Strain identifier

BacDive ID: 572

Type strain: Yes

Species: Alkalihalobacillus alcalophilus

Strain Designation: 1

Strain history: CIP <- 1990, DSM <- ATCC <- NCTC <- A. Vedder: strain 1

NCBI tax ID(s): 1445 (species)

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General

@ref: 226

BacDive-ID: 572

DSM-Number: 485

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, spore-forming, thermophilic, Gram-positive, motile, rod-shaped

description: Alkalihalobacillus alcalophilus 1 is an obligate aerobe, spore-forming, thermophilic bacterium that was isolated from human faeces.

NCBI tax id

  • NCBI tax id: 1445
  • Matching level: species

strain history

@refhistory
226<- ATCC <- NCTC <- A. Vedder, strain 1
67770DSM 485 <-- ATCC 27647 <-- NCTC 4553 <-- A. Vedder strain 1.
116209CIP <- 1990, DSM <- ATCC <- NCTC <- A. Vedder: strain 1

doi: 10.13145/bacdive572.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Alkalihalobacillus
  • species: Alkalihalobacillus alcalophilus
  • full scientific name: Alkalihalobacillus alcalophilus (Vedder 1934) Patel and Gupta 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus alcalophilus

@ref: 226

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Alkalihalobacillus

species: Alkalihalobacillus alcalophilus

full scientific name: Alkalihalobacillus alcalophilus (Vedder 1934) Patel and Gupta 2020

strain designation: 1

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
23138positiverod-shapedyes
69480yes96.57
69480positive100
116209positiverod-shapedyes

colony morphology

  • @ref: 23138
  • colony size: 2.3 mm
  • colony color: white
  • incubation period: 2 days

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
34261MEDIUM 113 - for BacillusyesDistilled water make up to (900.000 ml);Columbia agar (39.000 g);Solution 1 - M00343 (100.000 ml)
226ALKALINE NUTRIENT AGAR (DSMZ Medium 31)yesName: ALKALINE NUTRIENT AGAR (DSMZ Medium 31) Composition: Agar 15.0 g/l Na2CO3 anhydrous 5.3 g/l Peptone 5.0 g/l NaHCO3 4.2 g/l Meat extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/31
116209CIP Medium 113yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=113

culture temp

@refgrowthtypetemperaturerange
23138positivemaximum46thermophilic
226positivegrowth37mesophilic
34261positivegrowth30mesophilic
67770positivegrowth30mesophilic
116209positivegrowth30mesophilic
116209nogrowth10psychrophilic
116209nogrowth45thermophilic
116209nogrowth55thermophilic

culture pH

  • @ref: 116209
  • ability: no
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

  • @ref: 116209
  • oxygen tolerance: obligate aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
23138terminal to subterminalendosporeyes
69481yes100
69480yes100
116209yes

compound production

  • @ref: 226
  • compound: protease, alkaline

halophily

@refsaltgrowthtested relationconcentration
23138NaClnogrowth>0 %
116209NaClpositivegrowth0-6 %
116209NaClnogrowth8 %
116209NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2313817634D-glucose-builds gas from
2313816899D-mannitol-builds gas from
2313865327D-xylose-builds gas from
2313817754glycerol-builds gas from
2313830849L-arabinose-builds gas from
2313817716lactose-builds gas from
2313817306maltose-builds gas from
2313817814salicin-builds gas from
2313830911sorbitol-builds gas from
2313817992sucrose-builds gas from
2313827897tryptophan+energy source
2313817634D-glucose+fermentation
2313816899D-mannitol+fermentation
2313865327D-xylose+fermentation
2313817754glycerol+fermentation
2313830849L-arabinose+fermentation
2313817716lactose+fermentation
2313817306maltose+fermentation
2313817814salicin+fermentation
2313830911sorbitol+fermentation
2313817992sucrose+fermentation
23138casein+hydrolysis
231385291gelatin+hydrolysis
2313828017starch+hydrolysis
231386872methylene blue+reduction
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
6836830849L-arabinose-fermentation
6836827613amygdalin-fermentation
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol-fermentation
6836817634D-glucose-fermentation
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
11620916947citrate-carbon source
11620917632nitrate-reduction
11620916301nitrite-reduction
11620917632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
2313815688acetoinno
2313835581indoleyes
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11620935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
2313815688acetoin-
2313835581indole+
6836815688acetoin+
6836835581indole-
11620915688acetoin-

enzymes

@refvalueactivityec
23138tryptophan deaminase+4.1.99.1
23138urease+3.5.1.5
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
68368cytochrome oxidase-1.9.3.1
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
116209oxidase+
116209alcohol dehydrogenase-1.1.1.1
116209gelatinase+
116209amylase+
116209DNase+
116209caseinase-3.4.21.50
116209catalase+1.11.1.6
116209lecithinase-
116209lysine decarboxylase-4.1.1.18
116209ornithine decarboxylase-4.1.1.17
116209protease-
116209urease-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
116209-+++--------++-++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
49264+--------++----------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
49264-------------------------+-----------------------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116209+++++-++++++++-++++---+--------+-+++----++-------++--+----+++------+-------+++-++-----+-++-++++-+--

Isolation, sampling and environmental information

isolation

@refsample type
226human faeces
49264Human feces
67770Human feces
116209Human, Faeces

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Gastrointestinal tract#Feces (Stool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_44368.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_880;97_2817;98_32206;99_44368&stattab=map
  • Last taxonomy: Alkalihalobacillus alcalophilus subclade
  • 16S sequence: X76436
  • Sequence Identity:
  • Total samples: 166
  • soil counts: 53
  • aquatic counts: 25
  • animal counts: 80
  • plant counts: 8

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
2261Risk group (German classification)
1162091Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218B.alcalophilus 16S ribosomal RNAX606031430ena1218173
20218B.alcalophilus (DSM 485 T) gene for 16S rRNAX764361505ena1218173
20218Bacillus alcalophilus gene for 16S rRNA, partial sequenceAB006919274ena1218173
20218Bacillus alcalophilus gene for 16S rRNA, partial sequence, strain: NBRC 15653AB3637301476ena1218173

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus alcalophilus ATCC 276471218173.3wgspatric1218173
66792Bacillus alcalophilus ATCC 27647 = CGMCC 1.36041218173.9wgspatric1218173
66792Bacillus alcalophilus ATCC 276472519899572draftimg1218173
67770Alkalihalobacillus alcalophilus ATCC 27647 = CGMCC 1.3604GCA_000292245contigncbi1218173
67770Alkalihalobacillus alcalophilus ATCC 27647 = CGMCC 1.3604GCA_004802515scaffoldncbi1218173

GC content

@refGC-contentmethod
22637.0thermal denaturation, midpoint method (Tm)
22636.7Buoyant density centrifugation (BD)
6777037thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes89.513no
gram-positiveyes87.377no
anaerobicno98.93no
aerobicyes87.4no
halophileyes60.63no
spore-formingyes94.578yes
thermophileno98.603no
glucose-utilyes91.325no
flagellatedyes80.354no
glucose-fermentno91.681no

External links

@ref: 226

culture collection no.: DSM 485, ATCC 27647, JCM 5262, NCIB 10436, NCIB 8772, NCTC 4553, CCUG 28516, NRRL B-14309, BCRC 15419, CECT 1, CGMCC 1.3604, CIP 103410, IAM 12461, IFO 15653, KCTC 1824, KCTC 3884, LMG 17938, LMG 7120, NBRC 15653, NCIMB 10436, NCIMB 8772, NRRL NRS-1548, VTT E-87298

straininfo link

  • @ref: 70249
  • straininfo: 10532

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism1657600The electrochemical proton potential of Bacillus alcalophilus.Hoffmann A, Dimroth PEur J Biochem10.1111/j.1432-1033.1991.tb16304.x1991Adenosine Diphosphate/metabolism, Adenosine Triphosphate/biosynthesis/metabolism, Bacillus/growth & development/metabolism/*physiology, Cytochromes/metabolism, Electrochemistry, Energy Metabolism, Hydrogen-Ion Concentration, *Protons, Sodium/metabolism
Phylogeny2223602Taxonomy of alkaliphilic Bacillus strains.Fritze D, Flossdorf J, Claus DInt J Syst Bacteriol10.1099/00207713-40-1-921990Bacillus/*classification/genetics/metabolism, DNA, Bacterial/genetics, Nucleic Acid Hybridization, Phenotype, Species SpecificityPhenotype
Phylogeny15774682Bacillus bogoriensis sp. nov., a novel alkaliphilic, halotolerant bacterium isolated from a Kenyan soda lake.Vargas VA, Delgado OD, Hatti-Kaul R, Mattiasson BInt J Syst Evol Microbiol10.1099/ijs.0.63318-02005Bacillus/*classification/genetics/growth & development/isolation & purification, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fresh Water/*microbiology, Genes, rRNA, Hydrogen-Ion Concentration, Kenya, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium ChlorideGenetics
Phylogeny27503611Polygonibacillus indicireducens gen. nov., sp. nov., an indigo-reducing and obligate alkaliphile isolated from indigo fermentation liquor for dyeing.Hirota K, Okamoto T, Matsuyama H, Yumoto IInt J Syst Evol Microbiol10.1099/ijsem.0.0014052016Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Coloring Agents, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Fermentation, Indigo Carmine, Japan, Nucleic Acid Hybridization, *Phylogeny, Polygonum/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny28905696Paralkalibacillus indicireducens gen., nov., sp. nov., an indigo-reducing obligate alkaliphile isolated from indigo fermentation liquor used for dyeing.Hirota K, Nishita M, Matsuyama H, Yumoto IInt J Syst Evol Microbiol10.1099/ijsem.0.0022482017Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Coloring Agents, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Fermentation, *Indigo Carmine, Japan, Nucleic Acid Hybridization, *Phylogeny, Polygonum, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35532967Bacillus suaedae sp. nov., isolated from the stem of Suaeda aralocaspica in north-west China.Lei RF, Ma Q, Li YQ, Abudourousuli D, Wang S, Rouzi Z, Aosiman M, An DD, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0053622022*Bacillus, Bacterial Typing Techniques, Base Composition, *Chenopodiaceae/microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
226Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 485)https://www.dsmz.de/collection/catalogue/details/culture/DSM-485
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
23138E. W. BOYER, M. B. INGLE, G. D. MERCER10.1099/00207713-23-3-238Bacillus alcalophilus subsp. halodurans subsp. nov.: An Alkaline-Amylase-Producing, Alkalophilic OrganismIJSEM 23: 238-242 1973
34261Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15205
49264Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 28516)https://www.ccug.se/strain?id=28516
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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)
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
70249Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID10532.1StrainInfo: A central database for resolving microbial strain identifiers
116209Curators of the CIPCollection of Institut Pasteur (CIP 103410)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103410