BioRepo | Biosample

Other Information

Key: 4439307422
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: 2024-07-02T10:14:09.367+00:00
CrawlId: 35
Extensions:
BasisOfRecord: MACHINE_OBSERVATION
IndividualCount: 7
OccurrenceStatus: PRESENT
TaxonKey: 3223780
KingdomKey: 3
PhylumKey: 10813635
ClassKey: 10701801
OrderKey: 10857265
FamilyKey: 8091
GenusKey: 2584528
SpeciesKey: 3223828
AcceptedTaxonKey: 3223828
ScientificName: Streptomyces griseorubens
AcceptedScientificName: Streptomyces althioticus Yamaguchi et al., 1957
Kingdom: Bacteria
Phylum: Actinobacteriota
Order: Streptomycetales
Family: Streptomycetaceae
Genus: Streptomyces
Species: Streptomyces althioticus
GenericName: Streptomyces
SpecificEpithet: griseorubens
TaxonRank: SPECIES
TaxonomicStatus: SYNONYM
IucnRedListCategory: NE
DecimalLatitude: 6.063214
DecimalLongitude: 80.810977
Continent: ASIA
Gadm:
- Level0:
  - Gid: LKA
  - Name: Sri Lanka
- Level1:
  - Gid: LKA.8_1
  - Name: Hambantota
- Level2:
  - Gid: LKA.8.9_1
  - Name: Tangalle
Year: 2022
Month: 3
Day: 30
EventDate: 2022-03-30
StartDayOfYear: 89
EndDayOfYear: 89
Issues:
LastInterpreted: 2024-07-02T10:14:09.367+00:00
License: http://creativecommons.org/publicdomain/zero/1.0/legalcode
OrganismQuantity: 7.0
OrganismQuantityType: individuals
IsSequenced: False
Identifiers:
- 0:
  - Identifier: V4R22_65
Media:
Facts:
Relations:
IsInCluster: False
SamplingProtocol: eDNA sampling from soil
GeodeticDatum: WGS84
Class: Actinomycetia
CountryCode: LK
RecordedByIDs:
IdentifiedByIDs:
Country: Sri Lanka
GbifRegion: ASIA
PublishedByGbifRegion: ASIA
EventID: V4R22
Identifier: V4R22_65
GbifID: 4439307422
OccurrenceID: V4R22_65

Colony morphology:
- 0:
  - @ref: 19415
  - Colony color: Lemon yellow
  - Incubation period: 10-14 days
  - Medium used: ISP 2
- 1:
  - @ref: 19415
  - Colony color: Lemon yellow
  - Incubation period: 10-14 days
  - Medium used: ISP 3
- 2:
  - @ref: 19415
  - Colony color: Brown beige
  - Incubation period: 10-14 days
  - Medium used: ISP 4
- 3:
  - @ref: 19415
  - Colony color: Lemon yellow
  - Incubation period: 10-14 days
  - Medium used: ISP 5
- 4:
  - @ref: 19415
  - Colony color: Beige
  - Incubation period: 10-14 days
  - Medium used: ISP 6
- 5:
  - @ref: 19415
  - Colony color: Beige
  - Incubation period: 10-14 days
  - Medium used: ISP 7
Multicellular morphology:
- 0:
  - @ref: 19415
  - Forms multicellular complex: yes
  - Complex name: Aerial Mycelium
  - Complex color: Silk grey
  - Medium name: ISP 2
- 1:
  - @ref: 19415
  - Forms multicellular complex: yes
  - Complex name: Aerial Mycelium
  - Complex color: Silk grey
  - Medium name: ISP 3
- 2:
  - @ref: 19415
  - Forms multicellular complex: yes
  - Complex name: Aerial Mycelium
  - Complex color: Silk grey
  - Medium name: ISP 4
- 3:
  - @ref: 19415
  - Forms multicellular complex: no
  - Medium name: ISP 5
- 4:
  - @ref: 19415
  - Forms multicellular complex: no
  - Medium name: ISP 6
- 5:
  - @ref: 19415
  - Forms multicellular complex: no
  - Medium name: ISP 7

Culture medium:
- 0:
  - @ref: 9356
  - Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  - Growth: yes
  - Link: https://mediadive.dsmz.de/medium/65
  - Composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
- 1:
  - @ref: 19415
  - Name: ISP 2
  - Growth: yes
  - Composition: Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
- 2:
  - @ref: 19415
  - Name: ISP 3
  - Growth: yes
  - Composition: Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
- 3:
  - @ref: 19415
  - Name: ISP 4
  - Growth: yes
  - Composition: Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
- 4:
  - @ref: 19415
  - Name: ISP 5
  - Growth: yes
  - Composition: Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
- 5:
  - @ref: 19415
  - Name: ISP 6
  - Growth: yes
  - Composition: Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
- 6:
  - @ref: 19415
  - Name: ISP 7
  - Growth: yes
  - Composition: Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
Culture temp:
- 0:
  - @ref: 19415
  - Growth: positive
  - Type: optimum
  - Temperature: 28
- 1:
  - @ref: 9356
  - Growth: positive
  - Type: growth
  - Temperature: 28
- 2:
  - @ref: 67770
  - Growth: positive
  - Type: growth
  - Temperature: 28

Observation:
- @ref: 67770
- Observation: quinones: MK-9(H<sub>6</sub>), MK-9(H<sub>8</sub>)
Enzymes:
- 0:
  - @ref: 68382
  - Value: alkaline phosphatase
  - Activity: +
  - Ec: 3.1.3.1
- 1:
  - @ref: 68382
  - Value: esterase (C 4)
  - Activity: +
- 2:
  - @ref: 68382
  - Value: esterase lipase (C 8)
  - Activity: +
- 3:
  - @ref: 68382
  - Value: lipase (C 14)
  - Activity: +
- 4:
  - @ref: 68382
  - Value: leucine arylamidase
  - Activity: +
  - Ec: 3.4.11.1
- 5:
  - @ref: 68382
  - Value: valine arylamidase
  - Activity: +
- 6:
  - @ref: 68382
  - Value: cystine arylamidase
  - Activity: +
  - Ec: 3.4.11.3
- 7:
  - @ref: 68382
  - Value: trypsin
  - Activity: +
  - Ec: 3.4.21.4
- 8:
  - @ref: 68382
  - Value: alpha-chymotrypsin
  - Activity: +
  - Ec: 3.4.21.1
- 9:
  - @ref: 68382
  - Value: acid phosphatase
  - Activity: +
  - Ec: 3.1.3.2
- 10:
  - @ref: 68382
  - Value: naphthol-AS-BI-phosphohydrolase
  - Activity: +
- 11:
  - @ref: 68382
  - Value: alpha-galactosidase
  - Activity: +
  - Ec: 3.2.1.22
- 12:
  - @ref: 68382
  - Value: beta-galactosidase
  - Activity: +
  - Ec: 3.2.1.23
- 13:
  - @ref: 68382
  - Value: beta-glucuronidase
  - Activity: -
  - Ec: 3.2.1.31
- 14:
  - @ref: 68382
  - Value: alpha-glucosidase
  - Activity: +
  - Ec: 3.2.1.20
- 15:
  - @ref: 68382
  - Value: beta-glucosidase
  - Activity: +
  - Ec: 3.2.1.21
- 16:
  - @ref: 68382
  - Value: N-acetyl-beta-glucosaminidase
  - Activity: +
  - Ec: 3.2.1.52
- 17:
  - @ref: 68382
  - Value: alpha-mannosidase
  - Activity: +
  - Ec: 3.2.1.24
- 18:
  - @ref: 68382
  - Value: alpha-fucosidase
  - Activity: -
  - Ec: 3.2.1.51
API zym:
- @ref: 19415
- Alkaline phosphatase: +
- Esterase: +
- Esterase Lipase: +
- Lipase: +
- Leucine arylamidase: +
- Valine arylamidase: +
- Cystine arylamidase: +
- Trypsin: +
- Alpha- Chymotrypsin: +
- Acid phosphatase: +
- Naphthol-AS-BI-phosphohydrolase: +
- Alpha- Galactosidase: +
- Beta- Galactosidase: +
- Beta- Glucuronidase: -
- Alpha- Glucosidase: +
- Beta- Glucosidase: +
- N-acetyl-beta- glucosaminidase: +
- Alpha- Mannosidase: +
- Alpha- Fucosidase: -

Isolation:
- 0:
  - @ref: 9356
  - Sample type: soil
  - Geographic location: Asia
- 1:
  - @ref: 67770
  - Sample type: Soil
Isolation source categories:
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Taxonmaps:
- @ref: 69479
- File name: preview.99_408.png
- Url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_91;97_97;98_106;99_408&stattab=map
- Last taxonomy: Streptomyces
- 16S sequence: AB184139
- Sequence Identity: None
- Total samples: 50
- Soil counts: 30
- Animal counts: 18
- Plant counts: 2

Risk assessment:
- 0:
  - @ref: 9356
  - Biosafety level: 1
  - Biosafety level comment: Risk group (German classification)
- 1:
  - @ref: 19415
  - Biosafety level: 1
  - Biosafety level comment: Risk group (German classification)

16S sequences:
- 0:
  - @ref: 20218
  - Description: Streptomyces griseorubens gene for 16S ribosomal RNA, partial sequence, strain: JCM 4383
  - Accession: D44098
  - Length: 121
  - Database: nuccore
  - NCBI tax ID: 66897
- 1:
  - @ref: 20218
  - Description: Streptomyces griseorubens gene for 16S ribosomal RNA, partial sequence, strain: NBRC 12780
  - Accession: AB915622
  - Length: 1019
  - Database: nuccore
  - NCBI tax ID: 66897
- 2:
  - @ref: 9356
  - Description: Streptomyces griseorubens gene for 16S rRNA, partial sequence, strain: NBRC 12780
  - Accession: AB184139
  - Length: 1476
  - Database: nuccore
  - NCBI tax ID: 66897
Genome sequences:
- 0:
  - @ref: 66792
  - Description: Streptomyces griseorubens strain JCM 4383
  - Accession: 66897.6
  - Assembly level: wgs
  - Database: patric
  - NCBI tax ID: 66897
- 1:
  - @ref: 66792
  - Description: Streptomyces griseorubens DSM 40160
  - Accession: 2913524612
  - Assembly level: draft
  - Database: img
  - NCBI tax ID: 66897
- 2:
  - @ref: 67770
  - Description: Streptomyces griseorubens JCM 4383
  - Accession: GCA_014649615
  - Assembly level: scaffold
  - Database: ncbi
  - NCBI tax ID: 66897
GC content:
- @ref: 67770
- GC-content: 72.2
- Method: genome sequence analysis

Lineage: cellular organisms; Bacteria; Terrabacteria group; Actinomycetota; Actinomycetes; Kitasatosporales; Streptomycetaceae; Streptomyces; Streptomyces althioticus group
LineageEx:
- Taxon:
  - 0:
    - TaxId: 131567
    - ScientificName: cellular organisms
    - Rank: no rank
  - 1:
    - TaxId: 2
    - ScientificName: Bacteria
    - Rank: superkingdom
  - 2:
    - TaxId: 1783272
    - ScientificName: Terrabacteria group
    - Rank: clade
  - 3:
    - TaxId: 201174
    - ScientificName: Actinomycetota
    - Rank: phylum
  - 4:
    - TaxId: 1760
    - ScientificName: Actinomycetes
    - Rank: class
  - 5:
    - TaxId: 85011
    - ScientificName: Kitasatosporales
    - Rank: order
  - 6:
    - TaxId: 2062
    - ScientificName: Streptomycetaceae
    - Rank: family
  - 7:
    - TaxId: 1883
    - ScientificName: Streptomyces
    - Rank: genus
  - 8:
    - TaxId: 2867194
    - ScientificName: Streptomyces althioticus group
    - Rank: species group

General Information

Sample Information

Other Information

General Information

Sample Information

Other Information

Occurence (geoference records)

Morphology

Culture and growth conditions

Physiology and metabolism

Isolation, sampling and environmental information

Safety information

Sequence information

Name and taxonomic classification