1. Home
  2. Biosample
  3. INNAS000192

General Information
Title Inacc No : InaCC B1344, Scientific Name: Raoultella ornithinolytica
Organism Raoultella ornithinolytica
Sample Type Microbe
Description
External Links
Description URL
None

Sample Information
Sample Attribute
Sample Name InaCC B1344
Sample Title Inacc No : InaCC B1344, Scientific Name: Raoultella ornithinolytica
Description
Taxonomy ID 54291
Bioproject Id
Locus Tag Prefix
Strain Raoultella ornithinolytica C28
Isolate
Isolation Source Luwak feces III
Host
Lab Host
Biomaterial Provider
Sample Type cell culture
Collection Date N/A
Geographic Location Name Indonesia: East Java, Situbondo
Latitude Longitude
Environmental Biome
Depth
Altitude
Collected By Puspita Lisdiyanti
Culture Collection Indonesian Culture Collection (InaCC) B1344
Genotype
Host Tissue Sampled
Identified By
Mating Type
Passage History
Sample Size
Serotype
Serovar
Specimen Voucher
Temperature 30
Organism 1016
Growth Media Caffeine (0.3 g/L), K2HPO4
Center Direktorat Pengelolaan Laboratorium, Fasilitas Riset, dan Kawasan Sains dan Teknologi
Lab Pusat Sekuensing
Submitter Lab Pusat Sekuensing - BRIN
Submitted at 26-09-2024
Published at 02-10-2024

Other Information

  • Key: 4439317252
  • DatasetKey: 7e9d3bc6-bb85-42a5-8826-fe2b27552e2c
  • PublishingOrgKey: 10edba3c-8fe0-4a8c-8767-312d0e2badb5
  • InstallationKey: f66ca88d-1f6a-49dc-b33b-32960faee57e
  • HostingOrganizationKey: fbca90e3-8aed-48b1-84e3-369afbd000ce
  • PublishingCountry: LK
  • Protocol: EML
  • LastCrawled: 2024-07-02T10:12:33.795+00:00
  • LastParsed: 2024-07-02T10:14:14.901+00:00
  • CrawlId: 35
  • Extensions:
  • BasisOfRecord: MACHINE_OBSERVATION
  • IndividualCount: 1
  • OccurrenceStatus: PRESENT
  • TaxonKey: 3221736
  • KingdomKey: 3
  • PhylumKey: 111
  • ClassKey: 362
  • OrderKey: 10801383
  • FamilyKey: 4899
  • GenusKey: 3221735
  • SpeciesKey: 3221736
  • AcceptedTaxonKey: 3221736
  • ScientificName: Raoultella ornithinolytica (Sakazaki et al., 1989) Drancourt et al., 2001
  • AcceptedScientificName: Raoultella ornithinolytica (Sakazaki et al., 1989) Drancourt et al., 2001
  • Kingdom: Bacteria
  • Phylum: Proteobacteria
  • Order: Enterobacterales
  • Family: Enterobacteriaceae
  • Genus: Raoultella
  • Species: Raoultella ornithinolytica
  • GenericName: Raoultella
  • SpecificEpithet: ornithinolytica
  • TaxonRank: SPECIES
  • TaxonomicStatus: ACCEPTED
  • IucnRedListCategory: NE
  • DecimalLatitude: 6.141744
  • DecimalLongitude: 81.119378
  • Continent: ASIA
  • Gadm:
    • Level0:
      • Gid: LKA
      • Name: Sri Lanka
    • Level1:
      • Gid: LKA.8_1
      • Name: Hambantota
    • Level2:
      • Gid: LKA.8.4_1
      • Name: Hambantota
  • Year: 2022
  • Month: 5
  • Day: 29
  • EventDate: 2022-05-29
  • StartDayOfYear: 149
  • EndDayOfYear: 149
  • Issues:
  • LastInterpreted: 2024-07-02T10:14:14.901+00:00
  • License: http://creativecommons.org/publicdomain/zero/1.0/legalcode
  • OrganismQuantity: 1.0
  • OrganismQuantityType: individuals
  • IsSequenced: False
  • Identifiers:
    • 0:
      • Identifier: V4R27_1109
  • Media:
  • Facts:
  • Relations:
  • IsInCluster: False
  • SamplingProtocol: eDNA sampling from soil
  • GeodeticDatum: WGS84
  • Class: Gammaproteobacteria
  • CountryCode: LK
  • RecordedByIDs:
  • IdentifiedByIDs:
  • GbifRegion: ASIA
  • Country: Sri Lanka
  • PublishedByGbifRegion: ASIA
  • EventID: V4R27
  • Identifier: V4R27_1109
  • GbifID: 4439317252
  • OccurrenceID: V4R27_1109

  • Culture medium:
    • 0:
      • @ref: 3169
      • Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)
      • Growth: yes
      • Link: https://mediadive.dsmz.de/medium/693
      • Composition: Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
    • 1:
      • @ref: 3169
      • Name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
      • Growth: yes
      • Link: https://mediadive.dsmz.de/medium/220
      • Composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
    • 2:
      • @ref: 35540
      • Name: MEDIUM 3 - Columbia agar
      • Growth: yes
      • Composition: Columbia agar (39.000 g);distilled water (1000.000 ml)
    • 3:
      • @ref: 121449
      • Name: CIP Medium 72
      • Growth: yes
      • Link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
    • 4:
      • @ref: 121449
      • Name: CIP Medium 3
      • Growth: yes
      • Link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
    • 5:
      • @ref: 35569
      • Name: CIP Medium 3
      • Growth: yes
      • Link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
  • Culture temp:
    • 0:
      • @ref: 3169
      • Growth: positive
      • Type: growth
      • Temperature: 30
    • 1:
      • @ref: 35540
      • Growth: positive
      • Type: growth
      • Temperature: 30
    • 2:
      • @ref: 67770
      • Growth: positive
      • Type: growth
      • Temperature: 37

  • Metabolite utilization:
    • 0:
      • @ref: 68368
      • Chebi-ID: 30849
      • Metabolite: L-arabinose
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 1:
      • @ref: 68368
      • Chebi-ID: 27613
      • Metabolite: amygdalin
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 2:
      • @ref: 68368
      • Chebi-ID: 28053
      • Metabolite: melibiose
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 3:
      • @ref: 68368
      • Chebi-ID: 17992
      • Metabolite: sucrose
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 4:
      • @ref: 68368
      • Chebi-ID: 62345
      • Metabolite: L-rhamnose
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 5:
      • @ref: 68368
      • Chebi-ID: 30911
      • Metabolite: sorbitol
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 6:
      • @ref: 68368
      • Chebi-ID: 17268
      • Metabolite: myo-inositol
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 7:
      • @ref: 68368
      • Chebi-ID: 16899
      • Metabolite: D-mannitol
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 8:
      • @ref: 68368
      • Chebi-ID: 17634
      • Metabolite: D-glucose
      • Utilization activity: +
      • Kind of utilization tested: fermentation
    • 9:
      • @ref: 68368
      • Chebi-ID: 5291
      • Metabolite: gelatin
      • Utilization activity: +
      • Kind of utilization tested: hydrolysis
    • 10:
      • @ref: 68368
      • Chebi-ID: 27897
      • Metabolite: tryptophan
      • Utilization activity: +
      • Kind of utilization tested: energy source
    • 11:
      • @ref: 68368
      • Chebi-ID: 16199
      • Metabolite: urea
      • Utilization activity: +
      • Kind of utilization tested: hydrolysis
    • 12:
      • @ref: 68368
      • Chebi-ID: 16947
      • Metabolite: citrate
      • Utilization activity: +
      • Kind of utilization tested: assimilation
    • 13:
      • @ref: 68368
      • Chebi-ID: 18257
      • Metabolite: ornithine
      • Utilization activity: +
      • Kind of utilization tested: degradation
    • 14:
      • @ref: 68368
      • Chebi-ID: 25094
      • Metabolite: lysine
      • Utilization activity: +
      • Kind of utilization tested: degradation
    • 15:
      • @ref: 68368
      • Chebi-ID: 29016
      • Metabolite: arginine
      • Utilization activity: -
      • Kind of utilization tested: hydrolysis
  • Metabolite production:
    • 0:
      • @ref: 68368
      • Chebi-ID: 15688
      • Metabolite: acetoin
      • Production: no
    • 1:
      • @ref: 68368
      • Chebi-ID: 35581
      • Metabolite: indole
      • Production: yes
    • 2:
      • @ref: 68368
      • Chebi-ID: 16136
      • Metabolite: hydrogen sulfide
      • Production: no
  • Metabolite tests:
    • 0:
      • @ref: 68368
      • Chebi-ID: 15688
      • Metabolite: acetoin
      • Voges-proskauer-test: -
    • 1:
      • @ref: 68368
      • Chebi-ID: 35581
      • Metabolite: indole
      • Indole test: +
  • Enzymes:
    • 0:
      • @ref: 68368
      • Value: cytochrome oxidase
      • Activity: +
      • Ec: 1.9.3.1
    • 1:
      • @ref: 68368
      • Value: gelatinase
      • Activity: +
    • 2:
      • @ref: 68368
      • Value: tryptophan deaminase
      • Activity: -
      • Ec: 4.1.99.1
    • 3:
      • @ref: 68368
      • Value: urease
      • Activity: +
      • Ec: 3.5.1.5
    • 4:
      • @ref: 68368
      • Value: ornithine decarboxylase
      • Activity: +
      • Ec: 4.1.1.17
    • 5:
      • @ref: 68368
      • Value: lysine decarboxylase
      • Activity: +
      • Ec: 4.1.1.18
    • 6:
      • @ref: 68368
      • Value: arginine dihydrolase
      • Activity: -
      • Ec: 3.5.3.6
    • 7:
      • @ref: 68368
      • Value: beta-galactosidase
      • Activity: +
      • Ec: 3.2.1.23
  • API 20E:
    • @ref: 3169
    • ONPG: +
    • ADH Arg: -
    • LDC Lys: +
    • ODC: +
    • CIT: +
    • H2S: -
    • URE: +
    • TDA Trp: -
    • IND: +
    • VP: -
    • GEL: +
    • GLU: +
    • MAN: +
    • INO: +
    • Sor: +
    • RHA: +
    • SAC: +
    • MEL: +
    • AMY: +
    • ARA: +
    • OX: +

  • Isolation:
    • 0:
      • @ref: 3169
      • Sample type: urine
      • Country: Japan
      • Origin.country: JPN
      • Continent: Asia
    • 1:
      • @ref: 67770
      • Sample type: Urine
  • Isolation source categories:
    • Cat1: #Host Body Product
    • Cat2: #Fluids
    • Cat3: #Urine
  • Taxonmaps:
    • @ref: 69479
    • File name: preview.99_873.png
    • Url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_7;98_78;99_873&stattab=map
    • Last taxonomy: Enterobacteriaceae
    • 16S sequence: U78182
    • Sequence Identity: None
    • Total samples: 159
    • Soil counts: 22
    • Aquatic counts: 20
    • Animal counts: 107
    • Plant counts: 10

  • Risk assessment:
    • 0:
      • @ref: 3169
      • Biosafety level: 2
      • Biosafety level comment: Risk group (German classification)
    • 1:
      • @ref: 121449
      • Biosafety level: 2
      • Biosafety level comment: Risk group (French classification)

  • 16S sequences:
    • 0:
      • @ref: 20218
      • Description: Klebsiella ornithinolytica strain ATCC 31898 16S ribosomal RNA gene, partial sequence
      • Accession: AF129441
      • Length: 1436
      • Database: nuccore
      • NCBI tax ID: 54291
    • 1:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n17 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623102
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 2:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n18 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623103
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 3:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n19 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623104
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 4:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n20 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623105
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 5:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n21 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623106
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 6:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n22 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623107
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 7:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n23 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623108
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 8:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone p13 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623109
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 9:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone p14 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623110
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 10:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone n16 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623111
      • Length: 233
      • Database: nuccore
      • NCBI tax ID: 54291
    • 11:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone p15 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623112
      • Length: 233
      • Database: nuccore
      • NCBI tax ID: 54291
    • 12:
      • @ref: 20218
      • Description: Raoultella ornithinolytica culture-collection ATCC:31898 clone p16 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623113
      • Length: 233
      • Database: nuccore
      • NCBI tax ID: 54291
    • 13:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h02 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623091
      • Length: 338
      • Database: nuccore
      • NCBI tax ID: 54291
    • 14:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h03 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623092
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 15:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h06 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623093
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 16:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h11 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623094
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 17:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h12 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Glu gene, complete sequence
      • Accession: EU623095
      • Length: 379
      • Database: nuccore
      • NCBI tax ID: 54291
    • 18:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h04 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ile and tRNA-Ala genes, complete sequence
      • Accession: EU623096
      • Length: 539
      • Database: nuccore
      • NCBI tax ID: 54291
    • 19:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h08 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ile and tRNA-Ala genes, complete sequence
      • Accession: EU623097
      • Length: 539
      • Database: nuccore
      • NCBI tax ID: 54291
    • 20:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h01 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623098
      • Length: 232
      • Database: nuccore
      • NCBI tax ID: 54291
    • 21:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h05 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623099
      • Length: 232
      • Database: nuccore
      • NCBI tax ID: 54291
    • 22:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h07 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623100
      • Length: 232
      • Database: nuccore
      • NCBI tax ID: 54291
    • 23:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CCM4873 clone h10 16S-23S ribosomal RNA intergenic spacer, partial sequence
      • Accession: EU623101
      • Length: 232
      • Database: nuccore
      • NCBI tax ID: 54291
    • 24:
      • @ref: 20218
      • Description: Raoultella ornithinolytica strain CIP 103364 16S ribosomal RNA gene, partial sequence
      • Accession: U78182
      • Length: 1502
      • Database: nuccore
      • NCBI tax ID: 54291
    • 25:
      • @ref: 3169
      • Description: Klebsiella ornithinolytica partial 16S rRNA gene, strain JCM6096T
      • Accession: AJ251467
      • Length: 1516
      • Database: nuccore
      • NCBI tax ID: 54291
    • 26:
      • @ref: 124043
      • Description: Raoultella ornithinolytica gene for 16S rRNA, partial sequence, strain: NBRC 105727.
      • Accession: AB682291
      • Length: 1465
      • Database: nuccore
      • NCBI tax ID: 54291
  • Genome sequences:
    • @ref: 67770
    • Description: Raoultella ornithinolytica NBRC 105727 = ATCC 31898
    • Accession: GCA_001598295
    • Assembly level: contig
    • Database: ncbi
    • NCBI tax ID: 1349784
  • GC content:
    • 0:
      • @ref: 3169
      • GC-content: 57.0
      • Method: thermal denaturation, midpoint method (Tm)
    • 1:
      • @ref: 67770
      • GC-content: 57
      • Method: thermal denaturation, midpoint method (Tm)

  • Lineage: cellular organisms; Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Klebsiella/Raoultella group; Raoultella
  • LineageEx:
    • Taxon:
      • 0:
        • TaxId: 131567
        • ScientificName: cellular organisms
        • Rank: no rank
      • 1:
        • TaxId: 2
        • ScientificName: Bacteria
        • Rank: superkingdom
      • 2:
        • TaxId: 3379134
        • ScientificName: Pseudomonadati
        • Rank: kingdom
      • 3:
        • TaxId: 1224
        • ScientificName: Pseudomonadota
        • Rank: phylum
      • 4:
        • TaxId: 1236
        • ScientificName: Gammaproteobacteria
        • Rank: class
      • 5:
        • TaxId: 91347
        • ScientificName: Enterobacterales
        • Rank: order
      • 6:
        • TaxId: 543
        • ScientificName: Enterobacteriaceae
        • Rank: family
      • 7:
        • TaxId: 2890311
        • ScientificName: Klebsiella/Raoultella group
        • Rank: no rank
      • 8:
        • TaxId: 160674
        • ScientificName: Raoultella
        • Rank: genus