Strain identifier

BacDive ID: 15333

Type strain: Yes

Species: Streptomyces kanamyceticus

Strain Designation: K-2J

Strain history: KCC S-0433 <-- CUB 495 <-- Boots FD 1358 <-- ATCC 12853 <-- Bristol Labs.; A-9332 <-- Y. Okami K-2J (NIHJ 235).

NCBI tax ID(s): 1967 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 9601

BacDive-ID: 15333

DSM-Number: 40500

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production

description: Streptomyces kanamyceticus K-2J is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from Soil.

NCBI tax id

  • NCBI tax id: 1967
  • Matching level: species

strain history

@refhistory
9601<- E.B. Shirling, ISP <- ATCC <- NIHJ, K-2J
67770KCC S-0433 <-- CUB 495 <-- Boots FD 1358 <-- ATCC 12853 <-- Bristol Labs.; A-9332 <-- Y. Okami K-2J (NIHJ 235).

doi: 10.13145/bacdive15333.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces kanamyceticus
  • full scientific name: Streptomyces kanamyceticus Okami and Umezawa 1957 (Approved Lists 1980)

@ref: 9601

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces kanamyceticus

full scientific name: Streptomyces kanamyceticus Okami and Umezawa 1957

strain designation: K-2J

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no91.982
69480100positive

colony morphology

@refcolony colormedium used
69265Beige (1001), zinc yellow (1018)suter with tyrosine
69265Beige (1001), lemon yellow (1012)ISP 4
69265Light ivory (1015), honey yellow (1005)ISP 3
69265Sand yellow (1002)ISP 2
69265Sand yellow (1002)ISP 6
69265Sand yellow (1002), sulfur yellow (1016)suter without tyrosine
69265Traffic yellow (1002)ISP 5
69265Traffic yellow (1023), honey yellow (1005)ISP 7

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69265noAerial myceliumISP 2
69265noAerial myceliumISP 3
69265noAerial myceliumISP 4
69265noAerial myceliumISP 5
69265noAerial myceliumISP 6
69265noAerial myceliumISP 7
69265noAerial myceliumsuter with tyrosine
69265noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69265noMelanin
69265nosoluble pigment

multimedia

@refmultimedia contentintellectual property rightscaption
9601https://www.dsmz.de/microorganisms/photos/DSM_40500-1.jpg© Leibniz-Institut DSMZ
9601https://www.dsmz.de/microorganisms/photos/DSM_40500.jpg© Leibniz-Institut DSMZMedium 65 28°C
69265DSM_40500_image5.jpegHelmholtz-Zentrum für Infektionsforschung GmbH(ISP6, ISP7)
69265DSM_40500_image6.jpegHelmholtz-Zentrum für Infektionsforschung GmbH(ISP6, ISP7)

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9601GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
9601STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf

culture temp

@refgrowthtypetemperaturerange
18601positiveoptimum28mesophilic
9601positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

tolerance

  • @ref: 18601
  • compound: Lysozyme
  • percentage: 1

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9601kanamycin A, B, C
20216kanamycin A
20216kanamycin B
20216kanamycin C
67770FK506

halophily

  • @ref: 69265
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6926522599arabinose+growth
6926562968cellulose-growth
6926528757fructose+growth
6926517234glucose+growth
6926517268inositol+growth
6926537684mannose+growth
6926516634raffinose+growth
6926526546rhamnose-growth
6926517992sucrose-growth
6926518222xylose+growth
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
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

metabolite production

@refChebi-IDmetaboliteproduction
677706104kanamycinyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
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
68368gelatinase+
68368tryptophan deaminase+4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase+3.2.1.23
68382alkaline phosphatase+3.1.3.1
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase+3.2.1.24
68382alpha-fucosidase+3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69265+-++-+++++++-------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69265++/-+/-+/-+++/-+++++++/-+++++

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18601+++++-++-++

Isolation, sampling and environmental information

isolation

  • @ref: 67770
  • sample type: Soil
  • geographic location: Nagano Pref.
  • country: Japan
  • origin.country: JPN
  • continent: Asia

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
186011German classification
96011Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces kanamyceticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4775D44352120ena1967
20218Streptomyces kanamyceticus gene for 16S rRNA, partial sequenceAB122715564ena1967
20218Streptomyces kanamyceticus gene for 16S rRNA, partial sequence, strain:KCC S-0433AB2176021474ena1967
20218Streptomyces kanamyceticus gene for 16S rRNA, partial sequence, strain: NBRC 13414AB1843881477ena1967
20218Streptomyces kanamyceticus strain NRRL B-2535T 16S ribosomal RNA gene, partial sequenceDQ4425111502ena1967

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces kanamyceticus ATCC 12853GCA_008704495completencbi1967
66792Streptomyces kanamyceticus strain ATCC 128531967.6completepatric1967
66792Streptomyces kanamyceticus NBRC 134142563366699draftimg1967
66792Streptomyces kanamyceticus DSM 405002582581346draftimg1967
66792Streptomyces kanamyceticus ATCC 128532582581337draftimg1967
67770Streptomyces kanamyceticus NRRL B-2535GCA_001418465scaffoldncbi1967

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno89.756no
flagellatedno97.104no
gram-positiveyes87.287no
anaerobicno99.019no
aerobicyes91.602no
halophileno91.579no
spore-formingyes95.183no
thermophileno98.947yes
glucose-utilyes88.899yes
glucose-fermentno86.363no

External links

@ref: 9601

culture collection no.: DSM 40500, ATCC 12853, CBS 715.72, IFO 13414, ISP 5500, JCM 4433, JCM 4775, NBRC 13414, NCIB 9343, NRRL B-2535, RIA 1375, RIA 690, NIHJ 235, BCRC 11515, CGMCC 4.1441, KCTC 9225, LMG 19351, LMG 5976, LMG 8599, MTCC 324, NCIMB 9343, VKM Ac-837

straininfo link

  • @ref: 84426
  • straininfo: 5014

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Cultivation1190749Mineral nutrition of Streptomyces kanamyceticus for kanamycin formation.Basak K, Majumdar SKAntimicrob Agents Chemother10.1128/AAC.8.4.3911975Calcium/pharmacology, Culture Media, Iron/pharmacology, Kanamycin/*biosynthesis, Magnesium Sulfate/pharmacology, Minerals/*pharmacology, Molybdenum/pharmacology, Phosphates/pharmacology, Streptomyces/growth & development/*metabolism, Zinc/pharmacologyMetabolism
Enzymology2708136Expression of the kanamycin resistance gene in a kanamycin-producing strain of Streptomyces kanamyceticus.Nakano MM, Butsuya I, Ogawara HJ Antibiot (Tokyo)10.7164/antibiotics.42.4231989Acetylation, Acetyltransferases/analysis, Chromosome Mapping, Cloning, Molecular, Drug Resistance, Microbial/*genetics, Kanamycin/metabolism/*pharmacology, Plasmids, Streptomyces/*genetics/metabolismMetabolism
Biotechnology3949626Increased production of aminoglycosides associated with amplified antibiotic resistance genes.Crameri R, Davies JEJ Antibiot (Tokyo)10.7164/antibiotics.39.1281986Acetyltransferases/genetics, Aminoglycosides/*biosynthesis, Drug Resistance, Microbial, Fermentation, *Gene Amplification, Kanamycin/biosynthesis, Neomycin/biosynthesis, Plasmids, Streptomyces/enzymology/geneticsPathogenicity
Metabolism4791483Utilization of carbon and nitrogen sources by Streptomyces kanamyceticus for kanamycin production.Basak K, Majumdar SKAntimicrob Agents Chemother10.1128/AAC.4.1.61973Alcohols/metabolism, Carbohydrate Metabolism, Carbon/*metabolism, Hydrogen-Ion Concentration, Kanamycin/*biosynthesis, Nitrogen/*metabolism, Streptomyces/growth & development/*metabolismBiotechnology
Pathogenicity6690428Cloning of the kanamycin resistance gene from a kanamycin-producing Streptomyces species.Nakano MM, Mashiko H, Ogawara HJ Bacteriol10.1128/jb.157.1.79-83.19841984Aminoglycosides/pharmacology, Anti-Bacterial Agents/pharmacology, Cloning, Molecular/*drug effects, Drug Resistance, Microbial, Genes, Bacterial/*drug effects, Kanamycin/*antagonists & inhibitors/biosynthesis, Plasmids/drug effects, Protoplasts/drug effects, Streptomyces/drug effects/enzymology/*genetics, Transformation, Bacterial/drug effectsEnzymology
Pathogenicity7328057Resistance mechanisms of kanamycin-, neomycin-, and streptomycin-producing streptomycetes to aminoglycoside antibiotics.Hotta K, Yamamoto H, Okami Y, Umezawa HJ Antibiot (Tokyo)10.7164/antibiotics.34.11751981Aminoglycosides/pharmacology, Anti-Bacterial Agents/*pharmacology, Drug Resistance, Microbial, Kanamycin/*biosynthesis, Neomycin/*biosynthesis, Peptide Biosynthesis, Streptomyces/*drug effects/metabolism, Streptomycin/*biosynthesisMetabolism
Enzymology9875478Kanamycin acetyltransferase gene from kanamycin-producing Streptomyces kanamyceticus IFO 13414.Joe YA, Goo YMArch Pharm Res10.1007/BF029746451998Acetyltransferases/*genetics/metabolism, Cloning, Molecular, Kanamycin/*metabolism/pharmacology, Kanamycin Resistance/genetics, Microbial Sensitivity Tests, Plasmids/genetics, Restriction Mapping, Streptomyces/drug effects/*enzymology/*genetics, Transformation, BacterialMetabolism
Metabolism17661025Heterologous expression of the kanamycin biosynthetic gene cluster (pSKC2) in Streptomyces venezuelae YJ003.Thapa LP, Oh TJ, Lee HC, Liou K, Park JW, Yoon YJ, Sohng JKAppl Microbiol Biotechnol10.1007/s00253-007-1096-42007Bacterial Proteins/*genetics/metabolism, Carbohydrate Sequence, Gene Expression Regulation, Bacterial, Kanamycin/*biosynthesis/chemistry, Multigene Family, Streptomyces/*genetics/*metabolism
Phylogeny17766883Streptomyces durmitorensis sp. nov., a producer of an FK506-like immunosuppressant.Savic M, Bratic I, Vasiljevic BInt J Syst Evol Microbiol10.1099/ijs.0.64913-02007Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA, Ribosomal Spacer/chemistry/genetics, Genes, rRNA, Immunosuppressive Agents/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polymorphism, Genetic, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, Streptomyces/*classification/genetics/*isolation & purification/metabolism, YugoslaviaMetabolism
Metabolism19219581Functional characterization of kanB by complementing in engineered Streptomyces fradiae Deltaneo6::tsr.Jnawali HN, Subba B, Liou K, Sohng JKBiotechnol Lett10.1007/s10529-009-9937-02009Bacterial Proteins/*genetics/metabolism, Biosynthetic Pathways/genetics, Gene Deletion, *Genetic Complementation Test, Inositol/analogs & derivatives/metabolism, Neomycin/*biosynthesis, Streptomyces/*genetics/*metabolism, Transaminases/*genetics/metabolism
Biotechnology19466609Heterologous production of paromamine in Streptomyces lividans TK24 using kanamycin biosynthetic genes from Streptomyces kanamyceticus ATCC12853.Nepal KK, Oh TJ, Sohng JKMol Cells10.1007/s10059-009-0080-52009Aminoglycosides/genetics/*metabolism, Anti-Bacterial Agents/*biosynthesis/chemistry, Biotechnology, Genetic Engineering, Hexosamines/genetics/metabolism, In Vitro Techniques, Kanamycin/*biosynthesis/chemistry, Mass Spectrometry, Molecular Weight, Species Specificity, Streptomyces lividans/*genetics/growth & development/*metabolismMetabolism
Metabolism20015628Functional characterization of KanP, a methyltransferase from the kanamycin biosynthetic gene cluster of Streptomyces kanamyceticus.Nepal KK, Yoo JC, Sohng JKMicrobiol Res10.1016/j.micres.2009.11.0022009Bacterial Proteins/genetics/*metabolism, Kanamycin/*biosynthesis, Methyltransferases/genetics/*metabolism, *Multigene Family, Streptomyces/*enzymology/genetics/metabolismEnzymology
Metabolism30449069Establishment of a highly efficient conjugation protocol for Streptomyces kanamyceticus ATCC12853.Zhang S, Chen T, Jia J, Guo L, Zhang H, Li C, Qiao RMicrobiologyopen10.1002/mbo3.7472018Anti-Bacterial Agents/biosynthesis, *Conjugation, Genetic, Escherichia coli/genetics, Fermentation, *Gene Transfer Techniques, Kanamycin/analogs & derivatives/biosynthesis, Plasmids/genetics, Streptomyces/*genetics/metabolism
Phylogeny33180018Steptomyces fagopyri sp. nov., a novel actinomycete isolated from rhizospheric soil of Fagopyrum dibotrys.Guo Y, Tang X, Hu S, Li K, Zhou M, Jian GInt J Syst Evol Microbiol10.1099/ijsem.0.0045552020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fagopyrum/*microbiology, Fatty Acids/chemistry, Genome Size, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9601Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40500)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40500
18601Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM40500.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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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/
68368Automatically annotated from API 20E
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69265Wink, J.https://cdn.dsmz.de/wink/DSM%2040500.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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
84426Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID5014.1StrainInfo: A central database for resolving microbial strain identifiers