BioRepo | Biosample

Other Information

Cell morphology:
- @ref: 25089
- Gram stain: positive
- Cell length: 0.7-1.2 µm
- Cell width: 0.4-0.5 µm
- Cell shape: rod-shaped
- Motility: no
Colony morphology:
- @ref: 25089
- Colony size: 1.5-5.0 mm
- Colony color: pale yellow
- Colony shape: circular
- Incubation period: 3 days
- Medium used: NA (Nutrient Agar)

Culture medium:
- 0:
  - @ref: 25089
  - Name: NA (Nutrient Agar)
  - Growth: yes
- 1:
  - @ref: 24806
  - Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  - Growth: yes
  - Link: https://mediadive.dsmz.de/medium/92
  - Composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
Culture temp:
- 0:
  - @ref: 25089
  - Growth: positive
  - Type: growth
  - Temperature: 8.0-37.0
- 1:
  - @ref: 25089
  - Growth: positive
  - Type: optimum
  - Temperature: 25.0-28.0
- 2:
  - @ref: 24806
  - Growth: positive
  - Type: growth
  - Temperature: 28
- 3:
  - @ref: 67770
  - Growth: positive
  - Type: growth
  - Temperature: 28
Culture pH:
- 0:
  - @ref: 25089
  - Ability: positive
  - Type: growth
  - PH: 5.0-11.0
  - PH range: alkaliphile
- 1:
  - @ref: 25089
  - Ability: positive
  - Type: optimum
  - PH: 7.0-8.0

Spore formation:
- @ref: 25089
- Spore formation: no
Halophily:
- 0:
  - @ref: 25089
  - Salt: NaCl
  - Growth: positive
  - Tested relation: growth
  - Concentration: 0.0-20.0 %(w/v)
- 1:
  - @ref: 25089
  - Salt: NaCl
  - Tested relation: optimum
  - Concentration: 3.3 %(w/v)
Murein:
- @ref: 25089
- Murein short key: A31
- Type: A1gamma m-Dpm-direct
Observation:
- @ref: 67770
- Observation: quinones: MK-8(H<sub>2</sub>)
Metabolite utilization:
- 0:
  - @ref: 25089
  - Chebi-ID: 16763
  - Metabolite: 2-oxobutanoate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 1:
  - @ref: 25089
  - Chebi-ID: 18333
  - Metabolite: D-arabitol
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 2:
  - @ref: 25089
  - Chebi-ID: 15824
  - Metabolite: D-fructose
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 3:
  - @ref: 25089
  - Chebi-ID: 12936
  - Metabolite: D-galactose
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 4:
  - @ref: 25089
  - Chebi-ID: 8391
  - Metabolite: D-gluconate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 5:
  - @ref: 25089
  - Chebi-ID: 14314
  - Metabolite: D-glucose 6-phosphate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 6:
  - @ref: 25089
  - Chebi-ID: 15748
  - Metabolite: D-glucuronate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 7:
  - @ref: 25089
  - Chebi-ID: 16523
  - Metabolite: D-serine
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 8:
  - @ref: 25089
  - Chebi-ID: 23652
  - Metabolite: dextrin
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 9:
  - @ref: 25089
  - Chebi-ID: 16537
  - Metabolite: galactarate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 10:
  - @ref: 25089
  - Chebi-ID: 17754
  - Metabolite: glycerol
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 11:
  - @ref: 25089
  - Chebi-ID: 70744
  - Metabolite: glycine-proline
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 12:
  - @ref: 25089
  - Chebi-ID: 30849
  - Metabolite: L-arabinose
  - Utilization activity: -
  - Kind of utilization tested: builds acid from
- 13:
  - @ref: 25089
  - Chebi-ID: 29991
  - Metabolite: L-aspartate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 14:
  - @ref: 25089
  - Chebi-ID: 28053
  - Metabolite: melibiose
  - Utilization activity: -
  - Kind of utilization tested: builds acid from
- 15:
  - @ref: 25089
  - Chebi-ID: 74611
  - Metabolite: methyl (R)-lactate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 16:
  - @ref: 25089
  - Chebi-ID: 51850
  - Metabolite: methyl pyruvate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 17:
  - @ref: 25089
  - Chebi-ID: 506227
  - Metabolite: N-acetylglucosamine
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 18:
  - @ref: 25089
  - Chebi-ID: 35418
  - Metabolite: n-acetylneuraminate
  - Utilization activity: -
  - Kind of utilization tested: carbon source
- 19:
  - @ref: 25089
  - Chebi-ID: 27897
  - Metabolite: tryptophan
  - Utilization activity: -
  - Kind of utilization tested: energy source
- 20:
  - @ref: 25089
  - Chebi-ID: 17521
  - Metabolite: (-)-quinic acid
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 21:
  - @ref: 25089
  - Chebi-ID: 15588
  - Metabolite: D-malate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 22:
  - @ref: 25089
  - Chebi-ID: 16651
  - Metabolite: (S)-lactate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 23:
  - @ref: 25089
  - Chebi-ID: 15589
  - Metabolite: L-malate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 24:
  - @ref: 25089
  - Chebi-ID: 64552
  - Metabolite: 2-hydroxybutyrate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 25:
  - @ref: 25089
  - Chebi-ID: 30916
  - Metabolite: 2-oxoglutarate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 26:
  - @ref: 25089
  - Chebi-ID: 37054
  - Metabolite: 3-hydroxybutyrate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 27:
  - @ref: 25089
  - Chebi-ID: 18101
  - Metabolite: 4-hydroxyphenylacetic acid
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 28:
  - @ref: 25089
  - Chebi-ID: 30089
  - Metabolite: acetate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 29:
  - @ref: 25089
  - Chebi-ID: 13705
  - Metabolite: acetoacetate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 30:
  - @ref: 25089
  - Chebi-ID: 17925
  - Metabolite: alpha-D-glucose
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 31:
  - @ref: 25089
  - Chebi-ID: 73706
  - Metabolite: bromosuccinate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 32:
  - @ref: 25089
  - Chebi-ID: 16947
  - Metabolite: citrate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 33:
  - @ref: 25089
  - Chebi-ID: 78697
  - Metabolite: D-fructose 6-phosphate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 34:
  - @ref: 25089
  - Chebi-ID: 15895
  - Metabolite: D-galactonic acid lactone
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 35:
  - @ref: 25089
  - Chebi-ID: 18024
  - Metabolite: D-galacturonic acid
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 36:
  - @ref: 25089
  - Chebi-ID: 17634
  - Metabolite: D-glucose
  - Utilization activity: +
  - Kind of utilization tested: builds acid from
- 37:
  - @ref: 25089
  - Chebi-ID: 16899
  - Metabolite: D-mannitol
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 38:
  - @ref: 25089
  - Chebi-ID: 17992
  - Metabolite: sucrose
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 39:
  - @ref: 25089
  - Chebi-ID: 15740
  - Metabolite: formate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 40:
  - @ref: 25089
  - Chebi-ID: 16865
  - Metabolite: gamma-aminobutyric acid
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 41:
  - @ref: 25089
  - Chebi-ID: 32323
  - Metabolite: glucuronamide
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 42:
  - @ref: 25089
  - Chebi-ID: 17596
  - Metabolite: inosine
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 43:
  - @ref: 25089
  - Chebi-ID: 17268
  - Metabolite: myo-inositol
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 44:
  - @ref: 25089
  - Chebi-ID: 16977
  - Metabolite: L-alanine
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 45:
  - @ref: 25089
  - Chebi-ID: 16467
  - Metabolite: L-arginine
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 46:
  - @ref: 25089
  - Chebi-ID: 29985
  - Metabolite: L-glutamate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 47:
  - @ref: 25089
  - Chebi-ID: 15971
  - Metabolite: L-histidine
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 48:
  - @ref: 25089
  - Chebi-ID: 18183
  - Metabolite: L-pyroglutamic acid
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 49:
  - @ref: 25089
  - Chebi-ID: 62345
  - Metabolite: L-rhamnose
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 50:
  - @ref: 25089
  - Chebi-ID: 62345
  - Metabolite: L-rhamnose
  - Utilization activity: +
  - Kind of utilization tested: builds acid from
- 51:
  - @ref: 25089
  - Chebi-ID: 17115
  - Metabolite: L-serine
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 52:
  - @ref: 25089
  - Chebi-ID: 17632
  - Metabolite: nitrate
  - Utilization activity: +
  - Kind of utilization tested: reduction
- 53:
  - @ref: 25089
  - Chebi-ID: 17272
  - Metabolite: propionate
  - Utilization activity: +
  - Kind of utilization tested: carbon source
- 54:
  - @ref: 25089
  - Chebi-ID: 53423
  - Metabolite: tween 40
  - Utilization activity: +
  - Kind of utilization tested: carbon source
Antibiotic resistance:
- 0:
  - @ref: 25089
  - ChEBI: 161680
  - Metabolite: aztreonam
  - Is antibiotic: yes
  - Is resistant: yes
- 1:
  - @ref: 25089
  - ChEBI: 32735
  - Metabolite: guanidinium chloride
  - Is antibiotic: yes
  - Is resistant: yes
- 2:
  - @ref: 25089
  - ChEBI: 48607
  - Metabolite: lithium chloride
  - Is antibiotic: yes
  - Is resistant: yes
- 3:
  - @ref: 25089
  - ChEBI: 100147
  - Metabolite: nalidixic acid
  - Is antibiotic: yes
  - Is resistant: yes
- 4:
  - @ref: 25089
  - ChEBI: 75229
  - Metabolite: sodium bromate
  - Is antibiotic: yes
  - Is resistant: yes
- 5:
  - @ref: 25089
  - ChEBI: 64103
  - Metabolite: sodium butyrate
  - Is antibiotic: yes
  - Is resistant: yes
- 6:
  - @ref: 25089
  - ChEBI: 75228
  - Metabolite: sodium lactate
  - Is antibiotic: yes
  - Is resistant: yes
Metabolite production:
- 0:
  - @ref: 25089
  - Chebi-ID: 16136
  - Metabolite: hydrogen sulfide
  - Production: no
- 1:
  - @ref: 25089
  - Chebi-ID: 35581
  - Metabolite: indole
  - Production: no
- 2:
  - @ref: 25089
  - Chebi-ID: 15688
  - Metabolite: acetoin
  - Production: yes
Metabolite tests:
- 0:
  - @ref: 25089
  - Chebi-ID: 15688
  - Metabolite: acetoin
  - Voges-proskauer-test: +
- 1:
  - @ref: 25089
  - Chebi-ID: 35581
  - Metabolite: indole
  - Indole test: -
Enzymes:
- 0:
  - @ref: 25089
  - Value: acid phosphatase
  - Activity: +
  - Ec: 3.1.3.2
- 1:
  - @ref: 25089
  - Value: alkaline phosphatase
  - Activity: +
  - Ec: 3.1.3.1
- 2:
  - @ref: 25089
  - Value: catalase
  - Activity: +
  - Ec: 1.11.1.6
- 3:
  - @ref: 25089
  - Value: cytochrome oxidase
  - Activity: +
  - Ec: 1.9.3.1
- 4:
  - @ref: 25089
  - Value: esterase (C 4)
  - Activity: +
- 5:
  - @ref: 25089
  - Value: esterase Lipase (C 8)
  - Activity: +
- 6:
  - @ref: 25089
  - Value: leucine arylamidase
  - Activity: +
  - Ec: 3.4.11.1
- 7:
  - @ref: 25089
  - Value: lipase (C 14)
  - Activity: +
- 8:
  - @ref: 25089
  - Value: naphthol-AS-BI-phosphohydrolase
  - Activity: +
- 9:
  - @ref: 25089
  - Value: tryptophan deaminase
  - Activity: -
  - Ec: 4.1.99.1
- 10:
  - @ref: 25089
  - Value: urease
  - Activity: -
  - Ec: 3.5.1.5
- 11:
  - @ref: 25089
  - Value: valine arylamidase
  - Activity: +

Isolation:
- 0:
  - @ref: 24806
  - Sample type: deep-sea sediment
  - Geographic location: Carlsberg Ridge (63.65731° E 3.71069° N, depth of 3690 m)
  - Country: Indian Ocean
  - Continent: Asia
  - Latitude: 3.7107
  - Longitude: 63.6573
- 1:
  - @ref: 25089
  - Sample type: deep-sea sediment (depth of 3690 m)
  - Enrichment culture: Oatmeal agar (ISP3)
  - Enrichment culture duration: 14-105 days
  - Enrichment culture temperature: 28
- 2:
  - @ref: 67770
  - Sample type: Deep-sea sediment at the Carlsberg Ridge (63.65731° E 3.71069° N, at a depth of 3,690 m)
  - Latitude: 3.71069
  - Longitude: 63.6573
Isolation source categories:
- 0:
  - Cat1: #Environmental
  - Cat2: #Aquatic
  - Cat3: #Marine
- 1:
  - Cat1: #Environmental
  - Cat2: #Aquatic
  - Cat3: #Sediment
Taxonmaps:
- @ref: 69479
- File name: preview.99_4584.png
- Url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15817;96_81;97_619;98_713;99_4584&stattab=map
- Last taxonomy: Brevibacterium
- 16S sequence: KX356313
- Sequence Identity: None
- Total samples: 2870
- Soil counts: 309
- Aquatic counts: 309
- Animal counts: 2183
- Plant counts: 69

Risk assessment:
- @ref: 24806
- Biosafety level: 1
- Biosafety level comment: Risk group (German classification)

16S sequences:
- @ref: 24806
- Description: Brevibacterium sediminis strain CGMCC 1.15472 16S ribosomal RNA gene, partial sequence
- Accession: KX356313
- Length: 1489
- Database: nuccore
- NCBI tax ID: 1857024
Genome sequences:
- 0:
  - @ref: 66792
  - Description: Brevibacterium sediminis CGMCC 1.15472
  - Accession: GCA_014643055
  - Assembly level: contig
  - Database: ncbi
  - NCBI tax ID: 1857024
- 1:
  - @ref: 66792
  - Description: Brevibacterium sediminis FXJ8.269
  - Accession: GCA_013623905
  - Assembly level: contig
  - Database: ncbi
  - NCBI tax ID: 1857024
- 2:
  - @ref: 66792
  - Description: Brevibacterium sediminis strain CGMCC 1.15472
  - Accession: 1857024.4
  - Assembly level: wgs
  - Database: patric
  - NCBI tax ID: 1857024
GC content:
- @ref: 25089
- GC-content: 64.2
- Method: high performance liquid chromatography (HPLC)

Key: 3419106846
DatasetKey: 91a8fa00-7532-4b66-b653-496ddd65627b
PublishingOrgKey: 2b4e561b-0b1a-4c1b-b564-819bcfe006b8
InstallationKey: a299935f-3216-4a11-bc3b-c370b2325eff
HostingOrganizationKey: eb07eeb0-3db9-11d9-8439-b8a03c50a862
PublishingCountry: KR
Protocol: EML
LastCrawled: 2025-01-23T23:02:08.144+00:00
LastParsed: 2025-01-31T23:21:59.595+00:00
CrawlId: 149
Extensions:
BasisOfRecord: LIVING_SPECIMEN
OccurrenceStatus: PRESENT
TaxonKey: 9423832
KingdomKey: 3
PhylumKey: 10813635
ClassKey: 10701801
OrderKey: 1198
FamilyKey: 8074
GenusKey: 3224718
SpeciesKey: 9423832
AcceptedTaxonKey: 9423832
ScientificName: Brevibacterium sediminis Chen et al., 2016
AcceptedScientificName: Brevibacterium sediminis Chen et al., 2016
Kingdom: Bacteria
Phylum: Actinobacteriota
Order: Actinomycetales
Family: Brevibacteriaceae
Genus: Brevibacterium
Species: Brevibacterium sediminis
GenericName: Brevibacterium
SpecificEpithet: sediminis
TaxonRank: SPECIES
TaxonomicStatus: ACCEPTED
IucnRedListCategory: NE
DecimalLatitude: 37.233889
DecimalLongitude: 126.513889
Continent: ASIA
StateProvince: Incheon
Gadm:
- Level0:
  - Gid: KOR
  - Name: South Korea
- Level1:
  - Gid: KOR.11_1
  - Name: Incheon
- Level2:
  - Gid: KOR.11.8_2
  - Name: Ongjin
- Level3:
  - Gid: KOR.11.8.6_2
  - Name: Yeongheung
Year: 2021
Month: 7
Day: 23
EventDate: 2021-07-23
StartDayOfYear: 204
EndDayOfYear: 204
Issues:
- 0: COORDINATE_ROUNDED
- 1: GEODETIC_DATUM_ASSUMED_WGS84
- 2: CONTINENT_DERIVED_FROM_COORDINATES
- 3: INSTITUTION_MATCH_FUZZY
- 4: INSTITUTION_COLLECTION_MISMATCH
LastInterpreted: 2025-01-31T23:21:59.595+00:00
License: http://creativecommons.org/licenses/by-nc/4.0/legalcode
IsSequenced: False
Identifiers:
- 0:
  - Identifier: MABIK MI00006986
Media:
Facts:
Relations:
InstitutionKey: a8264021-9b25-41bb-88b5-eaba3fc66193
IsInCluster: False
DnaSequenceID:
GeodeticDatum: WGS84
Class: Actinomycetia
CountryCode: KR
RecordedByIDs:
IdentifiedByIDs:
GbifRegion: ASIA
Country: Korea, Republic of
PublishedByGbifRegion: ASIA
Identifier: MABIK MI00006986
CatalogNumber: MABIK MI00006986
InstitutionCode: MABIK
County: Ongjin-gun
Locality: Yeongheung-myeon
GbifID: 3419106846
CollectionCode: MI
OccurrenceID: MABIK MI00006986
IdentificationID: 7/23/21

Lineage: cellular organisms; Bacteria; Bacillati; Actinomycetota; Actinomycetes; Micrococcales; Brevibacteriaceae; Brevibacterium
LineageEx:
- Taxon:
  - 0:
    - TaxId: 131567
    - ScientificName: cellular organisms
    - Rank: cellular root
  - 1:
    - TaxId: 2
    - ScientificName: Bacteria
    - Rank: domain
  - 2:
    - TaxId: 1783272
    - ScientificName: Bacillati
    - Rank: kingdom
  - 3:
    - TaxId: 201174
    - ScientificName: Actinomycetota
    - Rank: phylum
  - 4:
    - TaxId: 1760
    - ScientificName: Actinomycetes
    - Rank: class
  - 5:
    - TaxId: 85006
    - ScientificName: Micrococcales
    - Rank: order
  - 6:
    - TaxId: 85019
    - ScientificName: Brevibacteriaceae
    - Rank: family
  - 7:
    - TaxId: 1696
    - ScientificName: Brevibacterium
    - Rank: genus

General Information

Sample Information

Other Information

General Information

Sample Information

Other Information

Morphology

Culture and growth conditions

Physiology and metabolism

Isolation, sampling and environmental information

Safety information

Sequence information

Occurence (geoference records)

Name and taxonomic classification