Workshop and Q&A October 6th

Strain identifier

BacDive ID: 131578

Type strain: Yes

Species: Tsukamurella sinensis

Strain Designation: HKU51

Strain history: J. L. L. Teng; Dept. of Microbiol., Univ. of Hong Kong, China; HKU51.

NCBI tax ID(s): 1671022 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 22805

BacDive-ID: 131578

DSM-Number: 100207

keywords: human pathogen, colony-forming, Gram-positive, mesophilic, halotolerant, aerobe, Bacteria, 16S sequence

description: Tsukamurella sinensis HKU51 is an aerobe, halotolerant, mesophilic human pathogen that forms irregular colonies and was isolated from human clinical sample, conjunctival swab of a patient with conjunctivitis.

NCBI tax id

  • NCBI tax id: 1671022
  • Matching level: species

strain history

doi: 10.13145/bacdive131578.20220920.7

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 sinensis
  • full scientific name: Tsukamurella sinensis Teng et al. 2016

@ref: 22805

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Tsukamurellaceae

genus: Tsukamurella

species: Tsukamurella sinensis

full scientific name: Tsukamurella sinensis Teng et al. 2016

strain designation: HKU51

type strain: yes

Morphology

cell morphology

  • @ref: 44002
  • gram stain: positive
  • motility: no

colony morphology

  • @ref: 44002
  • colony size: 2 mm
  • colony color: white
  • 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
22805TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://bacmedia.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
44002nogrowth10psychrophilic
44002nogrowth42thermophilic
22805positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 44002
  • oxygen tolerance: aerobe

spore formation

  • @ref: 44002
  • spore formation: no

halophily

  • @ref: 44002
  • halophily level: halotolerant
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 4 %

observation

@refobservation
44002dry and rough colonies
44002able to grow on brain heart infusion agar, nutrient agar, trypticase soyagar and chocolate agar but not on MacConkey agar
44002major cell-wall sugars are galactose and arabinose
44002cell-wall peptidoglycan contains meso-diaminopimelic acid as the diagnostic diamino acid (chemotype IV)
44002cells with apical transverse septa were observed

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
4400218333D-arabitol-assimilation
4400217057cellobiose-assimilation
4400228847D-fucose-assimilation
4400212936D-galactose-assimilation
4400217716lactose-assimilation
4400262318D-lyxose-assimilation
4400217306maltose-assimilation
4400216899D-mannitol-assimilation
440026731melezitose-assimilation
4400228053melibiose-assimilation
4400216634raffinose-assimilation
4400216443D-tagatose-assimilation
4400265327D-xylose-assimilation
4400216813galactitol-assimilation
4400217113erythritol-assimilation
44002esculin ferric citrate-assimilation
4400228066gentiobiose-assimilation
4400217754glycerol-assimilation
4400228087glycogen-assimilation
4400215443inulin-assimilation
4400230849L-arabinose-assimilation
4400218403L-arabitol-assimilation
4400218287L-fucose-assimilation
4400262345L-rhamnose-assimilation
4400217266L-sorbose-assimilation
4400265328L-xylose-assimilation
44002320061methyl alpha-D-glucopyranoside-assimilation
4400243943methyl alpha-D-mannoside-assimilation
44002methyl alpha-D-xylopyranoside-assimilation
4400217814salicin-assimilation
4400230911sorbitol-assimilation
4400228017starch-assimilation
4400218186tyrosine-assimilation
4400217151xylitol-assimilation
4400215318xanthine-hydrolysis
4400215824D-fructose+assimilation
4400217634D-glucose+assimilation
4400216024D-mannose+assimilation
4400216988D-ribose+assimilation
4400216551D-trehalose+assimilation
4400232528turanose+assimilation
4400217268myo-inositol+assimilation
44002506227N-acetylglucosamine+assimilation
4400232032potassium gluconate+assimilation
4400217992sucrose+assimilation

enzymes

@refvalueactivityec
44002catalase+1.11.1.6
44002cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    44002C14:04.7
    44002C16:019.7
    44002C16:1ω6c, C16:1ω7c and iso-C15:0 2-OH15.7
    44002C16:1ω9c1.7
    44002C17:1ω8c1
    44002C18:03.9
    44002C18:1ω9c46.8
    44002C19:1ω9c1
    44002C19:1ω9c and/or C19:1ω11c1
    44002C20:1ω9c3
  • 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

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
22805human clinical sample, conjunctival swab of a patient with conjunctivitisHong Kong, Queen Mary HospitalChinaCHNAsia
44002a conjunctival swab of a patient with conjunctivitisHong-KongChinaCHNAsia
67770Conjunctival swab of a patient with conjunctivitisHong KongChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Organ#Eye
#Infection#Patient#Swab
#Infection#Inflammation

Safety information

risk assessment

  • @ref: 22805
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22805
  • description: Tsukamurella sinensis strain HKU51 16S ribosomal RNA gene, partial sequence
  • accession: KP888571
  • length: 1405
  • database: ena
  • NCBI tax ID: 1671022

GC content

@refGC-contentmethod
4400268.7-73.1thermal denaturation, midpoint method (Tm)
2280570.9thermal denaturation, midpoint method (Tm)
6777069.7-72.1thermal denaturation, midpoint method (Tm)

External links

@ref: 22805

culture collection no.: DSM 100207, JCM 30714

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
22805Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100207Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100207)
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/