Strain identifier
BacDive ID: 130333
Type strain:
Species: Flagellimonas pacifica
Strain Designation: sw169
Strain history: X.-H. Zhang and X. Song SW169.
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
@ref | history |
---|---|
22087 | <- X.-H. Zhang, Ocean Univ. China, Qingdao, P. R. China; sw169 |
67770 | X.-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
@ref synonym 20215 Muricauda parva 20215 Allomuricauda parva 20215 Spongiibacterium 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
@ref | growth | type | temperature | range |
---|---|---|---|---|
22087 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.995 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | latitude | longitude |
---|---|---|---|---|
22087 | surface seawater | South Pacific Gyre (27° 55' S 123° 10' W) | -27.9167 | -123.167 |
67770 | Surface seawater from the South Pacific Gyre (27° 55' S 123° 10' W) | -27.9167 | -123.167 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Spongiibacterium pacificum strain DSM 25885 | 1247520.3 | wgs | patric | 1247520 |
66792 | Flagellimonas pacifica DSM 25885 | 2728369489 | draft | img | 1247520 |
67770 | Allomuricauda parva DSM 25885 | GCA_900215465 | scaffold | ncbi | 1247520 |
GC content
- @ref: 22087
- GC-content: 43.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 87.555 | no |
gram-positive | no | 98.271 | no |
anaerobic | no | 99.099 | no |
aerobic | yes | 83.918 | no |
halophile | no | 77.373 | no |
spore-forming | no | 96.843 | no |
thermophile | no | 98.664 | no |
glucose-util | yes | 86.171 | no |
flagellated | no | 95.245 | no |
glucose-ferment | no | 89.279 | no |
External links
@ref: 22087
culture collection no.: DSM 25885, JCM 18379, LMG 26997, KCTC 52762
Reference
@id | authors | title | doi/url | catalogue |
---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |
22087 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25885 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25885) | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 |