Strain identifier
BacDive ID: 133876
Type strain: 
Species: Pseudofulvibacter geojedonensis
Strain Designation: YCS-9
NCBI tax ID(s): 1123758 (species)
version 8 (current version)
General
@ref: 30744
BacDive-ID: 133876
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Pseudofulvibacter geojedonensis YCS-9 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from seawater.
NCBI tax id
- NCBI tax id: 1123758
- Matching level: species
doi: 10.13145/bacdive133876.20230509.8
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Pseudofulvibacter
- species: Pseudofulvibacter geojedonensis
- full scientific name: Pseudofulvibacter geojedonensis Yoon et al. 2013
@ref: 30744
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Pseudofulvibacter
species: Pseudofulvibacter geojedonensis
strain designation: YCS-9
type strain: yes
Morphology
cell morphology
- @ref: 30744
- gram stain: negative
- cell length: 2.9 µm
- cell width: 0.45 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 62786
- incubation period: 3 days
pigmentation
- @ref: 30744
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30744 | positive | growth | 10-37 | |
| 30744 | positive | optimum | 25 | mesophilic |
| 62786 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30744 | positive | growth | 06-08 |
| 30744 | positive | optimum | 7.5 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 30744 | aerobe |
| 62786 | aerobe |
spore formation
- @ref: 30744
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30744 | NaCl | positive | growth | 02-05 % |
| 30744 | NaCl | positive | optimum | 2 % |
observation
- @ref: 30744
- observation: aggregates in clumps
metabolite utilization
- @ref: 30744
- Chebi-ID: 4853
- metabolite: esculin
- utilization activity: +
- kind of utilization tested: hydrolysis
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30744 | acid phosphatase | + | 3.1.3.2 |
| 30744 | alkaline phosphatase | + | 3.1.3.1 |
| 30744 | catalase | + | 1.11.1.6 |
| 30744 | gelatinase | + | |
| 30744 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | sampling date | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|---|
| 30744 | seawater | |||||
| 62786 | Seawater | 2008 | South Sea,Geojedo | Republic of Korea | KOR | Asia |
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Marine
taxonmaps
- @ref: 69479
- File name: preview.99_27807.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_13772;97_16769;98_20820;99_27807&stattab=map
- Last taxonomy: Pseudofulvibacter geojedonensis subclade
- 16S sequence: JN885200
- Sequence Identity:
- Total samples: 664
- soil counts: 5
- aquatic counts: 636
- animal counts: 23
Sequence information
16S sequences
- @ref: 30744
- description: Pseudofulvibacter geojedonensis strain YCS-9 16S ribosomal RNA gene, partial sequence
- accession: JN885200
- length: 1446
- database: nuccore
- NCBI tax ID: 1123758
GC content
- @ref: 30744
- GC-content: 34.2
External links
@ref: 30744
culture collection no.: KCTC 23884, CCUG 62114
straininfo link
| @ref | passport |
|---|---|
| 20218 | http://www.straininfo.net/strains/886898 |
| 20218 | http://www.straininfo.net/strains/886897 |
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22904231 | Pseudofulvibacter geojedonensis gen. nov., sp. nov., a polysaccharide-degrading member of the family Flavobacteriaceae isolated from seawater, and emended description of the genus Fulvibacter. | Yoon JH, Lee MH, Jung YT | Int J Syst Evol Microbiol | 10.1099/ijs.0.043513-0 | 2012 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis | Genetics |
| Phylogeny | 26537663 | Pseudofulvibacter gastropodicola sp. nov., isolated from a marine conch and emended descriptions of the genus Pseudofulvibacter Yoon et al. 2013 and Pseudofulvibacter geojedonensis. | Yang SH, Seo HS, Lee JH, Kim SJ, Kyoung Kwon K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000734 | 2015 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/genetics/isolation & purification, Gastropoda/*microbiology, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 26739348 | Pseudofulvibacter marinus sp. nov., isolated from seawater. | Wang Y, Zhou C, Ming H, Kang J, Chen H, Jing C, Feng H, Chang Y, Guo Z, Wang L | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000879 | 2016 |
Reference
| @id | authors | title | doi/url | journal | pubmed | ID_cross_reference | 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 | ||||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | StrainInfo introduces electronic passports for microorganisms. | 10.1016/j.syapm.2013.11.002 | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
| 27075 | 10.1099/ijs.0.043513-0 | 22904231 | |||||
| 30744 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 28776041 | 27075 | ||
| 62786 | Curators of the CCUG | https://www.ccug.se/strain?id=62114 | Culture Collection University of Gothenburg (CCUG) (CCUG 62114) | ||||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ |