Strain identifier
BacDive ID: 133973
Type strain: 
Species: Caulobacter daechungensis
Strain Designation: H-E3-2
Strain history: L. Jin H-E3-2.
NCBI tax ID(s): 1249558 (species)
version 8.1 (current version)
General
@ref: 30981
BacDive-ID: 133973
keywords: 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped
description: Caulobacter daechungensis H-E3-2 is an aerobe, Gram-negative, motile bacterium that was isolated from freshwater .
NCBI tax id
- NCBI tax id: 1249558
- Matching level: species
strain history
- @ref: 67770
- history: L. Jin H-E3-2.
doi: 10.13145/bacdive133973.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Caulobacterales
- family: Caulobacteraceae
- genus: Caulobacter
- species: Caulobacter daechungensis
- full scientific name: Caulobacter daechungensis Jin et al. 2013
@ref: 30981
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Caulobacterales
family: Caulobacteraceae
genus: Caulobacter
species: Caulobacter daechungensis
strain designation: H-E3-2
type strain: yes
Morphology
cell morphology
- @ref: 30981
- gram stain: negative
- cell length: 1.55 µm
- cell width: 0.6 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 30981
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 30981 | positive | growth | 04-32 | |
| 30981 | positive | optimum | 30 | mesophilic |
| 67770 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 30981 | positive | growth | 06-09 | alkaliphile |
| 30981 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30981
- oxygen tolerance: aerobe
spore formation
- @ref: 30981
- spore formation: no
halophily
- @ref: 30981
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-1 %
observation
- @ref: 67770
- observation: quinones: Q-10
metabolite utilization
- @ref: 30981
- Chebi-ID: 24996
- metabolite: lactate
- utilization activity: +
- kind of utilization tested: carbon source
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30981 | acid phosphatase | + | 3.1.3.2 |
| 30981 | alkaline phosphatase | + | 3.1.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 30981 | freshwater (river, lake, pond) | |||
| 67770 | Water from Daechung Reservoir | 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_32076.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_73;96_731;97_15693;98_23801;99_32076&stattab=map
- Last taxonomy: Caulobacter daechungensis subclade
- 16S sequence: JX861096
- Sequence Identity:
- Total samples: 2566
- soil counts: 349
- aquatic counts: 1987
- animal counts: 159
- plant counts: 71
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 30981 | Caulobacter daechungensis strain H-E3-2 16S ribosomal RNA gene, partial sequence | JX861096 | 1350 | nuccore | 1249558 |
| 67770 | Hepatitis C virus strain HN3074 non-structural protein NS5B gene, partial cds | JX961096 | 884 | ena | 11103 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 30981 | 64.7 | |
| 67770 | 64.7 | high performance liquid chromatography (HPLC) |
External links
@ref: 30981
culture collection no.: KCTC 32211, JCM 18689
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23243096 | Caulobacter daechungensis sp. nov., a stalked bacterium isolated from a eutrophic reservoir. | Jin L, Lee HG, Kim HS, Ahn CY, Oh HM | Int J Syst Evol Microbiol | 10.1099/ijs.0.048884-0 | 2012 | Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/analysis, *Water Microbiology | Genetics |
| Phylogeny | 24198059 | Caulobacter profunda sp. nov., isolated from deep freshwater sediment. | Jin L, La HJ, Lee HG, Lee JJ, Lee S, Ahn CY, Oh HM | Int J Syst Evol Microbiol | 10.1099/ijs.0.057240-0 | 2013 | Bacterial Typing Techniques, Caulobacter/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/*microbiology, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistry | 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 | ||
| 30981 | 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 | 27311 | 28776041 |
| 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/ |