Strain identifier

BacDive ID: 11074

Type strain: Yes

Species: Kribbella karoonensis

Strain Designation: Q 41, Q41

Strain history: CIP <- 2006, DSMZ <- P.R. Meyers, Cape Town Univ., Cape Town, South Africa: strain Q41 <- B.M. Kirby

NCBI tax ID(s): 324851 (species)

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General

@ref: 6908

BacDive-ID: 11074

DSM-Number: 17344

keywords: 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Kribbella karoonensis Q 41 is an aerobe, spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.

NCBI tax id

  • NCBI tax id: 324851
  • Matching level: species

strain history

@refhistory
6908<- P. R. Meyers; Q 41 <- B. M. Kirby
67770DSM 17344 <-- P. R. Meyers Q41.
120392CIP <- 2006, DSMZ <- P.R. Meyers, Cape Town Univ., Cape Town, South Africa: strain Q41 <- B.M. Kirby

doi: 10.13145/bacdive11074.20241212.9.2

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Kribbellaceae
  • genus: Kribbella
  • species: Kribbella karoonensis
  • full scientific name: Kribbella karoonensis Kirby et al. 2006

@ref: 6908

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kribbellaceae

genus: Kribbella

species: Kribbella karoonensis

full scientific name: Kribbella karoonensis Kirby et al. 2006

strain designation: Q 41, Q41

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
31641positiverod-shapedno
120392positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
18406Beige (1001)10-14 daysISP 2
18406Beige (1001)10-14 daysISP 3
18406Beige (1001)10-14 daysISP 4
18406Beige (1001)10-14 daysISP 5
18406Beige (1001)10-14 daysISP 6
18406Beige (1001)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
18406yesAerial MyceliumCreamISP 2
18406yesAerial MyceliumCreamISP 3
18406yesAerial MyceliumCreamISP 4
18406noISP 5
18406noISP 6
18406yesAerial MyceliumCreamISP 7

pigmentation

  • @ref: 31641
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6908R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
18406ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18406ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18406ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18406ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18406ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18406ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
36072MEDIUM 372 - for AquabacteriumyesDistilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.050 g);Agar (15.000 g);Glucose (0.500 g);Yeast extract (0.500 g);Pyruvic acid (0.300g);Tween 80 (1.000 ml);Casamino acids (0.500 g);Proteose Peptone N°3 (0.500 g);Di Potassium mon
120392CIP Medium 372yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=372

culture temp

@refgrowthtypetemperature
6908positivegrowth28
18406positiveoptimum28
31641positivegrowth20-37
31641positiveoptimum30-37
36072positivegrowth30
67770positivegrowth28

culture pH

@refabilitytypepHPH range
31641positivegrowth05-09alkaliphile
31641positiveoptimum07-09

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31641aerobe
120392microaerophile

spore formation

  • @ref: 31641
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
31641NaClpositivegrowth02-04 %
31641NaClpositiveoptimum2 %

observation

  • @ref: 31641
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3164128757fructose+carbon source
3164117234glucose+carbon source
3164117754glycerol+carbon source
3164117716lactose+carbon source
3164129864mannitol+carbon source
3164137684mannose+carbon source
3164116634raffinose+carbon source
3164126546rhamnose+carbon source
3164117992sucrose+carbon source
3164118222xylose+carbon source
316414853esculin+hydrolysis
3164117632nitrate+reduction
6837928087glycogen-fermentation
6837917992sucrose+fermentation
6837917716lactose-fermentation
6837917306maltose-fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose-fermentation
6837917634D-glucose-fermentation
683795291gelatin+hydrolysis
6837916199urea+hydrolysis
683794853esculin+hydrolysis
6837917632nitrate-reduction
12039217632nitrate+reduction
12039216301nitrite-reduction
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

metabolite production

@refChebi-IDmetaboliteproduction
3164116136hydrogen sulfideyes
12039235581indoleno

enzymes

@refvalueactivityec
31641catalase+1.11.1.6
68382alpha-mannosidase+3.2.1.24
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase-3.4.11.3
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382esterase (C 4)+
120392oxidase-
120392gelatinase+
120392catalase+1.11.1.6
120392urease+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
68382beta-galactosidase+3.2.1.23
68379gelatinase+
68379urease+3.5.1.5
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase-3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18406--+--+-++++------+-

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18406-+++++-+-++++-+++++
120392+++-+----++++-++++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120392------------------------+/-------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
6908soilWorcester, Karoo DesertSouth AfricaZAFAfrica
67770Soil from the base of Aloe pillansii in the Karoo Desert National Botanical GardenWorcester, Western Cape ProvinceSouth AfricaZAFAfricaAloe pillansii
120392Environment, SoilSouth AfricaZAFAfrica

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
184061German classification
69081Risk group (German classification)
1203921Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
31641Kribbella karoonensis strain Q41 16S ribosomal RNA gene, partial sequenceAY9951461419nuccore324851
67770Kribbella karoonensis partial 16S rRNA gene, strain DSM 17344FN6432221353nuccore324851

External links

@ref: 6908

culture collection no.: DSM 17344, CIP 109290, NBRC 101884, NRRL B-24425, JCM 14304, BCRC 16842

straininfo link

  • @ref: 80323
  • straininfo: 290979

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16627661Kribbella karoonensis sp. nov. and Kribbella swartbergensis sp. nov., isolated from soil from the Western Cape, South Africa.Kirby BM, Roes ML, Meyers PRInt J Syst Evol Microbiol10.1099/ijs.0.63951-02006Actinomycetales/chemistry/*classification/*isolation & purification/physiology, Anaerobiosis, Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Carbohydrates/analysis, DNA Fingerprinting, DNA Restriction Enzymes/metabolism, DNA, Bacterial/chemistry/genetics/metabolism, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Genes, rRNA, Glycine/analysis, Growth Inhibitors/pharmacology, Molecular Sequence Data, Peptidoglycan/chemistry, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sodium Chloride/pharmacology, *Soil Microbiology, South AfricaEnzymology
Phylogeny18768610Kribbella catacumbae sp. nov. and Kribbella sancticallisti sp. nov., isolated from whitish-grey patinas in the catacombs of St Callistus in Rome, Italy.Urzi C, De Leo F, Schumann PInt J Syst Evol Microbiol10.1099/ijs.0.65613-02008Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, Diaminopimelic Acid/analysis, *Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Rome, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Vitamin K 2/analysisGenetics
Phylogeny23524355Kribbella shirazensis sp. nov., isolated from Iranian soil.Mohammadipanah F, Hamedi J, Goker M, Fiebig A, Pukall R, Sproer C, Klenk HPInt J Syst Evol Microbiol10.1099/ijs.0.046847-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Iran, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny28120200Kribbella soli sp. nov., isolated from soil.Ozdemir-Kocak F, Saygin H, Saricaoglu S, Cetin D, Guven K, Sproer C, Schumann P, Klenk HP, Sahin N, Isik KAntonie Van Leeuwenhoek10.1007/s10482-017-0830-x2017Actinobacteria/*classification/genetics/*isolation & purification/physiology, Bacterial Proteins/genetics, Bacterial Typing Techniques, Cell Wall/chemistry, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Genes, Essential, Multilocus Sequence Typing, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Vitamin K 2/analysisEnzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6908Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17344)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17344
18406Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM17344.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
31641Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2792428776041
36072Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7014
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
80323Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID290979.1StrainInfo: A central database for resolving microbial strain identifiers
120392Curators of the CIPCollection of Institut Pasteur (CIP 109290)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109290