Strain identifier

BacDive ID: 1219

Type strain: Yes

Species: Siminovitchia fortis

Strain Designation: R-6514

Strain history: CIP <- 2005, DSMZ <- P. Scheldeman, Flemish Com. Ministry, Belgium: strain R-6514

NCBI tax ID(s): 254758 (species)

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General

@ref: 6150

BacDive-ID: 1219

DSM-Number: 16012

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Siminovitchia fortis R-6514 is an obligate aerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from milking apparatus, cluster.

NCBI tax id

  • NCBI tax id: 254758
  • Matching level: species

strain history

@refhistory
6150<- P. Scheldeman; R-6514
119434CIP <- 2005, DSMZ <- P. Scheldeman, Flemish Com. Ministry, Belgium: strain R-6514

doi: 10.13145/bacdive1219.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Siminovitchia
  • species: Siminovitchia fortis
  • full scientific name: Siminovitchia fortis (Scheldeman et al. 2004) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus fortis

@ref: 6150

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Siminovitchia

species: Siminovitchia fortis

full scientific name: Siminovitchia fortis (Scheldeman et al. 2004) Gupta et al. 2020

strain designation: R-6514

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
23313negative0.6-08 µm1.0-3.5 µmrod-shapedyes
119434positiverod-shapedyes

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
233131 mmcreamcircular3 daysNutrient agar
119434

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6150CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: 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 water
23313Nutrient agar (NA)yes
39789MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119434CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6150positivegrowth30mesophilic
23313positivegrowth30-45
23313inconsistentgrowth20psychrophilic
39789positivegrowth30mesophilic
119434positivegrowth22-55
119434nogrowth10psychrophilic

culture pH

@refabilitytypepH
23313nogrowth9
23313nogrowth5
119434positivegrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23313obligate aerobe
119434obligate aerobe

spore formation

@refspore descriptiontype of sporespore formation
23312oval, centrally or paracentrally, slightly swollen sporangiaendosporeyes
119434yes

halophily

@refsaltgrowthtested relationconcentration
23313NaClpositivegrowth7 %
119434NaClpositivegrowth0-10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23313168082-dehydro-D-gluconate-builds acid from
23313174265-dehydro-D-gluconate-builds acid from
2331327613amygdalin-builds acid from
2331318305arbutin-builds acid from
2331315963ribitol-builds acid from
2331317108D-arabinose-builds acid from
2331318333D-arabitol-builds acid from
2331317057cellobiose-builds acid from
2331315824D-fructose-builds acid from
2331328847D-fucose-builds acid from
2331312936D-galactose-builds acid from
2331317634D-glucose-builds acid from
2331317716lactose-builds acid from
2331362318D-lyxose-builds acid from
2331317306maltose-builds acid from
2331316899D-mannitol-builds acid from
2331316024D-mannose-builds acid from
233136731melezitose-builds acid from
2331328053melibiose-builds acid from
2331316634raffinose-builds acid from
2331316988D-ribose-builds acid from
2331317992sucrose-builds acid from
2331317924D-sorbitol-builds acid from
2331316443D-tagatose-builds acid from
2331316551D-trehalose-builds acid from
2331332528turanose-builds acid from
2331365327D-xylose-builds acid from
2331316813galactitol-builds acid from
2331317113erythritol-builds acid from
2331328066gentiobiose-builds acid from
2331324265gluconate-builds acid from
2331317754glycerol-builds acid from
2331328087glycogen-builds acid from
2331317268myo-inositol-builds acid from
2331315443inulin-builds acid from
2331330849L-arabinose-builds acid from
2331318403L-arabitol-builds acid from
2331318287L-fucose-builds acid from
2331362345L-rhamnose-builds acid from
2331317266L-sorbose-builds acid from
2331365328L-xylose-builds acid from
23313320061methyl alpha-D-glucopyranoside-builds acid from
2331343943methyl alpha-D-mannoside-builds acid from
2331374863methyl beta-D-xylopyranoside-builds acid from
23313506227N-acetylglucosamine-builds acid from
2331317814salicin-builds acid from
2331328017starch-builds acid from
2331317151xylitol-builds acid from
2331317521(-)-quinic acid-carbon source
23313510573-phenylpropionate-carbon source
23313178794-hydroxybenzoate-carbon source
2331315963ribitol-carbon source
2331336219alpha-lactose-carbon source
2331316150benzoate-carbon source
2331317750betaine-carbon source
2331327689decanoate-carbon source
2331325646octanoate-carbon source
2331316383cis-aconitate-carbon source
2331323399coumarate-carbon source
2331315570D-alanine-carbon source
2331318333D-arabitol-carbon source
2331317057cellobiose-carbon source
2331315824D-fructose-carbon source
2331312936D-galactose-carbon source
2331318024D-galacturonic acid-carbon source
2331330612D-glucarate-carbon source
2331362318D-lyxose-carbon source
2331316899D-mannitol-carbon source
2331316024D-mannose-carbon source
233136731melezitose-carbon source
2331316634raffinose-carbon source
2331317924D-sorbitol-carbon source
2331316443D-tagatose-carbon source
2331330927D-tartrate-carbon source
2331316551D-trehalose-carbon source
2331332528turanose-carbon source
2331365327D-xylose-carbon source
23313370543-hydroxybutyrate-carbon source
2331316813galactitol-carbon source
2331329806fumarate-carbon source
2331316537galactarate-carbon source
2331328066gentiobiose-carbon source
2331358044gentisate-carbon source
2331317754glycerol-carbon source
2331317240itaconate-carbon source
2331330849L-arabinose-carbon source
2331318403L-arabitol-carbon source
2331329991L-aspartate-carbon source
2331318287L-fucose-carbon source
2331362345L-rhamnose-carbon source
2331317115L-serine-carbon source
233136359lactulose-carbon source
2331368428maltitol-carbon source
2331317306maltose-carbon source
2331361993maltotriose-carbon source
2331330928meso-tartrate-carbon source
2331355507methyl alpha-D-galactoside-carbon source
23313320061methyl alpha-D-glucopyranoside-carbon source
2331317540methyl beta-D-galactoside-carbon source
23313320055methyl beta-D-glucopyranoside-carbon source
2331317268myo-inositol-carbon source
23313506227N-acetylglucosamine-carbon source
2331318394palatinose-carbon source
2331317272propionate-carbon source
2331330031succinate-carbon source
2331317992sucrose-carbon source
2331315708trans-aconitate-carbon source
2331362517tricarballylate-carbon source
2331318123trigonelline-carbon source
2331316765tryptamine-carbon source
2331317151xylitol-carbon source
23313casein-hydrolysis
233134853esculin-hydrolysis
2331328017starch-hydrolysis
23313168082-dehydro-D-gluconate+carbon source
23313309162-oxoglutarate+carbon source
23313158875-aminovaleric acid+carbon source
23313174265-dehydro-D-gluconate+carbon source
2331316947citrate+carbon source
233138391D-gluconate+carbon source
2331317315D-glucosamine+carbon source
2331317634D-glucose+carbon source
2331315748D-glucuronate+carbon source
2331315588D-malate+carbon source
2331328053melibiose+carbon source
2331316988D-ribose+carbon source
2331333871glycerate+carbon source
2331324996lactate+carbon source
2331317113erythritol+carbon source
233134853esculin+carbon source
2331316000ethanolamine+carbon source
2331317859glutaric acid+carbon source
2331318295histamine+carbon source
2331315971L-histidine+carbon source
2331315589L-malate+carbon source
2331317266L-sorbose+carbon source
2331330924L-tartrate+carbon source
2331316828L-tryptophan+carbon source
2331317895L-tyrosine+carbon source
2331315792malonate+carbon source
2331318401phenylacetate+carbon source
2331336241protocatechuate+carbon source
2331317148putrescine+carbon source
2331316865gamma-aminobutyric acid+/-carbon source
2331316977L-alanine+/-carbon source
2331329985L-glutamate+/-carbon source
2331317203L-proline+/-carbon source
2331325115malate+/-carbon source
11943416947citrate-carbon source
1194344853esculin-hydrolysis
119434606565hippurate+hydrolysis
11943417632nitrate-reduction
11943416301nitrite-reduction
11943417632nitrate-respiration

metabolite production

  • @ref: 119434
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11943415688acetoin-
11943417234glucose-

enzymes

@refvalueactivityec
23313catalase+1.11.1.6
23313cytochrome oxidase+1.9.3.1
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
119434oxidase+
119434beta-galactosidase-3.2.1.23
119434alcohol dehydrogenase-1.1.1.1
119434gelatinase+/-
119434amylase-
119434DNase+
119434caseinase-3.4.21.50
119434catalase+1.11.1.6
119434tween esterase+
119434gamma-glutamyltransferase+2.3.2.2
119434lecithinase-
119434lipase-
119434lysine decarboxylase-4.1.1.18
119434ornithine decarboxylase-4.1.1.17
119434phenylalanine ammonia-lyase+4.3.1.24
119434protease-
119434tryptophan deaminase-
119434urease-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
119434-+++-+---+++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119434------------------++------------------+---------++--------++++----------++----++++-+++---+++-----++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6150milking apparatus, clusterLovendegemBelgiumBELEurope
119434Milking apparatus, clusterBelgiumBELEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Industrial
  • Cat3: #Engineered product

taxonmaps

  • @ref: 69479
  • File name: preview.99_58158.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_18045;97_22259;98_29335;99_58158&stattab=map
  • Last taxonomy: Bacillus fortis
  • 16S sequence: AY443038
  • Sequence Identity:
  • Total samples: 80
  • soil counts: 38
  • aquatic counts: 12
  • animal counts: 25
  • plant counts: 5

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
61501Risk group (German classification)
1194341Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6150
  • description: Bacillus fortis strain R-6514 16S ribosomal RNA gene, partial sequence
  • accession: AY443038
  • length: 1541
  • database: ena
  • NCBI tax ID: 254758

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Siminovitchia fortis DSM 16012GCA_003605365contigncbi254758
66792Bacillus fortis strain DSM 16012254758.3wgspatric254758
66792Siminovitchia fortis DSM 160122916908848draftimg254758

GC content

@refGC-contentmethod
615044.3
2331344.3high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes92.113yes
gram-positiveyes72.659yes
anaerobicno98.398no
aerobicyes93.363yes
halophileyes88.097yes
spore-formingyes95.018yes
glucose-utilyes86.796yes
flagellatedyes78.674no
thermophileno94.058yes
glucose-fermentno94.756no

External links

@ref: 6150

culture collection no.: DSM 16012, CIP 108822, LMG 22079

straininfo link

  • @ref: 70875
  • straininfo: 20588

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15280314Bacillus farraginis sp. nov., Bacillus fortis sp. nov. and Bacillus fordii sp. nov., isolated at dairy farms.Scheldeman P, Rodriguez-Diaz M, Goris J, Pil A, De Clerck E, Herman L, De Vos P, Logan NA, Heyndrickx MInt J Syst Evol Microbiol10.1099/ijs.0.63095-02004Aerobiosis, Animal Feed/*microbiology, Animals, Bacillus/*classification/cytology/*isolation & purification/physiology, Bacterial Proteins/analysis/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA Fingerprinting, DNA, Bacterial/analysis/chemistry/isolation & purification, DNA, Ribosomal/chemistry, *Dairying, *Equipment Contamination, Fatty Acids/analysis, Genes, rRNA, Hot Temperature, Milk/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Proteome, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Repetitive Sequences, Nucleic Acid, Sequence Analysis, DNA, Sequence Homology, Spores, Bacterial/cytologyEnzymology
Phylogeny23396719Bacillus composti sp. nov. and Bacillus thermophilus sp. nov., two thermophilic, Fe(III)-reducing bacteria isolated from compost.Yang G, Chen M, Yu Z, Lu Q, Zhou SInt J Syst Evol Microbiol10.1099/ijs.0.049106-02013Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Ferric Compounds/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny27983469Bacillus terrae sp. nov. isolated from Cistus ladanifer rhizosphere soil.Diez-Mendez A, Rivas R, Mateos PF, Martinez-Molina E, Santin PJ, Sanchez-Rodriguez JA, Velazquez EInt J Syst Evol Microbiol10.1099/ijsem.0.0017422017Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cistus/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Spain, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny30747616Bacillus acidinfaciens sp. nov., isolated from farmland soil.Sun L, Chen Y, Tian W, Yao L, Chen Z, Ouyang WInt J Syst Evol Microbiol10.1099/ijsem.0.0032712019Bacillus/*classification/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, *Farms, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6150Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16012)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16012
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
23312Jeroen Heyrman, Bram Vanparys, Niall A. Logan, An Balcaen, Marina Rodríguez-Díaz, Andreas Felske, Paul De Vos10.1099/ijs.0.02723-0Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A grasslandsIJSEM 54: 47-57 200414742458
23313Patsy Scheldeman, Marina Rodríguez-Díaz, Johan Goris, Annelies Pil, Elke De Clerck, Lieve Herman, Paul De Vos, Niall A. Logan, Marc Heyndrickx10.1099/ijs.0.63095-0Bacillus farraginis sp. nov., Bacillus fortis sp. nov. and Bacillus fordii sp. nov., isolated at dairy farmsIJSEM 54: 1355-1364 200415280314
39789Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6493
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)
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
70875Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID20588.1StrainInfo: A central database for resolving microbial strain identifiers
119434Curators of the CIPCollection of Institut Pasteur (CIP 108822)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108822