Strain identifier

BacDive ID: 7503

Type strain: Yes

Species: Frondihabitans peucedani

Strain Designation: RS-15

Strain history: CIP <- 2011, KCTC <- S.D. Lee, Jeju National Univ., Jeju, Republic of Korea: strain RS-15

NCBI tax ID(s): 598626 (species)

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General

@ref: 16197

BacDive-ID: 7503

DSM-Number: 22180

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

description: Frondihabitans peucedani RS-15 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from rhizosphere soil of Peucedanum japonicum Thunb..

NCBI tax id

  • NCBI tax id: 598626
  • Matching level: species

strain history

@refhistory
16197<- S. D. Lee, Cheju National Univ., Rep. of Korea; RS-15
67770S. D. Lee RS-15.
67771<- SD Lee, Cheju Univ.
121791CIP <- 2011, KCTC <- S.D. Lee, Jeju National Univ., Jeju, Republic of Korea: strain RS-15

doi: 10.13145/bacdive7503.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Frondihabitans
  • species: Frondihabitans peucedani
  • full scientific name: Frondihabitans peucedani Lee 2010

@ref: 16197

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Frondihabitans

species: Frondihabitans peucedani

full scientific name: Frondihabitans peucedani Lee 2010

strain designation: RS-15

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29652positive0.9-1 µm0.3-0.5 µmrod-shapedno
67771positive
121791positiverod-shapedno

pigmentation

  • @ref: 29652
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16197TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: 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
37585MEDIUM 116 - for Streptomyces, Nocardia, Streptosporangium and Mycobacterium chlorophenolicumyesDistilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g)
121791CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
16197positivegrowth30mesophilic
29652positivegrowth04-37
29652positiveoptimum20-30
37585positivegrowth30mesophilic
67770positivegrowth28mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29652positivegrowth5.1-12.1alkaliphile
29652positiveoptimum8.1-11.1

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29652aerobe
67771aerobe

spore formation

  • @ref: 29652
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29652NaClpositivegrowth4 %
29652NaClpositiveoptimum4 %

observation

@refobservation
29652aggregates in chains
67770quinones: MK-8, MK-9, MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2965217128adipate+carbon source
2965222599arabinose+carbon source
2965227689decanoate+carbon source
2965217234glucose+carbon source
2965225115malate+carbon source
2965217306maltose+carbon source
2965229864mannitol+carbon source
2965237684mannose+carbon source
12179117632nitrate-reduction
12179116301nitrite-reduction

metabolite production

  • @ref: 121791
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29652catalase+1.11.1.6
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
121791oxidase-
121791catalase+1.11.1.6
121791urease-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
121791-+++++++--++++-+-+--

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16197rhizosphere soil of Peucedanum japonicum Thunb.Peucedanum japonicumJeju, Mara IslandRepublic of KoreaKORAsia
67770Rhizosphere soil of a plant (Peucedanum japonicum Thunb.) on Mara IslandPeucedanum japonicumJejuRepublic of KoreaKORAsia
67771From rhizosphereJejuRepublic of KoreaKORAsia
121791Environment, Rhizosphere soil of a plant, Peucedanum japonicumMara Island, JejuRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Rhizosphere

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
161971Risk group (German classification)
1217911Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16197
  • description: Frondihabitans peucedani partial 16S rRNA gene, type strain RS-15T
  • accession: FM998017
  • length: 1430
  • database: ena
  • NCBI tax ID: 598626

GC content

@refGC-contentmethod
1619768.3high performance liquid chromatography (HPLC)
2965268.3

External links

@ref: 16197

culture collection no.: DSM 22180, KCTC 13435, JCM 17442, CIP 110287

straininfo link

  • @ref: 76949
  • straininfo: 370392

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19734279Frondihabitans peucedani sp. nov., an actinobacterium isolated from rhizosphere soil, and emended description of the genus Frondihabitans Greene et al. 2009.Lee SDInt J Syst Evol Microbiol10.1099/ijs.0.017947-02009Actinomycetales/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Magnoliopsida/microbiology, Molecular Sequence Data, Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyMetabolism
Phylogeny24132916Description of Galbitalea soli gen. nov., sp. nov., and Frondihabitans sucicola sp. nov.Kim SJ, Lim JM, Ahn JH, Weon HY, Hamada M, Suzuki KI, Ahn TY, Kwon SWInt J Syst Evol Microbiol10.1099/ijs.0.058339-02013Acer/*microbiology, Actinomycetales/*classification/genetics/isolation & purification, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phosphatidylglycerols/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Soil Microbiology, Vitamin K 2/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16197Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22180)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22180
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
29652Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2604128776041
37585Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8130
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68382Automatically annotated from API zym
76949Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370392.1StrainInfo: A central database for resolving microbial strain identifiers
121791Curators of the CIPCollection of Institut Pasteur (CIP 110287)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110287