Strain identifier

BacDive ID: 6317

Type strain: Yes

Species: Kineococcus radiotolerans

Strain Designation: SRS30216, SRS 30216

Strain history: CIP <- 2002, RW Phillips, Georgia Univ., Georgia, USA: strain SRS 30216 <- CJ Berry

NCBI tax ID(s): 131568 (species)

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General

@ref: 5268

BacDive-ID: 6317

DSM-Number: 14245

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-positive, coccus-shaped

description: Kineococcus radiotolerans SRS30216 is an obligate aerobe, mesophilic, Gram-positive bacterium that was isolated from Savannah River Site.

NCBI tax id

  • NCBI tax id: 131568
  • Matching level: species

strain history

@refhistory
5268<- R.W. Phillips <- C.J. Berry; SRS30216
67770CIP 107704 <-- R. W. Phillips SRS30216 <-- C. J. Berry.
122127CIP <- 2002, RW Phillips, Georgia Univ., Georgia, USA: strain SRS 30216 <- CJ Berry

doi: 10.13145/bacdive6317.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kineosporiales
  • family: Kineosporiaceae
  • genus: Kineococcus
  • species: Kineococcus radiotolerans
  • full scientific name: Kineococcus radiotolerans Phillips et al. 2002

@ref: 5268

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kineosporiaceae

genus: Kineococcus

species: Kineococcus radiotolerans

full scientific name: Kineococcus radiotolerans Phillips et al. 2002 emend. Nouioui et al. 2018

strain designation: SRS30216, SRS 30216

type strain: yes

Morphology

cell morphology

  • @ref: 122127
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5268PTYG-MEDIUM (DSMZ Medium 914)yeshttps://mediadive.dsmz.de/medium/914Name: PTYG-MEDIUM (DSMZ Medium 914) Composition: Glucose 10.0 g/l Yeast extract 5.0 g/l Tryptone 5.0 g/l Peptone 5.0 g/l MgSO4 x 7 H2O 0.6 g/l CaCl2 0.06 g/l Distilled water
33857MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122127CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
122127CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5268positivegrowth30mesophilic
33857positivegrowth30mesophilic
67770positivegrowth28mesophilic
122127positivegrowth22-37
122127nogrowth5psychrophilic
122127nogrowth15psychrophilic
122127nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122127
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122127NaClpositivegrowth0 %
122127NaClnogrowth2 %
122127NaClnogrowth4 %
122127NaClnogrowth6 %
122127NaClnogrowth8 %
122127NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12212716947citrate-carbon source
1221274853esculin+hydrolysis
12212717632nitrate-reduction
12212716301nitrite-reduction
12212717632nitrate-respiration

metabolite production

  • @ref: 122127
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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
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
122127oxidase-
122127beta-galactosidase+3.2.1.23
122127alcohol dehydrogenase-1.1.1.1
122127gelatinase-
122127amylase+
122127DNase-
122127caseinase-3.4.21.50
122127catalase+1.11.1.6
122127tween esterase-
122127gamma-glutamyltransferase-2.3.2.2
122127lysine decarboxylase-4.1.1.18
122127ornithine decarboxylase-4.1.1.17
122127tryptophan deaminase-
122127urease-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
122127--++-+----++++-++---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122127+++++-+++++++++++++++++--++----++++++---+-------------------+-------------------------+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5268Savannah River SiteSouth Caroline, AikenUSAUSANorth America
67770Radioactive environment at the Savannah River SiteAiken, SCUSAUSANorth America
122127Swab of radioactive siteSouth CarolinaUnited States of AmericaUSANorth America

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #River (Creek)

taxonmaps

  • @ref: 69479
  • File name: preview.99_366.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_254;97_277;98_309;99_366&stattab=map
  • Last taxonomy: Kineococcus
  • 16S sequence: AF247813
  • Sequence Identity:
  • Total samples: 32220
  • soil counts: 9984
  • aquatic counts: 4169
  • animal counts: 11137
  • plant counts: 6930

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
52681Risk group (German classification)
1221271Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5268
  • description: Kineococcus-like str. SRS30216 16S ribosomal RNA gene, partial sequence
  • accession: AF247813
  • length: 1375
  • database: ena
  • NCBI tax ID: 266940

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Kineococcus radiotolerans SRS30216266940.11completepatric266940
66792Kineococcus radiotolerans SRS30216640753031completeimg266940
67770Kineococcus radiotolerans SRS30216 = ATCC BAA-149GCA_000017305completencbi266940

GC content

  • @ref: 67770
  • GC-content: 74.2
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes70.706no
gram-positiveyes92.167no
anaerobicno99.261no
aerobicyes91.988no
halophileno90.513no
spore-formingno79.942no
glucose-utilyes86.979no
flagellatedno91.145no
thermophileno99.383yes
glucose-fermentno74.257no

External links

@ref: 5268

culture collection no.: DSM 14245, ATCC BAA 149, JCM 12686, CIP 107704, NBRC 101839

straininfo link

  • @ref: 75791
  • straininfo: 100703

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12054260Kineococcus radiotolerans sp. nov., a radiation-resistant, gram-positive bacterium.Phillips RW, Wiegel J, Berry CJ, Fliermans C, Peacock AD, White DC, Shimkets LJInt J Syst Evol Microbiol10.1099/00207713-52-3-9332002Actinomycetales/*classification/genetics/*physiology/radiation effects, Bacterial Typing Techniques, DNA, Ribosomal/analysis, Desiccation, Gamma Rays, Molecular Sequence Data, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, *Radiation Tolerance, Sequence Analysis, DNAGenetics
Phylogeny18842871Kineococcus gynurae sp. nov., isolated from a Thai medicinal plant.Duangmal K, Thamchaipenet A, Ara I, Matsumoto A, Takahashi YInt J Syst Evol Microbiol10.1099/ijs.0.65671-02008Actinomycetales/chemistry/*classification/*genetics/isolation & purification, Asteraceae/*microbiology, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Genotype, Molecular Sequence Data, Peptidoglycan/chemistry, Phenotype, Phylogeny, Plant Roots/*microbiology, Plants, Medicinal/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/analogs & derivatives/chemistryGenetics
Genetics19057647Survival in nuclear waste, extreme resistance, and potential applications gleaned from the genome sequence of Kineococcus radiotolerans SRS30216.Bagwell CE, Bhat S, Hawkins GM, Smith BW, Biswas T, Hoover TR, Saunders E, Han CS, Tsodikov OV, Shimkets LJPLoS One10.1371/journal.pone.00038782008Actinomycetales/*genetics/metabolism/radiation effects, Biodegradation, Environmental, Chemotaxis, Genes, Bacterial, *Genome, Bacterial, Radiation Tolerance/*genetics, *Radiation, Ionizing, Radioactive Waste, Reactive Oxygen SpeciesMetabolism
Genetics19538504Novel blue light-sensitive proteins from a metagenomic approach.Pathak GP, Ehrenreich A, Losi A, Streit WR, Gartner WEnviron Microbiol10.1111/j.1462-2920.2009.01967.x2009Amino Acid Sequence, Bacteria/classification/genetics, Bacterial Proteins/chemistry/*genetics, Consensus Sequence, Genes, Bacterial, Genomics, Light, Molecular Sequence Data, Oligonucleotide Array Sequence Analysis, Photoreceptors, Microbial/chemistry/*genetics, Phylogeny, Soil MicrobiologyPhylogeny
Phylogeny19605726Kineococcus rhizosphaerae sp. nov., isolated from rhizosphere soil.Lee SDInt J Syst Evol Microbiol10.1099/ijs.0.008599-02009Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Aerobiosis, Bacterial Typing Techniques, Base Composition, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/metabolism, Phospholipids/analysis, Phylogeny, Pigments, Biological/biosynthesis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysisEnzymology
Genetics20830573Detection and isolation of selected genes of interest from metagenomic libraries by a DNA microarray approach.Pathak GP, Gartner WMethods Mol Biol10.1007/978-1-60761-823-2_212010Amino Acid Sequence, *DNA, Bacterial/genetics/isolation & purification, *Gene Library, *Genes, Bacterial, *Metagenome, *Metagenomics/instrumentation/methods, Molecular Sequence Data, Molecular Structure, *Oligonucleotide Array Sequence Analysis/instrumentation/methods, Sequence AlignmentPhylogeny
Phylogeny22669199Kineococcus endophytica sp. nov., a novel endophytic actinomycete isolated from a coastal halophyte in Jiangsu, China.Bian GK, Feng ZZ, Qin S, Xing K, Wang Z, Cao CL, Liu CH, Dai CC, Jiang JHAntonie Van Leeuwenhoek10.1007/s10482-012-9757-42012Actinomycetales/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Salt-Tolerant Plants/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analysisGenetics
Metabolism34705546A Novel Actinobacterial Cutinase Containing a Noncatalytic Polymer-Binding Domain.Abokitse K, Grosse S, Leisch H, Corbeil CR, Perrin-Sarazin F, Lau PCKAppl Environ Microbiol10.1128/AEM.01522-212021Amino Acid Sequence, *Carboxylic Ester Hydrolases/genetics/metabolism, Catalytic Domain, Fungi/metabolism, *Polymers

Reference

@idauthorscataloguedoi/urltitle
5268Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14245)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14245
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
33857Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5168
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/
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
75791Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100703.1StrainInfo: A central database for resolving microbial strain identifiers
122127Curators of the CIPCollection of Institut Pasteur (CIP 107704)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107704