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Strain identifier

BacDive ID: 140638

Type strain: Yes

Species: Corynebacterium guangdongense

Strain Designation: S01

Strain history: <- KCTC; KCTC 39608 <- H.-H. Zhu, State Key Lab of Applied Microbiology Southern China; S01

NCBI tax ID(s): 1783348 (species)

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

@ref: 64816

BacDive-ID: 140638

DSM-Number: 107476

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped, colony-forming

description: Corynebacterium guangdongense S01 is a facultative anaerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from contaminated NA plate.

NCBI tax id

  • NCBI tax id: 1783348
  • Matching level: species

strain history: <- KCTC; KCTC 39608 <- H.-H. Zhu, State Key Lab of Applied Microbiology Southern China; S01

doi: 10.13145/bacdive140638.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium guangdongense
  • full scientific name: Corynebacterium guangdongense Li et al. 2016

@ref: 64816

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Burkholderiales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium guangdongense

full scientific name: Corynebacterium guangdongense Li et al. 2016

strain designation: S01

type strain: yes

Morphology

cell morphology

  • @ref: 43073
  • gram stain: positive
  • cell length: 2.0-5.0 µm
  • cell width: 0.9-1.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43073
  • colony size: 1.0-1.5 mm
  • colony color: light-yellow
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Nutrient agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43073Nutrient agar (NA)yes
43073LB (Luria-Bertani) MEDIUMyes
43073Reasoner's 2A agar (R2A)yes
43073Trypticase Soy Agar (TSA)yes
430732216E agaryes
64816TRYPTICASE 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
64816COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
43073positiveoptimum25-30mesophilic
43073positivegrowth10-45
64816positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43073positivegrowth5.0-9.0alkaliphile
43073positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43073
  • oxygen tolerance: facultative anaerobe

spore formation

  • @ref: 43073
  • type of spore: spore
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
43073NaClpositivegrowth0-9 %(w/v)
43073NaClpositiveoptimum0-2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4307317632nitrate+reduction
430735291gelatin+hydrolysis
4307317234glucose-fermentation
4307317234glucose+builds acid from
4307333942ribose+builds acid from
4307318222xylose-builds acid from
4307329864mannitol-builds acid from
4307317306maltose-builds acid from
4307317716lactose-builds acid from
4307317992sucrose-builds acid from
4307328087glycogen-builds acid from
4307323652dextrin+assimilation
4307317634D-glucose+assimilation
4307329991L-aspartate+assimilation
4307329985L-glutamate+assimilation
430738391D-gluconate+assimilation
4307315748D-glucuronate+assimilation
4307332323glucuronamide+assimilation
4307351850methyl pyruvate+assimilation
43073167632-oxobutanoate+assimilation
4307313705acetoacetate+assimilation
4307317272propionate+assimilation
4307330089acetate+assimilation
4307328053melibiose-assimilation
43073320055methyl beta-D-glucopyranoside-assimilation
4307317814salicin-assimilation
43073506227N-acetylglucosamine-assimilation
4307363154N-acetyl-beta-D-mannosamine-assimilation
4307328037N-acetylgalactosamine-assimilation
4307335418n-acetylneuraminate-assimilation
4307316024D-mannose-assimilation
4307315824D-fructose-assimilation
4307328847D-fucose-assimilation
4307362345L-rhamnose-assimilation
4307317596inosine-assimilation
4307318333D-arabitol-assimilation
4307317754glycerol-assimilation
4307378697D-fructose 6-phosphate-assimilation
4307316523D-serine-assimilation
4307315971L-histidine-assimilation
4307317309pectin-assimilation
4307315895D-galactonic acid lactone-assimilation
43073181014-hydroxyphenylacetic acid-assimilation
4307316651(S)-lactate-assimilation
4307316865gamma-aminobutyric acid-assimilation
4307373706bromosuccinate-assimilation
4307333942ribose+fermentation
6837928087glycogen-fermentation
6837917992sucrose-fermentation
6837917716lactose-fermentation
6837917306maltose-fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
683795291gelatin-hydrolysis
6837916199urea+hydrolysis
683794853esculin-hydrolysis
6837917632nitrate+reduction

metabolite production

  • @ref: 43073
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: no

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
4307317234glucose-
4307315688acetoin-

enzymes

@refvalueactivityec
43073catalase+1.11.1.6
43073urease+3.5.1.5
43073pyrazinamidase+3.5.1.B15
43073alkaline phosphatase+3.1.3.1
43073beta-glucuronidase+3.2.1.31
43073cytochrome oxidase-1.9.3.1
43073pyrrolidonyl arylamidase-3.4.19.3
43073beta-galactosidase-3.2.1.23
43073alpha-glucosidase-3.2.1.20
43073N-acetyl-beta-glucosaminidase-3.2.1.52
43073beta-glucosidase-3.2.1.21
68379catalase+1.11.1.6
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase+3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43073C14:01.8
    43073C16:1ω9c1.7
    43073C16:027.8
    43073C18:1ω9c49.8
    43073C18:09.4
    4307310-methyl C18:09.6
  • type of FA analysis: whole cell analysis
  • incubation medium: 2216E agar
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 3
  • system: MIS MIDI
  • cutoff value:

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
64816++-++----+--+/-+/-------+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
43073contaminated NA plateGuangdong Province, PR ChinaChinaCHNAsia
64816contaminated nutrient agar plateGuangdong Institute of Microbiology, GuangzhouChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Engineered#Laboratory#Defined media

taxonmaps

  • @ref: 69479
  • File name: preview.99_105897.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_42587;97_54467;98_72040;99_105897&stattab=map
  • Last taxonomy: Corynebacterium guangdongense subclade
  • 16S sequence: NR_151871
  • Sequence Identity:
  • Total samples: 3908
  • soil counts: 517
  • aquatic counts: 321
  • animal counts: 2870
  • plant counts: 200

Safety information

risk assessment

  • @ref: 64816
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
64816Corynebacterium guangdongense strain S01 16S ribosomal RNA gene, partial sequenceKT8929401441ena1783348
64816Corynebacterium guangdongense strain S01 16S ribosomal RNA, partial sequenceNR_1518711441nuccore1783348

Genome sequences

  • @ref: 66792
  • description: Corynebacterium guangdongense DSM 107476
  • accession: 2923418710
  • assembly level: draft
  • database: img
  • NCBI tax ID: 1783348

GC content

  • @ref: 64816
  • GC-content: 70.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 64816

culture collection no.: KCTC 39608, CCTCC AB 2015423, GDMCC 1.1022, DSM 107476

literature

  • topic: Phylogeny
  • Pubmed-ID: 27216930
  • title: Corynebacterium guangdongense sp. nov., isolated from a contaminated plate.
  • authors: Li YX, Yang SZ, Feng GD, Wang YH, Zhu HH
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001177
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Glycolipids/chemistry, Laboratories, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
43073Yan-Xuan Li, Song-Zhen Yang, Guang-Da Feng, Yong-Hong Wang and Hong-Hui ZhuCorynebacterium guangdongense sp. nov., isolated from a contaminated plate10.1099/ijsem.0.001177IJSEM 66: 3201-3206 201627216930
64816Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-107476Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 107476)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68379Automatically annotated from API Coryne
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/