Strain identifier
BacDive ID: 6806
Type strain:
Species: Leptospira broomii
Strain Designation: 5399
Strain history: <- R. Galloway, CDC; strain 5399 {2008} <- P. N. Levett
NCBI tax ID(s): 301541 (species)
General
@ref: 15766
BacDive-ID: 6806
DSM-Number: 21534
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Leptospira broomii 5399 is a mesophilic bacterium that was isolated from human patient with leptospirosis.
NCBI tax id
- NCBI tax id: 301541
- Matching level: species
strain history
- @ref: 15766
- history: <- R. Galloway, CDC; strain 5399 {2008} <- P. N. Levett
doi: 10.13145/bacdive6806.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/spirochaetota
- domain: Bacteria
- phylum: Spirochaetota
- class: Spirochaetia
- order: Leptospirales
- family: Leptospiraceae
- genus: Leptospira
- species: Leptospira broomii
- full scientific name: Leptospira broomii Levett et al. 2006
@ref: 15766
domain: Bacteria
phylum: Spirochaetes
class: Spirochaetia
order: Spirochaetales
family: Leptospiraceae
genus: Leptospira
species: Leptospira broomii
full scientific name: Leptospira broomii Levett et al. 2006
strain designation: 5399
type strain: yes
Culture and growth conditions
culture medium
- @ref: 15766
- name: LEPTOSPIRA-MEDIUM (DSMZ Medium 1113)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1113
- composition: Name: LEPTOSPIRA-MEDIUM (DSMZ Medium 1113) Composition: Leptospira Medium Base EMJH 2.3 g/l Agarose 1.5 g/l Leptospira Enrichment EMJH Distilled water
culture temp
- @ref: 15766
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 15766
- sample type: human patient with leptospirosis
- country: Denmark
- origin.country: DNK
- continent: Europe
isolation source categories
Cat1 | Cat2 |
---|---|
#Infection | #Disease |
#Infection | #Patient |
#Host | #Human |
taxonmaps
- @ref: 69479
- File name: preview.99_2020.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_26;96_1119;97_1314;98_1583;99_2020&stattab=map
- Last taxonomy: Leptospira
- 16S sequence: AY796065
- Sequence Identity:
- Total samples: 3007
- soil counts: 169
- aquatic counts: 1106
- animal counts: 1640
- plant counts: 92
Safety information
risk assessment
- @ref: 15766
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15766
- description: Leptospira broomii strain 5399 16S ribosomal RNA gene, partial sequence
- accession: AY796065
- length: 1431
- database: ena
- NCBI tax ID: 301541
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Leptospira broomii serovar Hurstbridge str. 5399 | GCA_000243715 | contig | ncbi | 1049789 |
66792 | Leptospira broomii serovar Hurstbridge str. 5399 | 1049789.4 | wgs | patric | 1049789 |
66792 | Leptospira broomii 5399 | 2541047153 | draft | img | 1049789 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 87.808 | no |
flagellated | no | 69.123 | no |
gram-positive | no | 97.717 | no |
anaerobic | no | 97.175 | no |
aerobic | yes | 81.238 | no |
halophile | no | 93.725 | no |
spore-forming | no | 91.392 | no |
thermophile | no | 95.195 | no |
glucose-util | yes | 60.036 | no |
glucose-ferment | no | 88.622 | no |
External links
@ref: 15766
culture collection no.: DSM 21534, ATCC BAA 1107, KIT 5399
straininfo link
- @ref: 76274
- straininfo: 290984
literature
- topic: Phylogeny
- Pubmed-ID: 16514048
- title: Leptospira broomii sp. nov., isolated from humans with leptospirosis.
- authors: Levett PN, Morey RE, Galloway RL, Steigerwalt AG
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.63783-0
- year: 2006
- mesh: Base Composition, DNA, Ribosomal/chemistry, Electrophoresis, Gel, Pulsed-Field, Humans, Leptospira/*classification/*isolation & purification, Leptospirosis/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Enzymology
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
15766 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21534) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21534 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
76274 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID290984.1 | StrainInfo: A central database for resolving microbial strain identifiers |