Strain identifier

BacDive ID: 642

Type strain: Yes

Species: Niallia circulans

Strain Designation: Ford 26, 26, 726

Strain history: CIP <- 1952, R.E. Gordan, New Jersey Agri. Exper. Stat., New Brunswick, USA: strain 726 <- 1939, ATCC <- W.W. Ford: strain 26

NCBI tax ID(s): 1348626 (strain), 1397 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 2018

BacDive-ID: 642

DSM-Number: 11

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, motile, human pathogen

description: Niallia circulans Ford 26 is an aerobe, spore-forming, mesophilic human pathogen that was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1348626strain
1397species

strain history

@refhistory
2018<- ATCC <- W.W. Ford, 26
67770CCM 2048 <-- R. E. Gordon.
118290CIP <- 1952, R.E. Gordan, New Jersey Agri. Exper. Stat., New Brunswick, USA: strain 726 <- 1939, ATCC <- W.W. Ford: strain 26

doi: 10.13145/bacdive642.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Niallia
  • species: Niallia circulans
  • full scientific name: Niallia circulans (Jordan 1890) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus circulans

@ref: 2018

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Niallia

species: Niallia circulans

full scientific name: Niallia circulans (Jordan 1890) Gupta et al. 2020

strain designation: Ford 26, 26, 726

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.13
69480100positive
118290yespositiverod-shaped

colony morphology

  • @ref: 118290

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
37735MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
2018CASO AGAR (MERCK 105458) (DSMZ Medium 220)yesName: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/220
2018NUTRIENT AGAR (DSMZ Medium 1)yesName: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/1
118290CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
2018positivegrowth30mesophilic
37735positivegrowth30mesophilic
44985positivegrowth30-37mesophilic
67770positivegrowth30mesophilic
118290positivegrowth22-55
118290nogrowth10psychrophilic

culture pH

  • @ref: 118290
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44985aerobe
44985anaerobe
118290facultative anaerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100
118290yes

compound production

  • @ref: 20216
  • compound: Calcite crystals

halophily

@refsaltgrowthtested relationconcentration
118290NaClpositivegrowth0-6 %
118290NaClnogrowth8 %
118290NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose+builds acid from6731
68371inulin+builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol+builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside+builds acid from74863
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
68371glycerol+builds acid from17754
118290citrate-carbon source16947
118290esculin+hydrolysis4853
118290hippurate-hydrolysis606565
118290nitrate-reduction17632
118290nitrite-reduction16301
118290nitrate+respiration17632
68379nitrate-reduction17632
68379esculin+hydrolysis4853
68379urea-hydrolysis16199
68379gelatin-hydrolysis5291
68379D-ribose-fermentation16988
68379D-xylose+fermentation65327
68379D-mannitol+fermentation16899
68379maltose+fermentation17306
68379lactose+fermentation17716
68379sucrose+fermentation17992
68379glycogen+fermentation28087

metabolite production

  • @ref: 118290
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11829015688acetoin-
11829017234glucose+

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
68379catalase+1.11.1.6
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
118290oxidase-
118290beta-galactosidase+3.2.1.23
118290alcohol dehydrogenase-1.1.1.1
118290gelatinase-
118290amylase+
118290DNase+
118290caseinase-3.4.21.50
118290catalase+1.11.1.6
118290tween esterase-
118290gamma-glutamyltransferase-2.3.2.2
118290lecithinase-
118290lysine decarboxylase-4.1.1.18
118290ornithine decarboxylase-4.1.1.17
118290urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlRIBXYLMANMALLACSACGLYGCAT
44985-+-+-++-+----+++++++

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118290-+++-+-+-++-++-++-+-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118290+--+++--+++++-+-+++-++-+++++--+++++-+-++------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118290+++++-++++++++++--+++++--+-----+-+++++---+-------+----+-+--++-------------------+-----+------------

Isolation, sampling and environmental information

isolation

@refsample type
2018soil
44985Soil
67770Soil
118290Environment, Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
2018yes, in single cases1Risk group (German classification)
1182901Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus circulans subsp. circulans clone Bcir-1R 16S ribosomal RNA gene, partial sequence; 16S-23S internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF478111593ena74308
20218Bacillus circulans 16S ribosomal RNA gene, partial sequenceAY0430841496ena1397
20218Bacillus circulans strain ATCC 4513 16S ribosomal RNA gene, partial sequenceAY7246901487ena1397
20218Bacillus circulans strain ATCC 4513 16S ribosomal RNA gene, partial sequenceFJ560956952ena1397
20218Bacillus circulans subsp. circulans strain ATCC 4513 clone XMYP9 16S ribosomal RNA gene, partial sequenceJX0091451291ena74308
20218Bacillus circulans subsp. circulans strain ATCC 4513 clone XMYP10 16S ribosomal RNA gene, partial sequenceJX0091461291ena74308
20218Bacillus circulans strain IAMI12462 DNA for 16S ribosomal RNA, partial sequenceD783121431ena1397
20218Bacillus circulans gene for 16S rRNA, partial sequenceAB006923273ena1397
20218Bacillus circulans gene for 16S rRNA, partial sequenceAB2717471473ena1397
20218B.circulans 16S ribosomal RNAX606131426ena1397

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus circulans NBRC 136261348626.3wgspatric1348626
66792Bacillus circulans strain NCTC26101397.16wgspatric1397
66792Niallia circulans NCTC 26102814123177draftimg1397
66792Bacillus circulans NBRC 136262731957657draftimg1348626
67770Niallia circulans NBRC 13626GCA_001591585contigncbi1348626
67770Niallia circulans NCTC2610GCA_900445325contigncbi1397

GC content

@refGC-contentmethod
201835.5thermal denaturation, midpoint method (Tm)
201835.4Buoyant density centrifugation (BD)
6777035

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes90.512no
gram-positiveyes91.466no
anaerobicno97.296no
halophileno65.204no
spore-formingyes95.987no
thermophileno98.429yes
glucose-utilyes86.869no
aerobicyes67.632no
flagellatedyes88.906no
glucose-fermentno78.234no

External links

@ref: 2018

culture collection no.: DSM 11, ATCC 4513, CCM 2048, JCM 2504, LMG 13261, NCIB 9374, NCTC 2610, CCUG 7416, ATCC 9140, ATCC 24, BCRC 10605, CECT 10, CIP 52.75, HAMBI 1911, IAM 12462, IAM 14175, IFO 13626, KCTC 3347, LMG 6926, NBRC 13626, NCCB 75011, NCFB 1775, NCIMB 9374, NRRL B-378, NRRL B-380, VKM B-1242, VTT E-95570, NCDO 1775, NRRL NRS726

straininfo link

  • @ref: 70317
  • straininfo: 67365

literature

topicPubmed-IDtitleauthorsjournalyearmeshtopic2DOI
Phylogeny6651128[Taxonomy of Bacillus circulans].Pichinoty F, Mandel M, Asselineau JAnn Microbiol (Paris)1983Bacillus/*classification/metabolism, PhenotypePhenotype
Phylogeny10425751Comparative phylogeny of rrs and nifH genes in the Bacillaceae.Achouak W, Normand P, Heulin TInt J Syst Bacteriol1999Acetylene/metabolism, Bacillaceae/*classification/*genetics, Bacillus/classification/genetics, DNA, Bacterial/chemistry/genetics, Gene Amplification, Genes, Bacterial, *Genes, rRNA, Molecular Sequence Data, Nitrogenase/*genetics, Oxidation-Reduction, *Oxidoreductases, Phenotype, *Phylogeny, Plant Roots/microbiology, Sequence Analysis, DNA, Triticum/microbiology, Zea mays/microbiologyGenetics10.1099/00207713-49-3-961
Phylogeny12901420Genetic polymorphism by RAPD-PCR and phenotypic characteristics of isolated thermotolerant Bacillus strains from hot spring sources.Hazem A, Manar ANew Microbiol2003Bacillus/*classification/*genetics/metabolism, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, Hot Temperature, Hydrogen-Ion Concentration, Jordan, Microbial Sensitivity Tests, Phenotype, Phylogeny, Polymorphism, Genetic, Random Amplified Polymorphic DNA Technique, *Water MicrobiologyStress
Enzymology16233010Characterization of bacteriocin N15 produced by Enterococcus faecium N15 and cloning of the related genes.Losteinkit C, Uchiyama K, Ochi S, Takaoka T, Nagahisa K, Shioya SJ Biosci Bioeng200110.1263/jbb.91.390
Phylogeny21575023Isolation of glucosidase and phospholipase positive Bacillus circulans on ALOA medium.Serraino A, Giacometti F, Piva S, Florio D, Pizzamiglio V, Zanoni RGLett Appl Microbiol2011Bacillus/genetics/isolation & purification/*metabolism, Base Sequence, Colony Count, Microbial, Culture Media/*chemistry, Glucosidases/*metabolism, Listeria monocytogenes/growth & development/isolation & purification, Molecular Sequence Data, Phospholipases/*metabolismMetabolism10.1111/j.1472-765X.2011.03084.x
Phylogeny22634699Bacillus gottheilii sp. nov., isolated from a pharmaceutical manufacturing site.Seiler H, Wenning M, Schmidt V, Scherer SInt J Syst Evol Microbiol2012Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Drug Industry, *Environment, Controlled, Fatty Acids/analysis, Germany, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics10.1099/ijs.0.036277-0
Phylogeny27265352Bacillus oryzisoli sp. nov., isolated from rice rhizosphere.Zhang XX, Gao JS, Zhang L, Zhang CW, Ma XT, Zhang JInt J Syst Evol Microbiol2016Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oryza/*microbiology, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome10.1099/ijsem.0.001215
Phylogeny31613744Bacillus taxi sp. nov., a novel endophytic bacterium isolated from root of Taxus chinensis (Pilger) Rehd.Tuo L, Liu F, Yan XR, Liu YInt J Syst Evol Microbiol2020Bacillus/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Endophytes/classification/isolation & purification, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taxus/*microbiology, Vitamin K 2/analogs & derivatives/chemistryEnzymology10.1099/ijsem.0.003776
Phylogeny34997867Paenibacillus albicereus sp. nov. and Niallia alba sp. nov., isolated from digestive syrup.Thorat V, Kirdat K, Tiwarekar B, Dhanavade P, Karodi P, Shouche Y, Sathe S, Lodha T, Yadav AArch Microbiol2022Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, *Paenibacillus/genetics, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2Transcriptome10.1007/s00203-021-02749-x

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2018Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11
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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
37735Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/13378
44985Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 7416)https://www.ccug.se/strain?id=7416
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/
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
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
70317Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID67365.1StrainInfo: A central database for resolving microbial strain identifiers
118290Curators of the CIPCollection of Institut Pasteur (CIP 52.75)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2052.75