Strain identifier

BacDive ID: 130333

Type strain: Yes

Species: Flagellimonas pacifica

Strain Designation: sw169

Strain history: X.-H. Zhang and X. Song SW169.

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 22087

BacDive-ID: 130333

DSM-Number: 25885

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Flagellimonas pacifica sw169 is a mesophilic, Gram-negative bacterium that was isolated from surface seawater.

strain history

@refhistory
22087<- X.-H. Zhang, Ocean Univ. China, Qingdao, P. R. China; sw169
67770X.-H. Zhang and X. Song SW169.

doi: 10.13145/bacdive130333.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flagellimonas
  • species: Flagellimonas pacifica
  • full scientific name: Flagellimonas pacifica (Gao et al. 2015) Choi et al. 2018
  • synonyms

    @refsynonym
    20215Muricauda parva
    20215Allomuricauda parva
    20215Spongiibacterium pacificum

@ref: 22087

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flagellimonas

species: Flagellimonas pacifica

full scientific name: Flagellimonas pacifica (Gao et al. 2015) Choi et al. 2018

strain designation: sw169

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.995

colony morphology

  • @ref: 22087
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

  • @ref: 22087
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
22087positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.995

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationlatitudelongitude
22087surface seawaterSouth Pacific Gyre (27° 55' S 123° 10' W)-27.9167-123.167
67770Surface seawater from the South Pacific Gyre (27° 55' S 123° 10' W)-27.9167-123.167

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

Safety information

risk assessment

  • @ref: 22087
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22087
  • description: Spongiibacterium pacificum strain SW169 16S ribosomal RNA gene, partial sequence
  • accession: JX501249
  • length: 1485
  • database: ena
  • NCBI tax ID: 1247520

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Spongiibacterium pacificum strain DSM 258851247520.3wgspatric1247520
66792Flagellimonas pacifica DSM 258852728369489draftimg1247520
67770Allomuricauda parva DSM 25885GCA_900215465scaffoldncbi1247520

GC content

  • @ref: 22087
  • GC-content: 43.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno87.555no
gram-positiveno98.271no
anaerobicno99.099no
aerobicyes83.918no
halophileno77.373no
spore-formingno96.843no
thermophileno98.664no
glucose-utilyes86.171no
flagellatedno95.245no
glucose-fermentno89.279no

External links

@ref: 22087

culture collection no.: DSM 25885, JCM 18379, LMG 26997, KCTC 52762

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22087Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25885Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25885)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1