Strain identifier

BacDive ID: 7325

Type strain: Yes

Species: Frigoribacterium faeni

Strain Designation: 801

Strain history: CIP <- 2003, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 801

NCBI tax ID(s): 145483 (species)

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General

@ref: 3896

BacDive-ID: 7325

DSM-Number: 10309

keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, Gram-positive, motile, rod-shaped

description: Frigoribacterium faeni 801 is a psychrophilic, Gram-positive, motile bacterium that was isolated from hay dust.

NCBI tax id

  • NCBI tax id: 145483
  • Matching level: species

strain history

@refhistory
3896<- M.A. Andersson; 801
407232003, P. Kämpfer, JL Univ., Giessen, Germany: strain 801
67770DSM 10309 <-- M. A. Andersson 801.
119270CIP <- 2003, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 801

doi: 10.13145/bacdive7325.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Microbacteriaceae
  • genus: Frigoribacterium
  • species: Frigoribacterium faeni
  • full scientific name: Frigoribacterium faeni Kämpfer et al. 2000

@ref: 3896

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Microbacteriaceae

genus: Frigoribacterium

species: Frigoribacterium faeni

full scientific name: Frigoribacterium faeni Kämpfer et al. 2000

strain designation: 801

type strain: yes

Morphology

cell morphology

  • @ref: 119270
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

colony morphology

@refcolony colorincubation periodmedium used
18353Zinc yellow (1018)10-14 daysISP 2
18353Zinc yellow (1018)10-14 daysISP 3
18353Zinc yellow (1018)10-14 daysISP 4
18353Zinc yellow (1018)10-14 daysISP 5
18353Zinc yellow (1018)10-14 daysISP 6
18353Zinc yellow (1018)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18353noISP 2
18353noISP 3
18353noISP 4
18353noISP 5
18353noISP 6
18353noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3896TRYPTICASE 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
18353ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18353ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18353ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18353ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18353ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18353ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
40723MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119270CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
18353positiveoptimum20psychrophilic
3896positivegrowth10psychrophilic
40723positivegrowth20psychrophilic
67770positivegrowth25mesophilic
119270positivegrowth10-30
119270nogrowth37mesophilic
119270nogrowth41thermophilic
119270nogrowth45thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
119270NaClpositivegrowth0-6 %
119270NaClnogrowth8 %
119270NaClnogrowth10 %

murein

  • @ref: 3896
  • murein short key: B14
  • type: B2ß {Gly} [L-Hsr] D-Glu-D-Lys

observation

  • @ref: 67770
  • observation: quinones: MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1835317234glucose+
1835322599arabinose+
1835317992sucrose+
1835318222xylose+
1835317268myo-inositol-
1835329864mannitol+
1835328757fructose+
1835326546rhamnose+
1835316634raffinose+
1835362968cellulose-
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11927016947citrate-carbon source
1192704853esculin+hydrolysis
119270606565hippurate+hydrolysis
11927017632nitrate-reduction
11927016301nitrite-reduction
11927017632nitrate-respiration
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

antibiotic resistance

  • @ref: 119270
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11927035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole-
11927015688acetoin-
11927017234glucose-

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-
68382alpha-chymotrypsin-3.4.21.1
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
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
119270oxidase-
119270beta-galactosidase+3.2.1.23
119270alcohol dehydrogenase-1.1.1.1
119270gelatinase+/-
119270amylase+
119270DNase-
119270caseinase+3.4.21.50
119270catalase+1.11.1.6
119270tween esterase+
119270gamma-glutamyltransferase-2.3.2.2
119270lecithinase-
119270lipase-
119270lysine decarboxylase-4.1.1.18
119270ornithine decarboxylase-4.1.1.17
119270phenylalanine ammonia-lyase-4.3.1.24
119270protease+
119270tryptophan deaminase-
119270urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18353-+-+-++-+----------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18353+-+-++++-+-++-++---
119270-++-+------++-++----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
18353+--------+-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119270+++++-+++++-------++++++--+++--+-+-+-+--+-------------------+--------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
3896hay dustFinlandFINEurope
67770Airborne dust in a cattle barnFinlandFINEuropeSouthern Finland
119270Environment, Indoor dust in a cow shedFinlandFINEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Dust
#Host#Plants#Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_187.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_133;97_144;98_161;99_187&stattab=map
  • Last taxonomy: Microbacteriaceae
  • 16S sequence: Y18807
  • Sequence Identity:
  • Total samples: 14126
  • soil counts: 4109
  • aquatic counts: 1587
  • animal counts: 4245
  • plant counts: 4185

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
38961Risk group (German classification)
183531German classification
1192701Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Frigoribacterium faeni partial 16S rRNA gene, type strain DSM 10309AM4106861467ena145483
3896Frigoribacter sp. 801 16S rRNA gene, partialY188071467ena145483

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Frigoribacterium faeni NBRC 103066GCA_007988805contigncbi145483
66792Frigoribacterium faeni DSM 10309GCA_014137965contigncbi145483
66792Frigoribacterium faeni strain DSM 10309145483.7wgspatric145483
66792Frigoribacterium faeni strain NBRC 103066145483.3wgspatric145483
66792Frigoribacterium faeni DSM 103092820973839draftimg145483

GC content

  • @ref: 3896
  • GC-content: 71.1
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes51.915no
gram-positiveyes93.029no
anaerobicno99.558no
halophileno76.788no
spore-formingno92.715no
glucose-utilyes89.382yes
thermophileno99.58no
aerobicyes93.319no
flagellatedno93.271no
glucose-fermentno87.802yes

External links

@ref: 3896

culture collection no.: DSM 10309, ATCC BAA 3, JCM 11265, KCTC 39911, CIP 107823, IAM 15122, NBRC 103066, VKM Ac-2505

straininfo link

  • @ref: 76775
  • straininfo: 44247

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10826823Frigoribacterium faeni gen. nov., sp. nov., a novel psychrophilic genus of the family Microbacteriaceae.Kampfer P, Rainey FA, Andersson MA, Nurmiaho Lassila EL, Ulrych U, Busse HJ, Weiss N, Mikkola R, Salkinoja-Salonen MInt J Syst Evol Microbiol10.1099/00207713-50-1-3552000Actinomycetales/chemistry/*classification/cytology/physiology, Air Pollutants, Base Composition, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Dust, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny18676471Frigoribacterium mesophilum sp. nov., a mesophilic actinobacterium isolated from Bigeum Island, Korea.Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJInt J Syst Evol Microbiol10.1099/ijs.0.65637-02008Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, TemperatureGenetics
Phylogeny24158943Glaciihabitans tibetensis gen. nov., sp. nov., a psychrotolerant bacterium of the family Microbacteriaceae, isolated from glacier ice water.Li AH, Liu HC, Xin YH, Kim SG, Zhou YGInt J Syst Evol Microbiol10.1099/ijs.0.052670-02013Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Ice Cover/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phosphatidylglycerols/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, Ubiquinone/chemistry, *Water MicrobiologyGenetics
Phylogeny25609679Frigoribacterium endophyticum sp. nov., an endophytic actinobacterium isolated from the root of Anabasis elatior (C. A. Mey.) Schischk.Wang HF, Zhang YG, Chen JY, Guo JW, Li L, Hozzein WN, Zhang YM, Wadaan MAM, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.0000812015Actinomycetales/*classification/genetics/isolation & purification, Amaranthaceae/*microbiology, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3896Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10309)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10309
18353Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM10309.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
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
40723Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5377
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
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
76775Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44247.1StrainInfo: A central database for resolving microbial strain identifiers
119270Curators of the CIPCollection of Institut Pasteur (CIP 107823)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107823