Strain identifier
BacDive ID: 133651
Type strain: 
Species: Legionella nagasakiensis
Strain Designation: CDC-1796-JAP-E
Strain history: R. F. Benson CDC-1796-JAP-E <-- A. Saito 82-059.
NCBI tax ID(s): 535290 (species)
version 8.1 (current version)
General
@ref: 29939
BacDive-ID: 133651
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped
description: Legionella nagasakiensis CDC-1796-JAP-E is a mesophilic, Gram-negative, motile bacterium that was isolated from Well water.
NCBI tax id
- NCBI tax id: 535290
- Matching level: species
strain history
- @ref: 67770
- history: R. F. Benson CDC-1796-JAP-E <-- A. Saito 82-059.
doi: 10.13145/bacdive133651.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Legionellales
- family: Legionellaceae
- genus: Legionella
- species: Legionella nagasakiensis
- full scientific name: Legionella nagasakiensis Yang et al. 2012
@ref: 29939
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Legionellales
family: Legionellaceae
genus: Legionella
species: Legionella nagasakiensis
strain designation: CDC-1796-JAP-E
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 29939 | negative | rod-shaped | yes | |
| 69480 | negative | 99.995 |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.993 |
observation
- @ref: 67770
- observation: quinones: Q-10
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29939 | acid phosphatase | + | 3.1.3.2 |
| 29939 | alkaline phosphatase | + | 3.1.3.1 |
| 29939 | catalase | + | 1.11.1.6 |
| 29939 | gelatinase | + |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 29939 | Well water | |||
| 67770 | Well water in Nagasaki | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | |
| #Engineered | #Built environment | #Water reservoir (Aquarium/pool) |
taxonmaps
- @ref: 69479
- File name: preview.99_174644.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_35;96_1170;97_84305;98_114324;99_174644&stattab=map
- Last taxonomy: Legionella nagasakiensis subclade
- 16S sequence: EU701006
- Sequence Identity:
- Total samples: 183
- soil counts: 55
- aquatic counts: 102
- animal counts: 14
- plant counts: 12
Sequence information
16S sequences
- @ref: 29939
- description: Legionella nagasakiensis strain CDC-1796-JAP-E 16S ribosomal RNA gene, partial sequence
- accession: EU701006
- length: 1466
- database: nuccore
- NCBI tax ID: 535290
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Legionella nagasakiensis strain JCM 15315 | 535290.3 | wgs | patric | 535290 |
| 67770 | Legionella nagasakiensis JCM 15315 | GCA_900639915 | scaffold | ncbi | 535290 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 98.425 | yes |
| anaerobic | no | 98.094 | no |
| halophile | no | 71.913 | no |
| spore-forming | no | 93.293 | no |
| glucose-util | yes | 69.247 | no |
| thermophile | no | 95.641 | yes |
| aerobic | no | 83.276 | no |
| motile | yes | 85.848 | yes |
| glucose-ferment | no | 86.839 | no |
| flagellated | no | 79.127 | no |
External links
@ref: 29939
culture collection no.: ATCC BAA 1557, JCM 15315
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 21398499 | Legionella nagasakiensis sp. nov., isolated from water samples and from a patient with pneumonia. | Yang G, Benson RF, Ratcliff RM, Brown EW, Steigerwalt AG, Thacker WL, Daneshvar MI, Morey RE, Saito A, Fields BS | Int J Syst Evol Microbiol | 10.1099/ijs.0.027193-0 | 2011 | Aged, Bacterial Proteins/genetics, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Female, Fresh Water/*microbiology, Genes, rRNA, Humans, Japan/epidemiology, Legionella/*classification/genetics/*isolation & purification/physiology, Legionellosis/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidylprolyl Isomerase/genetics, Phylogeny, Pneumonia, Bacterial/*microbiology, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, South Australia/epidemiology, Species Specificity, United States/epidemiology, *Water Supply | Pathogenicity |
| Phylogeny | 22190440 | The first case of Legionella nagasakiensis isolation from hot spring water. | Furuhata K, Edagawa A, Miyamoto H, Goto K, Yoshida S, Fukuyama M | Biocontrol Sci | 10.4265/bio.16.171 | 2011 | Hot Springs/*microbiology, Legionella/classification/genetics/*isolation & purification, Phylogeny | Enzymology |
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 | ||
| 29939 | 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 | 26310 | 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/ | ||
| 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 |