General Information

Title Rhodopseudomonas palustris InaCC B1453
Organism Rhodopseudomonas palustris
Sample Type Microbe
Description
External Links
Description URL
None

Sample Information

Sample Attribute
Sample Name InaCC B1453
Sample Title Rhodopseudomonas palustris InaCC B1453
Description
Taxonomy ID 1076
Bioproject Id
Locus Tag Prefix
Strain InaCC B1453
Isolate N/A
Isolation Source N/A
Host N/A
Lab Host
Biomaterial Provider
Sample Type cell culture
Collection Date N/A
Geographic Location Name N/A
Latitude Longitude
Environmental Biome
Depth
Altitude
Collected By
Culture Collection
Genotype
Host Tissue Sampled
Identified By
Mating Type
Passage History
Sample Size
Serotype
Serovar
Specimen Voucher
Temperature
Organism 831
Center PUSAT RISET KOMPUTASI
Lab Pusat Sekuensing
Submitter Inna Syafarina
Submitted at 16-11-2023
Published at 16-11-2023

Other Information

  • Key: 4439306413
  • 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: 2024-07-02T10:14:08.110+00:00
  • CrawlId: 35
  • Extensions:
  • BasisOfRecord: MACHINE_OBSERVATION
  • IndividualCount: 8
  • OccurrenceStatus: PRESENT
  • TaxonKey: 11073618
  • KingdomKey: 3
  • PhylumKey: 111
  • ClassKey: 197
  • OrderKey: 1221
  • FamilyKey: 4891652
  • GenusKey: 3220030
  • SpeciesKey: 11073618
  • AcceptedTaxonKey: 11073618
  • ScientificName: Rhodopseudomonas palustris_C
  • AcceptedScientificName: Rhodopseudomonas palustris_C
  • Kingdom: Bacteria
  • Phylum: Proteobacteria
  • Order: Rhizobiales
  • Family: Xanthobacteraceae
  • Genus: Rhodopseudomonas
  • Species: Rhodopseudomonas palustris
  • GenericName: Rhodopseudomonas
  • SpecificEpithet: palustris
  • TaxonRank: SPECIES
  • TaxonomicStatus: ACCEPTED
  • DecimalLatitude: 7.492081
  • DecimalLongitude: 80.348583
  • Continent: ASIA
  • Gadm:
    • Level0:
      • Gid: LKA
      • Name: Sri Lanka
    • Level1:
      • Gid: LKA.14_1
      • Name: Kurunegala
    • Level2:
      • Gid: LKA.14.15_1
      • Name: Kurunegala
  • Year: 2022
  • Month: 2
  • Day: 8
  • EventDate: 2022-02-08
  • StartDayOfYear: 39
  • EndDayOfYear: 39
  • Issues:
  • LastInterpreted: 2024-07-02T10:14:08.110+00:00
  • License: http://creativecommons.org/publicdomain/zero/1.0/legalcode
  • OrganismQuantity: 8.0
  • OrganismQuantityType: individuals
  • IsSequenced: False
  • Identifiers:
    • 0:
      • Identifier: V4R16_100
  • Media:
  • Facts:
  • Relations:
  • IsInCluster: False
  • SamplingProtocol: eDNA sampling from soil
  • GeodeticDatum: WGS84
  • Class: Alphaproteobacteria
  • CountryCode: LK
  • RecordedByIDs:
  • IdentifiedByIDs:
  • Country: Sri Lanka
  • GbifRegion: ASIA
  • PublishedByGbifRegion: ASIA
  • EventID: V4R16
  • Identifier: V4R16_100
  • GbifID: 4439306413
  • OccurrenceID: V4R16_100

  • Cell morphology:
    • @ref: 121519
    • Gram stain: negative
    • Cell shape: rod-shaped
    • Motility: yes

  • Culture medium:
    • @ref: 121519
    • Name: CIP Medium 69
    • Growth: yes
    • Link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=69
  • Culture temp:
    • 0:
      • @ref: 121519
      • Growth: positive
      • Type: growth
      • Temperature: 30
    • 1:
      • @ref: 121519
      • Growth: no
      • Type: growth
      • Temperature: 10
    • 2:
      • @ref: 121519
      • Growth: no
      • Type: growth
      • Temperature: 41

  • Halophily:
    • 0:
      • @ref: 121519
      • Salt: NaCl
      • Growth: positive
      • Tested relation: growth
      • Concentration: 0 %
    • 1:
      • @ref: 121519
      • Salt: NaCl
      • Growth: no
      • Tested relation: growth
      • Concentration: 2 %
    • 2:
      • @ref: 121519
      • Salt: NaCl
      • Growth: no
      • Tested relation: growth
      • Concentration: 4 %
    • 3:
      • @ref: 121519
      • Salt: NaCl
      • Growth: no
      • Tested relation: growth
      • Concentration: 6 %
  • Metabolite utilization:
    • 0:
      • @ref: 121519
      • Chebi-ID: 16947
      • Metabolite: citrate
      • Utilization activity: -
      • Kind of utilization tested: carbon source
    • 1:
      • @ref: 121519
      • Chebi-ID: 4853
      • Metabolite: esculin
      • Utilization activity: -
      • Kind of utilization tested: hydrolysis
    • 2:
      • @ref: 121519
      • Chebi-ID: 17632
      • Metabolite: nitrate
      • Utilization activity: -
      • Kind of utilization tested: reduction
    • 3:
      • @ref: 121519
      • Chebi-ID: 16301
      • Metabolite: nitrite
      • Utilization activity: -
      • Kind of utilization tested: reduction
    • 4:
      • @ref: 121519
      • Chebi-ID: 15792
      • Metabolite: malonate
      • Utilization activity: -
      • Kind of utilization tested: assimilation
  • Metabolite production:
    • @ref: 121519
    • Chebi-ID: 35581
    • Metabolite: indole
    • Production: no
  • Enzymes:
    • 0:
      • @ref: 121519
      • Value: oxidase
      • Activity: +
    • 1:
      • @ref: 121519
      • Value: beta-galactosidase
      • Activity: -
      • Ec: 3.2.1.23
    • 2:
      • @ref: 121519
      • Value: alcohol dehydrogenase
      • Activity: -
      • Ec: 1.1.1.1
    • 3:
      • @ref: 121519
      • Value: gelatinase
      • Activity: -
    • 4:
      • @ref: 121519
      • Value: amylase
      • Activity: +
    • 5:
      • @ref: 121519
      • Value: DNase
      • Activity: -
    • 6:
      • @ref: 121519
      • Value: catalase
      • Activity: +
      • Ec: 1.11.1.6
    • 7:
      • @ref: 121519
      • Value: tween esterase
      • Activity: +
    • 8:
      • @ref: 121519
      • Value: lysine decarboxylase
      • Activity: -
      • Ec: 4.1.1.18
    • 9:
      • @ref: 121519
      • Value: ornithine decarboxylase
      • Activity: -
      • Ec: 4.1.1.17
    • 10:
      • @ref: 121519
      • Value: urease
      • Activity: +
      • Ec: 3.5.1.5
    • 11:
      • @ref: 68382
      • Value: alkaline phosphatase
      • Activity: +
      • Ec: 3.1.3.1
    • 12:
      • @ref: 68382
      • Value: esterase (C 4)
      • Activity: +
    • 13:
      • @ref: 68382
      • Value: esterase lipase (C 8)
      • Activity: +
    • 14:
      • @ref: 68382
      • Value: lipase (C 14)
      • Activity: -
    • 15:
      • @ref: 68382
      • Value: leucine arylamidase
      • Activity: +
      • Ec: 3.4.11.1
    • 16:
      • @ref: 68382
      • Value: valine arylamidase
      • Activity: -
    • 17:
      • @ref: 68382
      • Value: cystine arylamidase
      • Activity: +
      • Ec: 3.4.11.3
    • 18:
      • @ref: 68382
      • Value: trypsin
      • Activity: +
      • Ec: 3.4.21.4
    • 19:
      • @ref: 68382
      • Value: alpha-chymotrypsin
      • Activity: -
      • Ec: 3.4.21.1
    • 20:
      • @ref: 68382
      • Value: acid phosphatase
      • Activity: +
      • Ec: 3.1.3.2
    • 21:
      • @ref: 68382
      • Value: naphthol-AS-BI-phosphohydrolase
      • Activity: -
    • 22:
      • @ref: 68382
      • Value: alpha-galactosidase
      • Activity: -
      • Ec: 3.2.1.22
    • 23:
      • @ref: 68382
      • Value: beta-galactosidase
      • Activity: -
      • Ec: 3.2.1.23
    • 24:
      • @ref: 68382
      • Value: beta-glucuronidase
      • Activity: -
      • Ec: 3.2.1.31
    • 25:
      • @ref: 68382
      • Value: alpha-glucosidase
      • Activity: -
      • Ec: 3.2.1.20
    • 26:
      • @ref: 68382
      • Value: beta-glucosidase
      • Activity: -
      • Ec: 3.2.1.21
    • 27:
      • @ref: 68382
      • Value: N-acetyl-beta-glucosaminidase
      • Activity: -
      • Ec: 3.2.1.52
    • 28:
      • @ref: 68382
      • Value: alpha-mannosidase
      • Activity: -
      • Ec: 3.2.1.24
    • 29:
      • @ref: 68382
      • Value: alpha-fucosidase
      • Activity: -
      • Ec: 3.2.1.51
  • API zym:
    • @ref: 121519
    • Control: -
    • 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: -
  • API biotype100:
    • @ref: 121519
    • GLU: -
    • FRU: -
    • GAL: +
    • TRE: -
    • MNE: -
    • SBE: -
    • MEL: -
    • SAC: -
    • RAF: -
    • MTE: -
    • MAL: -
    • LAC: -
    • LTE: -
    • MbGa: -
    • MaGa: -
    • CEL: -
    • GEN: -
    • MbGu: -
    • ESC: -
    • RIB: -
    • ARA: +
    • XYL: -
    • PLE: -
    • RHA: -
    • FUC: -
    • MLZ: -
    • DARL: -
    • LARL: -
    • XLT: -
    • DUL: -
    • TAG: -
    • GLY: +
    • INO: -
    • MAN: -
    • MTL: -
    • TUR: -
    • SOR: -
    • ADO: -
    • HBG: -
    • LYX: -
    • ERY: -
    • MDG: -
    • 3MDG: -
    • SAT: +
    • MUC: +
    • LTAT: -
    • DTAT: -
    • MTAT: -
    • DMLT: -
    • LMLT: +
    • CATE: -
    • TATE: -
    • TTE: -
    • CIT: -
    • GRT: -
    • GAT: -
    • 2KG: -
    • 5KG: -
    • TRY: -
    • NAG: -
    • GNT: -
    • PAC: -
    • PAT: -
    • POBE: -
    • QAT: -
    • GTE: -
    • MOBE: -
    • BAT: -
    • PPAT: -
    • CMT: -
    • TGE: -
    • BET: -
    • PCE: -
    • ABT: -
    • HIN: -
    • LAT: -
    • CAP: -
    • CYT: -
    • HIS: -
    • SUC: -
    • FUM: -
    • GRE: -
    • GYT: -
    • AVT: -
    • ETN: -
    • TTN: -
    • GLN: -
    • ITA: -
    • 3OBU: +
    • APT: -
    • GTT: -
    • PRO: -
    • DALA: -
    • LALA: -
    • SER: -
    • MNT: -
    • PROP: -
    • TYR: -
    • 2KT: -

  • Risk assessment:
    • 0:
      • @ref: 20215
      • Biosafety level: 1
      • Biosafety level comment: Risk group
    • 1:
      • @ref: 121519
      • Biosafety level: 1
      • Biosafety level comment: Risk group (French classification)

  • 16S sequences:
    • 0:
      • @ref: 20215
      • Description: Rhodopseudomonas palustris 16S rRNA, partial sequence
      • Accession: D12700
      • Length: 1319
      • Database: nuccore
      • NCBI tax ID: 1076
    • 1:
      • @ref: 124043
      • Description: Rhodopseudomonas palustris gene for 16S rRNA, partial sequence, strain: ATCC 17001.
      • Accession: AB498815
      • Length: 1484
      • Database: nuccore
      • NCBI tax ID: 1076
    • 2:
      • @ref: 124043
      • Description: Rhodopseudomonas palustris 16S rRNA, 16S-23S ribosomal RNA intergeic spacer, tRNA-Ile, tRNA-Ala, 23S rRNA, partial and complete sequence, strain: ATCC 17001.
      • Accession: AB498825
      • Length: 954
      • Database: nuccore
      • NCBI tax ID: 1076
    • 3:
      • @ref: 124043
      • Description: Rhodopseudomonas palustris T 16S ribosomal RNA gene, partial sequence.
      • Accession: AF123087
      • Length: 1438
      • Database: nuccore
      • NCBI tax ID: 1076
    • 4:
      • @ref: 124043
      • Description: Rhodopseudomonas palustris strain NCIMB8252 16S ribosomal RNA gene, partial sequence.
      • Accession: AF416662
      • Length: 1256
      • Database: nuccore
      • NCBI tax ID: 1076
    • 5:
      • @ref: 124043
      • Description: Rhodopseudomonas palustris gene for 16S rRNA.
      • Accession: D25312
      • Length: 1412
      • Database: nuccore
      • NCBI tax ID: 1076

  • Lineage: cellular organisms; Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales; Nitrobacteraceae; Rhodopseudomonas
  • LineageEx:
    • Taxon:
      • 0:
        • TaxId: 131567
        • ScientificName: cellular organisms
        • Rank: no rank
      • 1:
        • TaxId: 2
        • ScientificName: Bacteria
        • Rank: superkingdom
      • 2:
        • TaxId: 1224
        • ScientificName: Pseudomonadota
        • Rank: phylum
      • 3:
        • TaxId: 28211
        • ScientificName: Alphaproteobacteria
        • Rank: class
      • 4:
        • TaxId: 356
        • ScientificName: Hyphomicrobiales
        • Rank: order
      • 5:
        • TaxId: 41294
        • ScientificName: Nitrobacteraceae
        • Rank: family
      • 6:
        • TaxId: 1073
        • ScientificName: Rhodopseudomonas
        • Rank: genus