Strain identifier

BacDive ID: 2938

Type strain: Yes

Species: Comamonas zonglianii

Strain Designation: BF-3

Strain history: CIP <- 2011, <- X. Yu, Nanjing Agric. Univ., China: strain BF-3

NCBI tax ID(s): 663949 (species)

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General

@ref: 16378

BacDive-ID: 2938

DSM-Number: 22523

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, colony-forming

description: Comamonas zonglianii BF-3 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from phenol-contaminated soil.

NCBI tax id

  • NCBI tax id: 663949
  • Matching level: species

strain history

@refhistory
16378<- X.-Y. Yu, Nanjing Agric. Univ., China; BF-3
124033CIP <- 2011, <- X. Yu, Nanjing Agric. Univ., China: strain BF-3

doi: 10.13145/bacdive2938.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Comamonas
  • species: Comamonas zonglianii
  • full scientific name: Comamonas zonglianii Yu et al. 2011

@ref: 16378

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Comamonas

species: Comamonas zonglianii

full scientific name: Comamonas zonglianii Yu et al. 2011

strain designation: BF-3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
23083negative0.9-1.5 µm0.6-0.8 µmrod-shapedno
124033negativerod-shapedno

colony morphology

  • @ref: 23083
  • colony size: 2.0 mm
  • colony color: pale yellow
  • colony shape: circular
  • incubation period: 2 days
  • medium used: LB agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16378NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23083LB (Luria-Bertani) MEDIUMyes
37630MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
124033CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
16378positivegrowth28mesophilic
23083positivegrowth15.0-43.0
23083positiveoptimum25.0-37.0mesophilic
37630positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
23083positiveoptimum7.0-8.0
23083positivegrowth6.0-10.0alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23083aerobe
124033obligate aerobe

spore formation

  • @ref: 23083
  • spore formation: no

halophily

@refsalttested relationconcentrationgrowth
23083NaCloptimum0.0-1.0 %
23083NaCloptimum0.0-2.5 %
23083NaClgrowth3.0 %no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2308317234glucose-fermentation
23083182404-hydroxy-L-proline-growth
2308322599arabinose-growth
2308317234glucose-growth
2308373804glycyl L-aspartic acid-growth
2308317240itaconate-growth
2308325115malate-growth
2308317306maltose-growth
2308329864mannitol-growth
2308337684mannose-growth
23083506227N-acetylglucosamine-growth
2308373784glycyl-l-glutamate-growth
2308318401phenylacetate-growth
230834853esculin-hydrolysis
2308317632nitrate-reduction
2308317128adipate+growth
2308327689decanoate+growth
2308316947citrate+growth
23083167244-hydroxybutyrate+growth
2308324265gluconate+growth
2308317295L-phenylalanine+growth
2308332954sodium acetate+growth
2308353423tween 40+growth
230835291gelatin+hydrolysis
2308317521(-)-quinic acid+oxidation
23083645522-hydroxybutyrate+oxidation
23083167632-oxobutanoate+oxidation
23083370543-hydroxybutyrate+oxidation
23083167244-hydroxybutyrate+oxidation
23083181014-hydroxyphenylacetic acid+oxidation
2308330089acetate+oxidation
2308373706bromosuccinate+oxidation
2308316947citrate+oxidation
2308315895D-galactonic acid lactone+oxidation
230838391D-gluconate+oxidation
2308317784D-glucosaminic acid+oxidation
2308314314D-glucose 6-phosphate+oxidation
2308324996lactate+oxidation
2308316865gamma-aminobutyric acid+oxidation
2308314336glycerol 1-phosphate+oxidation
2308373804glycyl L-aspartic acid+oxidation
2308321217L-alaninamide+oxidation
2308316977L-alanine+oxidation
2308317196L-asparagine+oxidation
2308329985L-glutamate+oxidation
2308315603L-leucine+oxidation
2308317295L-phenylalanine+oxidation
2308317203L-proline+oxidation
2308318183L-pyroglutamic acid+oxidation
2308351850methyl pyruvate+oxidation
2308375146monomethyl succinate+oxidation
2308317272propionate+oxidation
2308341865sebacic acid+oxidation
23083143136succinamate+oxidation
2308330031succinate+oxidation
2308353423tween 40+oxidation
2308353426tween 80+oxidation
2308327248urocanic acid+oxidation
12403317632nitrate-reduction
12403316301nitrite-reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis resistant
2308328971ampicillinyesyes
2308317833gentamicinyesyes
2308318208penicillin gyesyes
2308328077rifampicinyesyes
2308317076streptomycinyesyes

metabolite production

@refChebi-IDmetaboliteproduction
2308335581indoleno
12403335581indoleno

enzymes

@refvalueactivityec
23083acid phosphatase+3.1.3.2
23083alkaline phosphatase+3.1.3.1
23083alpha-chymotrypsin-3.4.21.1
23083alpha-fucosidase-3.2.1.51
23083alpha-galactosidase-3.2.1.22
23083alpha-glucosidase-3.2.1.20
23083alpha-mannosidase-3.2.1.24
23083arginine dihydrolase+3.5.3.6
23083beta-galactosidase-3.2.1.23
23083beta-glucosidase-3.2.1.21
23083beta-glucuronidase-3.2.1.31
23083catalase+1.11.1.6
23083cystine arylamidase-3.4.11.3
23083cytochrome oxidase+1.9.3.1
23083esterase (C 4)+
23083esterase lipase (C 8)+
23083leucine arylamidase+3.4.11.1
23083lipase (C 14)-
23083N-acetyl-beta-glucosaminidase+3.2.1.52
23083naphthol-AS-BI-phosphohydrolase+
23083trypsin-3.4.21.4
23083urease+3.5.1.5
23083valine arylamidase+
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
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
124033oxidase+
124033catalase+1.11.1.6
124033urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
124033-+++-++---++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture compositionisolation date
16378phenol-contaminated soilJiangsu Province, NanjingChinaCHNAsia
23083chemical factory in Nanjing,Jiangsu ProvinceLB mediumsupplemented with 500 mg phenol l-1
124033Environment, Soil contaminated by phenolNanjing, JiangsuChinaCHNAsia2008

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Terrestrial#Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
163781Risk group (German classification)
1240331Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16378
  • description: Comamonas zonglianii strain BF-3 16S ribosomal RNA gene, partial sequence
  • accession: GQ245981
  • length: 1453
  • database: ena
  • NCBI tax ID: 663949

GC content

@refGC-contentmethod
1637865.2±1thermal denaturation, midpoint method (Tm)
2308364.2-66.2

External links

@ref: 16378

culture collection no.: DSM 22523, CCTCC AB 209170, CIP 110332

straininfo link

  • @ref: 72460
  • straininfo: 376085

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20207803Comamonas zonglianii sp. nov., isolated from phenol-contaminated soil.Yu XY, Li YF, Zheng JW, Li Y, Li L, He J, Li SPInt J Syst Evol Microbiol10.1099/ijs.0.019612-02010Bacterial Typing Techniques, Base Composition, Comamonas/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phenol/*chemistry, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil/chemistry, *Soil Microbiology, Soil Pollutants/*chemistryGenetics
Phylogeny24633862Comamonas faecalis sp. nov., isolated from domestic pig feces.Kim D, Lee SSCurr Microbiol10.1007/s00284-014-0561-42014Animals, Base Composition, Base Sequence, Comamonas/*classification/genetics/isolation & purification/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/*analysis, Feces/microbiology, Gram-Negative Bacterial Infections/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA/veterinary, Sus scrofa, Swine, Swine Diseases/*microbiology, Ubiquinone/*analysisGenetics
Phylogeny25212224Comamonas humi sp. nov., isolated from soil.Hatayama KInt J Syst Evol Microbiol10.1099/ijs.0.067439-02014Bacterial Typing Techniques, Base Composition, Comamonas/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16378Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22523)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22523
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
23083Xin-Yan Yu,Yong-Feng Li,Jin-Wei Zheng,Yi Li,Lian Li,Jian He,Shun-Peng Li10.1099/ijs.0.019612-0Comamonas zonglianii sp. nov., isolated from phenol-contaminated soilIJSEM 61: 255-258 201120207803
37630Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8179
68382Automatically annotated from API zym
72460Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID376085.1StrainInfo: A central database for resolving microbial strain identifiers
124033Curators of the CIPCollection of Institut Pasteur (CIP 110332)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110332