Strain identifier
BacDive ID: 160218
Type strain: 
Species: Lactobacillus nasalidis
Strain Designation: YZ01
Strain history: K. Ushida; Chubu Univ., Japan; YZ01.
NCBI tax ID(s): 2797258 (species)
version 9.3 (current version)
General
@ref: 67122
BacDive-ID: 160218
DSM-Number: 110539
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Lactobacillus nasalidis YZ01 is a mesophilic bacterium that was isolated from Probocis monkey, forestomach content.
NCBI tax id
- NCBI tax id: 2797258
- Matching level: species
strain history
| @ref | history |
|---|---|
| 67122 | <- K. Ushida, Chubu University; YZ01 |
| 67770 | K. Ushida; Chubu Univ., Japan; YZ01. |
doi: 10.13145/bacdive160218.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Lactobacillus
- species: Lactobacillus nasalidis
- full scientific name: Lactobacillus nasalidis Suzuki-Hashido et al. 2021
@ref: 67122
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Lactobacillus
species: Lactobacillus nasalidis
full scientific name: Lactobacillus nasalidis Suzuki-Hashido et al. 2021
strain designation: YZ01
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 125438 | no | 96.5 | |
| 125438 | 94.389 | positive | |
| 125439 | 93.9 | negative |
Culture and growth conditions
culture medium
- @ref: 67122
- name: MRS MEDIUM (DSMZ Medium 11)
- growth: yes
- link: https://mediadive.dsmz.de/medium/11
- composition: Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 67122 | positive | growth | 37 |
| 67770 | positive | growth | 37 |
Physiology and metabolism
oxygen tolerance
- @ref: 125439
- oxygen tolerance: obligate anaerobe
- confidence: 98
spore formation
- @ref: 125439
- spore formation: no
- confidence: 99.3
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | host species |
|---|---|---|---|---|---|---|
| 67122 | Probocis monkey, forestomach content | Yokohama city | Japan | JPN | Asia | |
| 67770 | Forestomach of a captive proboscis monkey (Nasalis larvatus) | Yokohama Zoo | Japan | JPN | Asia | Nasalis larvatus |
Sequence information
16S sequences
- @ref: 67770
- description: Lactobacillus nasalidis YZ01 gene for 16S ribosomal RNA, partial sequence
- accession: LC495593
- length: 1442
- database: nuccore
- NCBI tax ID: 2797258
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Lactobacillus sp. YZ01 | 2797258.3 | wgs | patric | 2797258 |
| 67770 | Lactobacillus nasalidis YZ01 | GCA_016587775 | scaffold | ncbi | 2797258 |
GC content
- @ref: 67770
- GC-content: 51.6
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 94.389 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 77.778 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.415 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 96.895 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 94.274 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 96.5 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | no | 74.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 93.9 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate anaerobe | 98 |
External links
@ref: 67122
culture collection no.: DSM 110539, JCM 33769
straininfo link
- @ref: 112482
- straininfo: 405797
literature
- topic: Phylogeny
- Pubmed-ID: 33906706
- title: Lactobacillus nasalidis sp. nov., isolated from the forestomach of a captive proboscis monkey (Nasalis larvatus).
- authors: Suzuki-Hashido N, Tsuchida S, Hayakawa T, Sakamoto M, Azumano A, Seino S, Matsuda I, Ohkuma M, Ushida K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004787
- year: 2021
- mesh: Animals, Animals, Zoo/microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/chemistry, Genes, Bacterial, Japan, Lactobacillus/*classification/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Presbytini/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Stomach/*microbiology
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | 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 | |
| 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 | |
| 67122 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-110539 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 110539) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 112482 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID405797.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |