We are hiring!

Strain identifier

BacDive ID: 131576

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 7.1 (current version):
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 7.1 (current version)

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

doi: 10.13145/bacdive131576.20221219.7.1

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

@refnamegrowthlinkcomposition
44002Columbia agar with 5 % defibrinated sheep blood agaryes
22803TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
44002positivegrowth37mesophilic
44002positivegrowth42thermophilic
44002nogrowth10psychrophilic
22803positivegrowth37mesophilic
67770positivegrowth37mesophilic

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

@refobservation
44002dry and rough colonies
44002Able to grow on brain heart infusion agar, nutrient agar, trypticase soy agar, chocolate agar and MacConkey agar
44002major cell-wall sugars are galactose and arabinose,
44002cell-wall peptidoglycan contains meso-diaminopimelic acid as the diagnostic diamino acid (chemotype IV)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
44002168082-dehydro-D-gluconate-assimilation
44002581435-dehydro-D-gluconate-assimilation
4400227613amygdalin-assimilation
4400218305arbutin-assimilation
4400215963ribitol-assimilation
4400217108D-arabinose-assimilation
4400217057cellobiose-assimilation
4400228847D-fucose-assimilation
4400217716lactose-assimilation
4400262318D-lyxose-assimilation
4400217306maltose-assimilation
440026731melezitose-assimilation
4400228053melibiose-assimilation
4400216634raffinose-assimilation
4400216443D-tagatose-assimilation
4400265327D-xylose-assimilation
4400216813galactitol-assimilation
4400217113erythritol-assimilation
4400228066gentiobiose-assimilation
4400228087glycogen-assimilation
4400215443inulin-assimilation
4400230849L-arabinose-assimilation
4400218403L-arabitol-assimilation
4400262345L-rhamnose-assimilation
4400217266L-sorbose-assimilation
4400265328L-xylose-assimilation
4400243943methyl alpha-D-mannoside-assimilation
4400274863methyl beta-D-xylopyranoside-assimilation
4400217268myo-inositol-assimilation
4400217814salicin-assimilation
4400228017starch-assimilation
4400218186tyrosine-hydrolysis
4400215318xanthine-hydrolysis
4400212936D-galactose+assimilation
4400218333D-arabitol+assimilation
4400215824D-fructose+assimilation
4400217634D-glucose+assimilation
4400216899D-mannitol+assimilation
4400217924D-sorbitol+assimilation
4400216551D-trehalose+assimilation
4400232528turanose+assimilation
44002esculin ferric citrate+assimilation
4400218287L-fucose+assimilation
4400232032potassium gluconate+assimilation
4400217992sucrose+assimilation
4400217151xylitol+assimilation

enzymes

@refvalueactivityec
44002catalase+1.11.1.6
44002cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    4400210-Methyl C18:013.3
    44002C14:04.5
    44002C16:021.5
    44002C16:1ω6c, C16:1ω7c and iso-C15:0 2-OH15.2
    44002C16:1ω9c2.6
    44002C17:1ω9c1.4
    44002C18:02
    44002C18:1ω9c31.4
    44002C20:1ω9c3.7
  • 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

@refsample typegeographic locationcountryorigin.countrycontinent
22803human clinical sample, corneal scraping of patient with keratitisHong Kong, Queen Mary HospitalChinaCHNAsia
44002corneal scraping of a patient with keratitisHong-KongChinaCHNAsia
67770Corneal scraping of a patient with keratitisHong KongChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#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

@refGC-contentmethod
4400269.2-73.4thermal denaturation, midpoint method (Tm)
2280371.3thermal denaturation, midpoint method (Tm)
6777070.2-72.4thermal denaturation, midpoint method (Tm)

External links

@ref: 22803

culture collection no.: DSM 100208, JCM 30715

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

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
22803Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100208Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100208)
44002Jade 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. WooTsukamurella hongkongensis sp. nov. and Tsukamurella sinensis sp. nov., isolated from patients with keratitis, catheter-related bacteraemia and conjunctivitis10.1099/ijsem.0.000733IJSEM 66: 391-397 201626530900
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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 betahttps://microbeatlas.org/