Strain identifier

BacDive ID: 7474

Type strain: Yes

Species: Plantibacter auratus

Strain history: CIP <- 2006, IAM

NCBI tax ID(s): 272914 (species)

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General

@ref: 8110

BacDive-ID: 7474

DSM-Number: 19586

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

description: Plantibacter auratus DSM 19586 is an obligate aerobe, mesophilic, Gram-positive bacterium of the family Microbacteriaceae.

NCBI tax id

  • NCBI tax id: 272914
  • Matching level: species

strain history

@refhistory
8110<- Tomohiko Tamura, NBRC <- IFO 15702 <-NCFB 2317 <- originally deposited at NCIMB in 1967 by V.I. Kudriavzev as Arthrobacter sp.
397742006, IAM
67770IAM 14817 <-- IFO 15702 <-- NCFB 2317 <-- V. I. Kudriavzev B.861 (Arthrobacter sp.).
116567CIP <- 2006, IAM

doi: 10.13145/bacdive7474.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Plantibacter
  • species: Plantibacter auratus
  • full scientific name: Plantibacter auratus Lin and Yokota 2006

@ref: 8110

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Plantibacter

species: Plantibacter auratus

full scientific name: Plantibacter auratus Lin and Yokota 2006

type strain: yes

Morphology

cell morphology

  • @ref: 116567
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8110R2A 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
39774MEDIUM 9 - Brain heart infusion BHIyesDistilled water make up to (1000.000 ml);Brain heart infusion (37.000 g)
116567CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29
116567CIP Medium 9yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=9

culture temp

@refgrowthtypetemperaturerange
8110positivegrowth30mesophilic
39774positivegrowth30mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116567
  • oxygen tolerance: obligate aerobe

observation

  • @ref: 67770
  • observation: quinones: MK-10 (55%), MK-9 (24%), MK-8 (12%), MK-11 (8%)

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371D-fucose-builds acid from28847
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371inulin-builds acid from15443
68371melibiose-builds acid from28053
68371esculin+builds acid from4853
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371galactitol-builds acid from16813
68371L-sorbose-builds acid from17266
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
116567nitrate-reduction17632
116567nitrite-reduction16301

metabolite production

  • @ref: 116567
  • 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
116567oxidase-
116567catalase+1.11.1.6
116567urease-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
116567--++-++---+-++-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116567+/--------+/-+/-+/-+/-+/--+/--+/-+/-----+/-+/-++/-+/-+/-+/--+/-+/--+/-+/----+/-+/-+/-+/--+/---+/--+/-

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_3079.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_895;97_1924;98_2366;99_3079&stattab=map
  • Last taxonomy: Plantibacter flavus
  • 16S sequence: AB177868
  • Sequence Identity:
  • Total samples: 6679
  • soil counts: 1178
  • aquatic counts: 981
  • animal counts: 3384
  • plant counts: 1136

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
81101Risk group (German classification)
1165671Risk group (French classification)

Sequence information

16S sequences

  • @ref: 8110
  • description: Plantibacter auratus gene for 16S rRNA, partial sequence
  • accession: AB177868
  • length: 1425
  • database: ena
  • NCBI tax ID: 272914

GC content

@refGC-contentmethod
811068
6777068high performance liquid chromatography (HPLC)

External links

@ref: 8110

culture collection no.: DSM 19586, IAM 14817, NBRC 15702, NCIMB 9991, JCM 23192, CIP 109383, IFO 15702, NCFB 2317

straininfo link

  • @ref: 76919
  • straininfo: 59920

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17012557Plantibacter auratus sp. nov., in the family Microbacteriaceae.Lin YC, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.64366-02006Actinomycetales/chemistry/*classification/genetics/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny25566956Okibacterium endophyticum sp. nov., a novel endophytic actinobacterium isolated from roots of Salsola affinis C. A. Mey.Wang HF, Zhang YG, Li L, Liu WH, Hozzein WN, Chen JY, Guo JW, Zhang YM, Li WJAntonie Van Leeuwenhoek10.1007/s10482-014-0376-02015Actinobacteria/*classification/genetics/*isolation & purification, Aerobiosis, Base Composition, Catalase/analysis, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Endophytes/*classification/genetics/*isolation & purification, Fatty Acids/analysis, Glutamic Acid/analysis, Glycolipids/analysis, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/analysis, Peptidoglycan/analysis, Phospholipids/analysis, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Salsola/*microbiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Vitamin K 2/analysisEnzymology

Reference

@idauthorscataloguedoi/urltitle
8110Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19586)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19586
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
39774Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7118
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
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
76919Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID59920.1StrainInfo: A central database for resolving microbial strain identifiers
116567Curators of the CIPCollection of Institut Pasteur (CIP 109383)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109383