Strain identifier
BacDive ID: 131576
Type strain:
Species: Tsukamurella hongkongensis
Strain Designation: HKU52
Strain history: J. L. L. Teng; Dept. of Microbiol., Univ. of Hong Kong, China; HKU52.
NCBI tax ID(s): 1671023 (species)
General
@ref: 22803
BacDive-ID: 131576
DSM-Number: 100208
keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, colony-forming, human pathogen
description: Tsukamurella hongkongensis HKU52 is an aerobe, mesophilic, Gram-positive human pathogen that forms irregular colonies and was isolated from human clinical sample, corneal scraping of patient with keratitis.
NCBI tax id
- NCBI tax id: 1671023
- Matching level: species
strain history
@ref | history |
---|---|
22803 | <- J. L. L. Teng, University of Hong Kong; HKU52 |
67770 | J. L. L. Teng; Dept. of Microbiol., Univ. of Hong Kong, China; HKU52. |
doi: 10.13145/bacdive131576.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Tsukamurellaceae
- genus: Tsukamurella
- species: Tsukamurella hongkongensis
- full scientific name: Tsukamurella hongkongensis Teng et al. 2016
@ref: 22803
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Tsukamurellaceae
genus: Tsukamurella
species: Tsukamurella hongkongensis
full scientific name: Tsukamurella hongkongensis Teng et al. 2016
strain designation: HKU52
type strain: yes
Morphology
cell morphology
- @ref: 44002
- gram stain: positive
- motility: no
colony morphology
- @ref: 44002
- colony size: 2 mm
- colony color: orange to red
- colony shape: irregular
- incubation period: 2 days
- medium used: Columbia agar with 5 % de?brinated sheep blood agar
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
44002 | Columbia agar with 5 % defibrinated sheep blood agar | yes | ||
22803 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
44002 | positive | growth | 37 | mesophilic |
44002 | positive | growth | 42 | thermophilic |
44002 | no | growth | 10 | psychrophilic |
22803 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 44002
- oxygen tolerance: aerobe
spore formation
- @ref: 44002
- spore formation: no
halophily
- @ref: 44002
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-5 %
observation
@ref | observation |
---|---|
44002 | dry and rough colonies |
44002 | Able to grow on brain heart infusion agar, nutrient agar, trypticase soy agar, chocolate agar and MacConkey agar |
44002 | major cell-wall sugars are galactose and arabinose, |
44002 | cell-wall peptidoglycan contains meso-diaminopimelic acid as the diagnostic diamino acid (chemotype IV) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
44002 | 16808 | 2-dehydro-D-gluconate | - | assimilation |
44002 | 58143 | 5-dehydro-D-gluconate | - | assimilation |
44002 | 27613 | amygdalin | - | assimilation |
44002 | 18305 | arbutin | - | assimilation |
44002 | 15963 | ribitol | - | assimilation |
44002 | 17108 | D-arabinose | - | assimilation |
44002 | 17057 | cellobiose | - | assimilation |
44002 | 28847 | D-fucose | - | assimilation |
44002 | 17716 | lactose | - | assimilation |
44002 | 62318 | D-lyxose | - | assimilation |
44002 | 17306 | maltose | - | assimilation |
44002 | 6731 | melezitose | - | assimilation |
44002 | 28053 | melibiose | - | assimilation |
44002 | 16634 | raffinose | - | assimilation |
44002 | 16443 | D-tagatose | - | assimilation |
44002 | 65327 | D-xylose | - | assimilation |
44002 | 16813 | galactitol | - | assimilation |
44002 | 17113 | erythritol | - | assimilation |
44002 | 28066 | gentiobiose | - | assimilation |
44002 | 28087 | glycogen | - | assimilation |
44002 | 15443 | inulin | - | assimilation |
44002 | 30849 | L-arabinose | - | assimilation |
44002 | 18403 | L-arabitol | - | assimilation |
44002 | 62345 | L-rhamnose | - | assimilation |
44002 | 17266 | L-sorbose | - | assimilation |
44002 | 65328 | L-xylose | - | assimilation |
44002 | 43943 | methyl alpha-D-mannoside | - | assimilation |
44002 | 74863 | methyl beta-D-xylopyranoside | - | assimilation |
44002 | 17268 | myo-inositol | - | assimilation |
44002 | 17814 | salicin | - | assimilation |
44002 | 28017 | starch | - | assimilation |
44002 | 18186 | tyrosine | - | hydrolysis |
44002 | 15318 | xanthine | - | hydrolysis |
44002 | 12936 | D-galactose | + | assimilation |
44002 | 18333 | D-arabitol | + | assimilation |
44002 | 15824 | D-fructose | + | assimilation |
44002 | 17634 | D-glucose | + | assimilation |
44002 | 16899 | D-mannitol | + | assimilation |
44002 | 17924 | D-sorbitol | + | assimilation |
44002 | 16551 | D-trehalose | + | assimilation |
44002 | 32528 | turanose | + | assimilation |
44002 | esculin ferric citrate | + | assimilation | |
44002 | 18287 | L-fucose | + | assimilation |
44002 | 32032 | potassium gluconate | + | assimilation |
44002 | 17992 | sucrose | + | assimilation |
44002 | 17151 | xylitol | + | assimilation |
enzymes
@ref | value | activity | ec |
---|---|---|---|
44002 | catalase | + | 1.11.1.6 |
44002 | cytochrome oxidase | - | 1.9.3.1 |
fatty acid profile
fatty acids
@ref fatty acid percentage 44002 10-Methyl C18:0 13.3 44002 C14:0 4.5 44002 C16:0 21.5 44002 C16:1ω6c, C16:1ω7c and iso-C15:0 2-OH 15.2 44002 C16:1ω9c 2.6 44002 C17:1ω9c 1.4 44002 C18:0 2 44002 C18:1ω9c 31.4 44002 C20:1ω9c 3.7 - type of FA analysis: whole cell analysis
- incubation medium: Columbia agar with 5 % de?brinated sheep blood
- incubation temperature: 25
- incubation time: 2
- system: MIS MIDI
- method/protocol: Sasser, 1990
- cutoff value:
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
22803 | human clinical sample, corneal scraping of patient with keratitis | Hong Kong, Queen Mary Hospital | China | CHN | Asia |
44002 | corneal scraping of a patient with keratitis | Hong-Kong | China | CHN | Asia |
67770 | Corneal scraping of a patient with keratitis | Hong Kong | China | CHN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Medical environment | #Clinic |
#Host | #Human | |
#Host Body-Site | #Organ | #Eye |
#Infection | #Inflammation | |
#Infection | #Patient |
taxonmaps
- @ref: 69479
- File name: preview.99_3845.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1974;97_2373;98_2929;99_3845&stattab=map
- Last taxonomy: Tsukamurella
- 16S sequence: KP888572
- Sequence Identity:
- Total samples: 12359
- soil counts: 3431
- aquatic counts: 2978
- animal counts: 5160
- plant counts: 790
Safety information
risk assessment
- @ref: 22803
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22803
- description: Tsukamurella hongkongensis strain HKU52 16S ribosomal RNA gene, partial sequence
- accession: KP888572
- length: 1405
- database: ena
- NCBI tax ID: 1671023
GC content
@ref | GC-content | method |
---|---|---|
44002 | 69.2-73.4 | thermal denaturation, midpoint method (Tm) |
22803 | 71.3 | thermal denaturation, midpoint method (Tm) |
67770 | 70.2-72.4 | thermal denaturation, midpoint method (Tm) |
External links
@ref: 22803
culture collection no.: DSM 100208, JCM 30715
straininfo link
- @ref: 89982
- straininfo: 397482
literature
- topic: Phylogeny
- Pubmed-ID: 26530900
- title: Tsukamurella hongkongensis sp. nov. and Tsukamurella sinensis sp. nov., isolated from patients with keratitis, catheter-related bacteraemia and conjunctivitis.
- authors: Teng JLL, Tang Y, Wong SSY, Ngan AHY, Huang Y, Tsang CC, Choi GKY, Lau SKP, Woo PCY
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000733
- year: 2015
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Adult, Bacteremia/*microbiology, Bacterial Typing Techniques, Base Composition, Catheters, Indwelling/microbiology, Conjunctiva/microbiology, Conjunctivitis/*microbiology, Cornea/microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hong Kong, Humans, Keratitis/*microbiology, Male, Middle Aged, Molecular Sequence Data, Mycolic Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Pathogenicity
Reference
@id | authors | title | doi/url | catalogue | journal | 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 | |||
22803 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100208 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100208) | |||
44002 | Jade L. L. Teng, Ying Tang, Samson S. Y. Wong, Antonio H. Y. Ngan, Yi Huang, Chi-Ching Tsang, Garnet K. Y. Choi, Susanna K. P. Lau, Patrick C. Y. Woo | Tsukamurella hongkongensis sp. nov. and Tsukamurella sinensis sp. nov., isolated from patients with keratitis, catheter-related bacteraemia and conjunctivitis | 10.1099/ijsem.0.000733 | IJSEM 66: 391-397 2016 | 26530900 | |
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/ | |||
89982 | 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-ID397482.1 |