Strain identifier
BacDive ID: 134025
Type strain:
Species: Mycobacterium paragordonae
Strain Designation: 49061
Strain history: B.-J. Kim; Seoul Natl. Univ. Coll. of Med., South Korea; 49061.
NCBI tax ID(s): 1389713 (species)
General
@ref: 31080
BacDive-ID: 134025
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, rod-shaped
description: Mycobacterium paragordonae 49061 is a mesophilic, rod-shaped bacterium that was isolated from human - mouth.
NCBI tax id
- NCBI tax id: 1389713
- Matching level: species
strain history
- @ref: 67770
- history: B.-J. Kim; Seoul Natl. Univ. Coll. of Med., South Korea; 49061.
doi: 10.13145/bacdive134025.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Mycobacteriaceae
- genus: Mycobacterium
- species: Mycobacterium paragordonae
- full scientific name: Mycobacterium paragordonae Kim et al. 2014
@ref: 31080
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Mycobacteriales
family: Mycobacteriaceae
genus: Mycobacterium
species: Mycobacterium paragordonae
strain designation: 49061
type strain: yes
Morphology
cell morphology
@ref | cell shape | motility | confidence | gram stain |
---|---|---|---|---|
31080 | rod-shaped | |||
69480 | no | 93.283 | ||
69480 | 100 | positive |
pigmentation
- @ref: 31080
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
31080 | positive | growth | 25-30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.851
metabolite utilization
- @ref: 31080
- Chebi-ID: 53426
- metabolite: tween 80
- utilization activity: +
- kind of utilization tested: carbon source
enzymes
@ref | value | activity | ec |
---|---|---|---|
31080 | arylsulfatase | + | 3.1.6.1 |
31080 | catalase | + | 1.11.1.6 |
31080 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
31080 | human - mouth | ||||
67770 | Sputum of a patient with a symptomatic pulmonary infection | Seoul | Republic of Korea | KOR | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body-Site | #Oral cavity and airways | #Mouth |
Sequence information
16S sequences
- @ref: 31080
- description: Mycobacterium paragordonae strain 49061 16S ribosomal RNA gene, partial sequence
- accession: KC525204
- length: 1393
- database: nuccore
- NCBI tax ID: 1389713
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Mycobacterium paragordonae 49061 | GCA_003614435 | complete | ncbi | 1389713 |
66792 | Mycobacterium paragordonae JCM 18565 | GCA_010723415 | scaffold | ncbi | 1389713 |
66792 | Mycobacterium paragordonae strain JCM 18565 | 1389713.13 | wgs | patric | 1389713 |
66792 | Mycobacterium paragordonae 49061 | 2923207141 | complete | img | 1389713 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 73 | no |
flagellated | no | 98.794 | no |
gram-positive | yes | 87.078 | no |
anaerobic | no | 98.667 | no |
aerobic | yes | 89.596 | no |
halophile | no | 96.598 | no |
spore-forming | no | 81.486 | no |
glucose-util | yes | 66.809 | no |
thermophile | no | 98.951 | no |
motile | no | 94.697 | no |
glucose-ferment | no | 91.51 | no |
External links
@ref: 31080
culture collection no.: JCM 18565, KCTC 29126T, KCTC 29126
literature
- topic: Phylogeny
- Pubmed-ID: 24006480
- title: Mycobacterium paragordonae sp. nov., a slowly growing, scotochromogenic species closely related to Mycobacterium gordonae.
- authors: Kim BJ, Hong SH, Kook YH, Kim BJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.051540-0
- year: 2013
- mesh: Bacterial Typing Techniques, Base Sequence, DNA, Bacterial/genetics, Genes, Bacterial, Humans, Lung Diseases/microbiology, Molecular Sequence Data, Mycobacterium/*classification/genetics/growth & development/isolation & purification, Mycobacterium Infections/microbiology, Nontuberculous Mycobacteria, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sputum/microbiology
- topic2: Pathogenicity
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 | ||
31080 | 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 | 27409 | 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/ | |||
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 |