCCGCGGTGAATACGTTCCCGGGCCT
    0000038
    PCR

    Extended measurement or fact

    12 rows
    Whether the record has geospatial issues.
    SRX23627979
    Measurement type
    associated_bacterial_operon
    Whether the record has geospatial issues.
    SRX23627980
    Measurement type
    associated_eukaryotic_operon
    Whether the record has geospatial issues.
    SRX23693485
    Measurement type
    associated_metagenome
    Whether the record has geospatial issues.
    Yes
    Measurement type
    coords_reliable
    Whether the record has geospatial issues.
    Natural
    Measurement type
    mfd_areatype
    Whether the record has geospatial issues.
    Freshwater
    Measurement type
    mfd_hab1
    Whether the record has geospatial issues.
    Standing freshwater
    Measurement type
    mfd_hab2
    Measurement type
    mfd_hab3
    Whether the record has geospatial issues.
    Sediment
    Measurement type
    mfd_sampletype
    Whether the record has geospatial issues.
    PRJNA1071982
    Measurement type
    ncbiBioProject
    Whether the record has geospatial issues.
    ærø
    Measurement type
    site_name
    Whether the record has geospatial issues.
    undefined
    Measurement type
    species

    Citation

    Please use this citation in publications
    Jensen T B N, Singleton C M, Delogu F, Sørensen E A, Jørgensen V R, Karst S M, Knudsen K S, Sereika M, Overgaard C K, Petriglieri F, Knutsson S, Dall S M, Kirkegaard R H, Kristensen J M, Woodcroft B J, Speth D R, Aroney S T N, Wagner M, Dueholm M K D, Nielsen P H, Albertsen M (2025). Microflora Danica: Bacterial 16S rRNA genes (UMIs). Department of Chemistry and Bioscience, Aalborg University. Occurrence dataset https://doi.org/10.15468/33qqsm accessed via GBIF.org on 2025-08-15. https://gbif.org/occurrence/5137842836
    API access
    Dataset
    Microflora Danica: Bacterial 16S rRNA genes (UMIs)
    Publisher
    Department of Chemistry and Bioscience, Aalborg University
    Last crawled
    2025-08-07T20:45:29.783