Strain identifier

BacDive ID: 13315

Type strain: Yes

Species: Prauserella rugosa

Strain history: CIP <- 2000, IFO <- ATCC <- M. Lechevalier <- R.E. Gordon <- C. diMarco

NCBI tax ID(s): 43354 (species)

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General

@ref: 10858

BacDive-ID: 13315

DSM-Number: 43194

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic

description: Prauserella rugosa DSM 43194 is an obligate aerobe, spore-forming, mesophilic bacterium that was isolated from cattle rumen.

NCBI tax id

  • NCBI tax id: 43354
  • Matching level: species

strain history

@refhistory
10858<- I. J. Bousfield, NCIB <- C. Di Marco, Farmitalia
67770IFM 0565 <-- IFO 14506 <-- ATCC 43014 <-- M. P. Lechevalier IMRU 3760 <-- R. E. Gordon <-- A. di Marco.
122305CIP <- 2000, IFO <- ATCC <- M. Lechevalier <- R.E. Gordon <- C. diMarco

doi: 10.13145/bacdive13315.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Prauserella
  • species: Prauserella rugosa
  • full scientific name: Prauserella rugosa (Lechevalier et al. 1986 ex di Marco and Spalla 1957) Kim and Goodfellow 1999

  • synonyms

    @refsynonym
    20215Nocardia rugosa
    20215Amycolatopsis rugosa

@ref: 10858

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Prauserella

species: Prauserella rugosa

full scientific name: Prauserella rugosa (Lechevalier et al. 1986) Kim and Goodfellow 1999 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.023
69480100positive
122305nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
10858GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
38628MEDIUM 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)
122305CIP Medium 116yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=116

culture temp

@refgrowthtypetemperaturerange
18482positiveoptimum28mesophilic
10858positivegrowth28mesophilic
38628positivegrowth30mesophilic
67770positivegrowth28mesophilic
122305positivegrowth10-45

Physiology and metabolism

oxygen tolerance

  • @ref: 122305
  • oxygen tolerance: obligate aerobe

spore formation

  • @ref: 69480
  • spore formation: yes
  • confidence: 97.862

compound production

  • @ref: 10858
  • compound: vitamin B12

halophily

  • @ref: 122305
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1848217234glucose+
1848222599arabinose+
1848217992sucrose-
1848218222xylose-
1848217268myo-inositol-
1848229864mannitol+
1848228757fructose+
1848226546rhamnose-
1848216634raffinose-
1848262968cellulose-
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
6836817632nitrate-reduction
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
6836827897tryptophan-energy source
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
12230516947citrate-carbon source
1223054853esculin-hydrolysis
122305606565hippurate-hydrolysis
12230517632nitrate-reduction
12230516301nitrite-reduction
12230517632nitrate-respiration
6837917632nitrate-reduction
683794853esculin-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

@refChebi-IDmetaboliteproduction
67770176843vitamin B12yes
6836817997dinitrogenno
6836816301nitriteno
6836835581indoleno
6836816136hydrogen sulfideno
12230535581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836835581indole-
12230515688acetoin-
12230517234glucose-

enzymes

@refvalueactivityec
68379gelatinase+
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379pyrazinamidase-3.5.1.B15
68368tryptophan deaminase-4.1.99.1
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
122305oxidase-
122305beta-galactosidase-3.2.1.23
122305alcohol dehydrogenase-1.1.1.1
122305gelatinase+/-
122305amylase-
122305DNase-
122305caseinase-3.4.21.50
122305catalase+1.11.1.6
122305tween esterase-
122305gamma-glutamyltransferase-2.3.2.2
122305lecithinase-
122305lipase-
122305lysine decarboxylase-4.1.1.18
122305ornithine decarboxylase-4.1.1.17
122305phenylalanine ammonia-lyase-4.3.1.24
122305protease-
122305tryptophan deaminase-
122305urease+3.5.1.5
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382alpha-galactosidase-3.2.1.22
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYGControl
18482--+++/-+---++--------
10858--+/-+/-------+---------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18482+-+++++--+--+--+---
10858-+/-+/--+/-----------+----
122305+++-+++--++----+----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARANO2N2
18482----+-+---+
10858---------+------------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122305-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122305+-++---------------+++-+--+----+-+---+-++--+--+-++++-+-+----+++----+---+-+-+--+++-------++++---+---

Isolation, sampling and environmental information

isolation

@refsample type
10858cattle rumen
67770Cattle rumen
122305Rumen

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Organ#Rumen

taxonmaps

  • @ref: 69479
  • File name: preview.99_7585.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_3364;97_4129;98_5282;99_7585&stattab=map
  • Last taxonomy: Prauserella rugosa subclade
  • 16S sequence: AF051342
  • Sequence Identity:
  • Total samples: 413
  • soil counts: 50
  • aquatic counts: 18
  • animal counts: 319
  • plant counts: 26

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
108581Risk group (German classification)
184821German classification
1223051Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Amycolatopsis rugosa 16S ribosomal RNA gene, partial sequenceAF0513421519ena43354
20218Prauserella rugosa gene for 16S rRNA, partial sequenceAB2979641482ena43354
20218Prauserella rugosa gene for 16S rRNA, partial sequence, strain: NBRC 14506AB3272591482ena43354

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Prauserella rugosa DSM 43194GCA_007829565contigncbi43354
66792Prauserella rugosa strain DSM 4319443354.5wgspatric43354
66792Prauserella rugosa DSM 431942585427562draftimg43354
67770Prauserella rugosa NRRL B-2295GCA_000719975contigncbi43354

GC content

@refGC-contentmethod
1085868.9
6777067.7thermal denaturation, midpoint method (Tm)
6777070genome sequence analysis
6777068.9thermal denaturation, midpoint method (Tm)
6777067thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes62no
gram-positiveyes88.971no
anaerobicno98.822no
halophileyes75.172no
spore-formingyes66.579no
glucose-utilyes90.083yes
aerobicyes91.261no
flagellatedno97.854no
thermophileno93.587yes
motileno93.541no
glucose-fermentno91.407no

External links

@ref: 10858

culture collection no.: DSM 43194, ATCC 43014, IFO 14506, IMET 7650, IMRU 3760, JCM 3193, KCC A-0193, NBRC 14506, NCIB 8926, NRRL 2295, JCM 9736, BCRC 12523, CBS 614.67, CGMCC 4.1215, CIP 106520, HUT 6557, IMI 71674, KCTC 9299, KCTC 9942, NCIMB 8926, NRRL B-2295, PCM 2309, VKM Ac-1243

straininfo link

  • @ref: 82516
  • straininfo: 46033

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10319471Reclassification of Amycolatopsis rugosa Lechevalier et al. 1986 as Prauserella rugosa gen. nov., comb. nov.Kim SB, Goodfellow MInt J Syst Bacteriol10.1099/00207713-49-2-5071999Actinomycetales/*classification/cytology/*genetics/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/*genetics, Sequence Analysis, DNAGenetics
Enzymology11872725Functional analysis of alkane hydroxylases from gram-negative and gram-positive bacteria.Smits TH, Balada SB, Witholt B, van Beilen JBJ Bacteriol10.1128/JB.184.6.1733-1742.20022002Alkanes, Bacterial Proteins/genetics/metabolism, Cloning, Molecular, Culture Media, Cytochrome P-450 CYP4A, Cytochrome P-450 Enzyme System/biosynthesis/*genetics/metabolism, Genetic Complementation Test, Genetic Vectors, Gram-Negative Bacteria/*enzymology/genetics, Gram-Positive Bacteria/*enzymology/genetics, Mixed Function Oxygenases/biosynthesis/*genetics/metabolism, Molecular Sequence Data, Multigene Family, Mycobacterium tuberculosis/enzymology, Pseudomonas aeruginosa/enzymology, Pseudomonas fluorescens/enzymology/genetics, Rubredoxins/genetics, Sequence Homology, Species SpecificityMetabolism
Phylogeny19651719Prauserella muralis sp. nov., from the indoor environment.Schafer J, Martin K, Kampfer PInt J Syst Evol Microbiol10.1099/ijs.0.012005-02009Actinomycetales/*classification/genetics/physiology, Base Sequence, *Environmental Microbiology, Germany, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic AcidGenetics
Phylogeny19666793Prauserella marina sp. nov., isolated from ocean sediment of the South China Sea.Wang J, Li Y, Bian J, Tang SK, Ren B, Chen M, Li WJ, Zhang LXInt J Syst Evol Microbiol10.1099/ijs.0.013862-02009Actinomycetales/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, China, DNA, Ribosomal/analysis/genetics, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny25013227Prauserella coralliicola sp. nov., isolated from the coral Galaxea fascicularis.Wu JF, Li J, You ZQ, Zhang SInt J Syst Evol Microbiol10.1099/ijs.0.062679-02014Actinomycetales/*classification/genetics/isolation & purification, Animals, Anthozoa/*microbiology, Bacterial Typing Techniques, Base Composition, China, Coral Reefs, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26070693Prauserella soli sp. nov., isolated from crude oil-contaminated soil.Almutairi AInt J Syst Evol Microbiol10.1099/ijs.0.0003782015*Actinomycetales/classification, Base Composition, DNA, Bacterial/genetics, Environmental Pollution, Fatty Acids/chemistry, Molecular Sequence Data, Petroleum, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil MicrobiologyGenetics
Phylogeny31671051Prauserella flavalba sp. nov., a novel species of the genus Prauserella, isolated from alkaline soil.Li Q, Ruckert C, Li G, Huang P, Schneider O, Kalinowski J, Jiang Y, Zotchev SB, Jiang CInt J Syst Evol Microbiol10.1099/ijsem.0.0037682020Actinobacteria/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
10858Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43194)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43194
18482Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43194.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
38628Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18660
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
68371Automatically annotated from API 50CH acid
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
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)
82516Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46033.1StrainInfo: A central database for resolving microbial strain identifiers
122305Curators of the CIPCollection of Institut Pasteur (CIP 106520)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106520