Strain identifier
BacDive ID: 134073
Type strain: 
Species: Flavobacterium limnosediminis
Strain Designation: JC2902
Strain history: J. Chun JC2902.
NCBI tax ID(s): 1401027 (species)
version 9 (current version)
General
@ref: 31175
BacDive-ID: 134073
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Flavobacterium limnosediminis JC2902 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater sediment .
NCBI tax id
- NCBI tax id: 1401027
- Matching level: species
strain history
- @ref: 67770
- history: J. Chun JC2902.
doi: 10.13145/bacdive134073.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Flavobacteriia
- order: Flavobacteriales
- family: Flavobacteriaceae
- genus: Flavobacterium
- species: Flavobacterium limnosediminis
- full scientific name: Flavobacterium limnosediminis Lee et al. 2013
@ref: 31175
domain: Bacteria
phylum: Bacteroidetes
class: Flavobacteriia
order: Flavobacteriales
family: Flavobacteriaceae
genus: Flavobacterium
species: Flavobacterium limnosediminis
strain designation: JC2902
type strain: yes
Morphology
cell morphology
- @ref: 31175
- gram stain: negative
- cell shape: rod-shaped
- motility: no
pigmentation
- @ref: 31175
- production: no
Culture and growth conditions
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 31175 | positive | growth | 10-37 |
| 67770 | positive | growth | 30 |
culture pH
- @ref: 31175
- ability: positive
- type: growth
- pH: 06-08
Physiology and metabolism
oxygen tolerance
- @ref: 31175
- oxygen tolerance: aerobe
halophily
- @ref: 31175
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-1 %
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 31175 | acid phosphatase | + | 3.1.3.2 |
| 31175 | alkaline phosphatase | + | 3.1.3.1 |
| 31175 | catalase | + | 1.11.1.6 |
| 31175 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 31175 | freshwater sediment (river, lake, pond) | |||
| 67770 | Lake sediment from Gochang | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Aquatic | #River (Creek) |
taxonmaps
- @ref: 69479
- File name: preview.99_7893.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_66;96_2149;97_3016;98_4291;99_7893&stattab=map
- Last taxonomy: Flavobacterium limnosediminis
- 16S sequence: JQ928688
- Sequence Identity:
- Total samples: 1850
- soil counts: 677
- aquatic counts: 1021
- animal counts: 90
- plant counts: 62
Sequence information
16S sequences
- @ref: 31175
- description: Flavobacterium limnosediminis JC2902 16S ribosomal RNA gene, partial sequence
- accession: JQ928688
- length: 1373
- database: nuccore
- NCBI tax ID: 1341181
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Flavobacterium limnosediminis JC2902 | 2571042671 | draft | img | 1341181 |
| 67770 | Flavobacterium limnosediminis JC2902 | GCA_000498535 | contig | ncbi | 1341181 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 31175 | 38.5 | |
| 67770 | 38.5 | genome sequence analysis |
External links
@ref: 31175
culture collection no.: KACC 16937, JCM 18661
literature
- topic: Phylogeny
- Pubmed-ID: 23996833
- title: Flavobacterium limnosediminis sp. nov., isolated from sediment of a freshwater lake.
- authors: Lee K, Park SC, Yi H, Chun J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.055566-0
- year: 2013
- mesh: Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Lakes/*microbiology, Molecular Sequence Data, *Phylogeny, Polyenes/chemistry, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA
- topic2: Genetics
Reference
| @id | authors | title | doi/url | ID_cross_reference | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 31175 | 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 | 27502 | 28776041 |
| 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/ | |||
| 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/ |