Strain identifier

BacDive ID: 1201

Type strain: Yes

Species: Bacillus sonorensis

Strain Designation: L87-10, TG8-8

Strain history: CIP <- 2001, L.K. Nakamura, Peoria USA: strain TG8-8

NCBI tax ID(s): 1220591 (strain), 119858 (species)

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General

@ref: 5162

BacDive-ID: 1201

DSM-Number: 13779

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, colony-forming

description: Bacillus sonorensis L87-10 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms irregular colonies and was isolated from desert Soil at Tumamoc Hill in the Sonoran Desert.

NCBI tax id

NCBI tax idMatching level
1220591strain
119858species

strain history

@refhistory
5162<- F. M. Cohen, Wesleyan Univ., USA
67770NRRL B-23154 <-- F. M. Cohan L87-10.
122679CIP <- 2001, L.K. Nakamura, Peoria USA: strain TG8-8

doi: 10.13145/bacdive1201.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Bacillus
  • species: Bacillus sonorensis
  • full scientific name: Bacillus sonorensis Palmisano et al. 2001

@ref: 5162

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Bacillus

species: Bacillus sonorensis

full scientific name: Bacillus sonorensis Palmisano et al. 2001

strain designation: L87-10, TG8-8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
23306positive2-5 µm1.0 µmrod-shapedyes
122679positiverod-shapedyes

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium usedhemolysis ability
233062-4 mmyellowish-creamirregular2 daysTBAB agar
23306bright yellowpH 5.6 agar
23306brownTyrosine agar
23306pale yellowish-creamGlycerol/Glutamate agar
1226791

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5162NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23306Glycerol/Glutamate agaryes
23306pH 5.6 agaryes
23306TBAB agaryes
23306Tyrosine agaryes
37511MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122679CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5162positivegrowth30mesophilic
23306positivemaximum55thermophilic
23306positiveminimum15psychrophilic
37511positivegrowth30mesophilic
67770positivegrowth30mesophilic
122679positivegrowth22-55
122679nogrowth10psychrophilic

culture pH

@refabilitytypepH
23306positivegrowth5.7
122679positivegrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23306facultative anaerobe
122679facultative anaerobe

spore formation

@refspore descriptiontype of sporespore formation
23306unswollen sporangia (1.5-2.0 µm long and 1.0 µm wide), ellipsoidal, subterminalendosporeyes
122679yes

halophily

@refsaltgrowthtested relationconcentration
23306NaClpositivegrowth3 %
23306NaClnogrowth5 %
23306NaClnogrowth7 %
23306NaClnogrowth10 %
122679NaClpositivegrowth0-8 %
122679NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
23306egg yolk-assimilation
23306tyrosine-degradation18186
23306citrate+assimilation16947
23306propionate+assimilation17272
23306arabinose+builds acid from22599
23306glucose+builds acid from17234
23306mannitol+builds acid from29864
23306xylose+builds acid from18222
23306casein+degradation
23306starch+hydrolysis28017
23306nitrate+reduction17632
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
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-mannitol+builds acid from16899
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
122679citrate-carbon source16947
122679esculin+hydrolysis4853
122679hippurate+hydrolysis606565
122679nitrate+reduction17632
122679nitrite-reduction16301
122679nitrate+respiration17632

metabolite production

@refChebi-IDmetaboliteproduction
2330615688acetoinyes
12267935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
2330615688acetoin+
12267915688acetoin+
12267917234glucose-

enzymes

@refvalueactivityec
23306catalase+1.11.1.6
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
122679oxidase-
122679beta-galactosidase+3.2.1.23
122679alcohol dehydrogenase+1.1.1.1
122679gelatinase+/-
122679amylase+
122679DNase+
122679caseinase+3.4.21.50
122679catalase+1.11.1.6
122679tween esterase-
122679gamma-glutamyltransferase+2.3.2.2
122679lecithinase-
122679lipase-
122679lysine decarboxylase-4.1.1.18
122679ornithine decarboxylase-4.1.1.17
122679protease+
122679urease+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
122679-+++------++-+-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122679+--++----++++-+-+/-++/--++++++++--++---++/--++-+-------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122679+++++--+-++++--+++++++++------+++++++----+-++--++++--+-+---++------------+-+--+++-----+--++++++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
23306desert Soil at Tumamoc Hill in the Sonoran DesertArizonaUSAUSANorth America
5162soilTumanoc Hill, Sonora Desert, ArizonaUSAUSANorth America
67770Sonoran Desert soil
122679Environment, SoilSonoran desert, Tucson, ArizonaUnited States of AmericaUSANorth America1987

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Desert
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_138.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_17;97_17;98_122;99_138&stattab=map
  • Last taxonomy: Bacillus licheniformis
  • 16S sequence: AF302118
  • Sequence Identity:
  • Total samples: 2539
  • soil counts: 475
  • aquatic counts: 736
  • animal counts: 1197
  • plant counts: 131

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
51621Risk group (German classification)
1226791Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus sonorensis strain NRRL B-23154 16S ribosomal RNA gene, partial sequenceEU1384731169ena119858
5162Bacillus sonorensis strain NRRL B-23154 16S ribosomal RNA gene, partial sequenceAF3021181410ena119858

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus sonorensis NBRC 101234 = KCTC 139181220591.4wgspatric1220591
66792Bacillus sonorensis NBRC 101234 = KCTC 139181220591.6wgspatric1220591
66792Bacillus sonorensis NBRC 101234, KCTC 139182731957676draftimg1220591
66792Bacillus sonorensis NBRC 101234, KCTC 139182571042128draftimg1220591
67770Bacillus sonorensis NBRC 101234 = KCTC 13918 KCTC 13918(T)GCA_000507125contigncbi1220591
67770Bacillus sonorensis NBRC 101234 = KCTC 13918GCA_001592005contigncbi1220591

GC content

@refGC-contentmethod
2330646.00thermal denaturation, midpoint method (Tm)
6777046thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.885no
gram-positiveyes91.017no
anaerobicno98.823no
aerobicyes80.865yes
halophileyes64.719no
spore-formingyes96.825yes
glucose-utilyes89.479no
flagellatedyes85.221no
thermophileno97.547no
glucose-fermentno87.559no

External links

@ref: 5162

culture collection no.: DSM 13779, NRRL B-23154, JCM 12232, CIP 107271, KCTC 13918, NBRC 101234

straininfo link

  • @ref: 70857
  • straininfo: 49523

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11594594Bacillus sonorensis sp. nov., a close relative of Bacillus licheniformis, isolated from soil in the Sonoran Desert, Arizona.Palmisano MM, Nakamura LK, Duncan KE, Istock CA, Cohan FMInt J Syst Evol Microbiol10.1099/00207713-51-5-16712001Arizona, Bacillus/*classification/genetics/*isolation & purification, Bacterial Proteins/genetics, Base Composition, DNA, Bacterial/analysis/genetics, DNA-Directed RNA Polymerases/genetics, *Desert Climate, Electrophoresis/methods, Enzymes, *Escherichia coli Proteins, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Restriction Mapping, SEC Translocation Channels, Sequence Analysis, DNA, *Soil MicrobiologyEnzymology
Phylogeny23397221A novel EPS-producing strain of Bacillus licheniformis isolated from a shallow vent off Panarea Island (Italy).Spano A, Gugliandolo C, Lentini V, Maugeri TL, Anzelmo G, Poli A, Nicolaus BCurr Microbiol10.1007/s00284-013-0327-42013Animals, Artemia, Bacillus/*classification/genetics/*isolation & purification/metabolism, Cell Survival/drug effects, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Hydrothermal Vents/*microbiology, Islands, Italy, Molecular Sequence Data, Molecular Weight, Nucleic Acid Hybridization, Phylogeny, Polysaccharides, Bacterial/chemistry/isolation & purification/*metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sucrose/metabolismMetabolism
Phylogeny27888465Bacillus piscis sp. nov., a novel bacterium isolated from the muscle of the antarctic fish Dissostichus mawsoni.Lee JB, Jeon SH, Choi SG, Jung HY, Kim MK, Srinivasan SJ Microbiol10.1007/s12275-016-6473-12016Animals, Antarctic Regions, Bacillus/chemistry/*classification/genetics/*isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal, Fatty Acids/chemistry, Hydrogen-Ion Concentration, Muscles/*microbiology, Oceans and Seas, Peptidoglycan/chemistry, Perciformes/anatomy & histology/*microbiology, Phosphatidylglycerols/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNATranscriptome
35567001Probiotic-Mediated Biosynthesis of Silver Nanoparticles and Their Antibacterial Applications against Pathogenic Strains of Escherichia coli O157:H7.Wang X, Lee SY, Akter S, Huq MAPolymers (Basel)10.3390/polym140918342022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5162Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13779)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13779
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
23306M M Palmisano, L K Nakamura, K E Duncan, C A Istock, F M Cohan10.1099/00207713-51-5-1671Bacillus sonorensis sp. nov., a close relative of Bacillus licheniformis, isolated from soil in the Sonoran Desert, Arizona.IJSEM 51: 1671-1679 200111594594
37511Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4688
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/
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
70857Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49523.1StrainInfo: A central database for resolving microbial strain identifiers
122679Curators of the CIPCollection of Institut Pasteur (CIP 107271)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107271