Strain identifier

BacDive ID: 6330

Type strain: Yes

Species: Pseudokineococcus lusitanus

Strain Designation: T2A-S27

Strain history: LMG 24148 <-- J. M. Grau T2A-S27 <-- L. Trobajo.

NCBI tax ID(s): 763993 (species)

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General

@ref: 17368

BacDive-ID: 6330

DSM-Number: 23768

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive

description: Pseudokineococcus lusitanus T2A-S27 is a mesophilic, Gram-positive bacterium that was isolated from roof tile.

NCBI tax id

  • NCBI tax id: 763993
  • Matching level: species

strain history

@refhistory
17368<- V. Jurado, Inst. de Recursos Naturales y Agrobiologia, CSIC, Sevilla, Spain; T2A-S27 <- L. Trobajo
67770LMG 24148 <-- J. M. Grau T2A-S27 <-- L. Trobajo.

doi: 10.13145/bacdive6330.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kineosporiales
  • family: Kineosporiaceae
  • genus: Pseudokineococcus
  • species: Pseudokineococcus lusitanus
  • full scientific name: Pseudokineococcus lusitanus Jurado et al. 2011

@ref: 17368

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Kineosporiaceae

genus: Pseudokineococcus

species: Pseudokineococcus lusitanus

full scientific name: Pseudokineococcus lusitanus Jurado et al. 2011

strain designation: T2A-S27

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colormedium used
69315Dahlia yellow (1033)ISP 7
69315Dahlia yellow (1033)suter without tyrosine
69315Daffodil yellow (1007)ISP 6
69315Daffodil yellow (1007)ISP 5
69315Saffron yellow (1017)suter with tyrosine
69315Yellow orange (2000)ISP 2
69315Yellow orange (2000)ISP 4
69315Yellow orange (2000), Daffodil yellow (1007)ISP 3

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69315noAerial myceliumISP 2
69315noAerial myceliumISP 3
69315noAerial myceliumISP 4
69315noAerial myceliumISP 5
69315noAerial myceliumISP 6
69315noAerial myceliumISP 7
69315noAerial myceliumsuter with tyrosine
69315noAerial myceliumsuter without tyrosine

pigmentation

@refproductionname
69315noMelanin
69315nosoluble pigment

multimedia

@refmultimedia contentcaptionintellectual property rights
69315DSM_23768_image3.jpegPlates (92, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69315DSM_23768_image4.jpegPlates (92, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

  • @ref: 17368
  • 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
17368positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no95
69480no99.994

halophily

  • @ref: 69315
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6931522599arabinose+growth
6931562968cellulose+/-growth
6931528757fructose+/-growth
6931517234glucose+growth
6931517268inositol-growth
6931537684mannose+growth
6931516634raffinose-growth
6931526546rhamnose+growth
6931517992sucrose+growth
6931518222xylose+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
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
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)-
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
69315--++---------------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69315+/-+/-+/--+----++/----++/--+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
17368roof tileOportoPortugalPRTEurope
67770Roof tileOportoPortugalPRTEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Built environment
  • Cat3: #House

taxonmaps

  • @ref: 69479
  • File name: preview.99_57149.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_25387;97_31816;98_40758;99_57149&stattab=map
  • Last taxonomy: Pseudokineococcus lusitanus
  • 16S sequence: FN824365
  • Sequence Identity:
  • Total samples: 742
  • soil counts: 114
  • aquatic counts: 50
  • animal counts: 408
  • plant counts: 170

Safety information

risk assessment

  • @ref: 17368
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17368
  • description: Pseudokineococcus lusitanus partial 16S rRNA gene, type strain CECT 7306T
  • accession: FN824365
  • length: 1424
  • database: ena
  • NCBI tax ID: 763993

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudokineococcus lusitanus strain CECT 7306763993.3wgspatric763993
66792Pseudokineococcus lusitanus CECT 73062772190804draftimg763993
67770Pseudokineococcus lusitanus CECT 7306GCA_003751265scaffoldncbi763993

GC content

  • @ref: 17368
  • GC-content: 76.9
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno95no
motileyes64.907no
flagellatedno93.643no
gram-positiveyes93.138no
anaerobicno99.377no
halophileno76.687no
spore-formingno91.271no
glucose-utilyes88.132yes
aerobicyes92.499no
thermophileno97.291yes
glucose-fermentno84.524yes

External links

@ref: 17368

culture collection no.: DSM 23768, CECT 7306, LMG 24148, JCM 18962

straininfo link

  • @ref: 75804
  • straininfo: 308823

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21112988Pseudokineococcus lusitanus gen. nov., sp. nov., and reclassification of Kineococcus marinus Lee 2006 as Pseudokineococcus marinus comb. nov.Jurado V, Laiz L, Ortiz-Martinez A, Groth I, Saiz-Jimenez CInt J Syst Evol Microbiol10.1099/ijs.0.026195-02010Actinomycetales/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Portugal, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Vitamin K 2/analysisGenetics
Phylogeny32897851Pseudokineococcus galaxeicola sp. nov., isolated from mucus of a stony coral.Li Q, Zheng Y, Guo A, Chen Y, Zhang S, Li JInt J Syst Evol Microbiol10.1099/ijsem.0.0044602020Actinobacteria/*classification/isolation & purification, Animals, Anthozoa/*microbiology, Bacterial Typing Techniques, Base Composition, China, Coral Reefs, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17368Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23768)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23768
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69315Wink, J.https://cdn.dsmz.de/wink/DSM%2023768.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
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
75804Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID308823.1StrainInfo: A central database for resolving microbial strain identifiers