Strain identifier

BacDive ID: 2374

Type strain: Yes

Species: Cellulomonas phragmiteti

Strain Designation: KB23

Strain history: DSM 22512 <-- A. K. Borsodi KB23 <-- A. Rusznyák.

NCBI tax ID(s): 478780 (species)

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General

@ref: 16374

BacDive-ID: 2374

DSM-Number: 22512

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Cellulomonas phragmiteti KB23 is a mesophilic bacterium that was isolated from reed periphyton in a shallow soda pond.

NCBI tax id

  • NCBI tax id: 478780
  • Matching level: species

strain history

@refhistory
16374<- A. K. Borsodi, Eötvös Loránd Univ. Budapest, Hungary; KB23 <- A. Rusznyák
67770DSM 22512 <-- A. K. Borsodi KB23 <-- A. Rusznyák.

doi: 10.13145/bacdive2374.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Cellulomonadaceae
  • genus: Cellulomonas
  • species: Cellulomonas phragmiteti
  • full scientific name: Cellulomonas phragmiteti Rusznyák et al. 2011

@ref: 16374

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Cellulomonadaceae

genus: Cellulomonas

species: Cellulomonas phragmiteti

full scientific name: Cellulomonas phragmiteti Rusznyák et al. 2011

strain designation: KB23

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.238
69480100positive

colony morphology

@refcolony colormedium used
69225Dahlia yellow (1033)ISP 3
69225Dahlia yellow (1033)ISP 4
69225Daffodil yellow (1007)ISP 5
69225Melon yellow (1028)suter with tyrosine
69225Saffron yellow (1017)ISP 7
69225Zinc yellow (1018)suter without tyrosine

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69225noAerial myceliumISP 2
69225noAerial myceliumISP 3
69225noAerial myceliumISP 4
69225noAerial myceliumISP 5
69225noAerial myceliumISP 6
69225noAerial myceliumISP 7
69225noAerial myceliumsuter with tyrosine
69225noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69225noMelanin
69225nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69225DSM_22512_image3.jpegPlates (GYM, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69225DSM_22512_image4.jpegPlates (GYM, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 16374
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16374positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.375

halophily

  • @ref: 69225
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-5 %

murein

  • @ref: 16374
  • murein short key: A21.04
  • type: A4ß L-Orn-D-Asp

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6922522599arabinose+growth
6922562968cellulose-growth
6922528757fructose+growth
6922517234glucose+growth
6922517268inositol-growth
6922537684mannose+growth
6922516634raffinose+growth
6922526546rhamnose-growth
6922517992sucrose+growth
6922518222xylose+growth
6837917632nitrate-reduction
683794853esculin+hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose+fermentation
6837916988D-ribose-fermentation
6837965327D-xylose+fermentation
6837916899D-mannitol+fermentation
6837917306maltose+fermentation
6837917716lactose-fermentation
6837917992sucrose+fermentation
6837928087glycogen+fermentation

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382acid phosphatase-3.1.3.2
68382trypsin-3.4.21.4
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382alkaline phosphatase-3.1.3.1
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

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69225-----++++--+-+++-++

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69225-+/-+/--++/-+/--+/--+/-++-+++--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16374reed (Phragmites australis) periphyton in a shallow soda pondPhragmites australisBudapest, Kiskunság National ParkHungaryHUNEurope
67770Phragmites australis-associated biofilm originating from a soda pond in Kiskunság National ParkPhragmites australisHungaryHUNEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Pond (small)
#Host#Other
#Host#Plants#Herbaceous plants (Grass,Crops)
#Condition#Alkaline

Safety information

risk assessment

  • @ref: 16374
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16374
  • description: Cellulomonas sp. KB23 partial 16S rRNA gene, strain KB23
  • accession: AM902253
  • length: 453
  • database: ena
  • NCBI tax ID: 478780

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Cellulomonas phragmiteti NBRC 110785GCA_016862775contigncbi478780
66792Cellulomonas phragmiteti strain NBRC 110785478780.3wgspatric478780

GC content

  • @ref: 16374
  • GC-content: 74.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes73no
gram-positiveyes91.806no
anaerobicno98.926no
halophileno83.347no
spore-formingno84.88no
glucose-utilyes90.604no
aerobicyes89.703no
thermophileno99.756yes
flagellatedno97.019no
motileno87.033no
glucose-fermentno74.009no

External links

@ref: 16374

culture collection no.: DSM 22512, JCM 19545, NBRC 110785, NCAIM B002303, NCAIM B.002303

straininfo link

  • @ref: 71929
  • straininfo: 400944

literature

  • topic: Phylogeny
  • Pubmed-ID: 20729313
  • title: Cellulomonas phragmiteti sp. nov., a cellulolytic bacterium isolated from reed (Phragmites australis) periphyton in a shallow soda pond.
  • authors: Rusznyak A, Toth EM, Schumann P, Sproer C, Makk J, Szabo G, Vladar P, Marialigeti K, Borsodi AK
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.022608-0
  • year: 2010
  • mesh: Bacterial Typing Techniques, Base Composition, Cellulomonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hungary, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, Poaceae/*microbiology, Ponds, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitle
16374Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22512)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22512
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69225Wink, J.https://cdn.dsmz.de/wink/DSM%2022512.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
71929Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID400944.1StrainInfo: A central database for resolving microbial strain identifiers