Strain identifier

BacDive ID: 1256

Type strain: Yes

Species: Gottfriedia luciferensis

Strain Designation: B1761

Strain history: CIP <- 2001, N. Logan, Glascow, UK: strain B1761

NCBI tax ID(s): 178774 (species)

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General

@ref: 7738

BacDive-ID: 1256

DSM-Number: 18845

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

description: Gottfriedia luciferensis B1761 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms irregular colonies and was isolated from geothermal soil taken from an active fumarole.

NCBI tax id

  • NCBI tax id: 178774
  • Matching level: species

strain history

@refhistory
7738<- CIP <- N. A. Logan; B1761
406242001, N. Logan, Glascow, UK: strain B1761
67770CIP 107105 <-- N. Logan B1761.
120662CIP <- 2001, N. Logan, Glascow, UK: strain B1761

doi: 10.13145/bacdive1256.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Gottfriedia
  • species: Gottfriedia luciferensis
  • full scientific name: Gottfriedia luciferensis (Logan et al. 2002) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus luciferensis

@ref: 7738

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Gottfriedia

species: Gottfriedia luciferensis

full scientific name: Gottfriedia luciferensis (Logan et al. 2002) Gupta et al. 2020

strain designation: B1761

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23319variable3-6 µm0.4-0.8 µmrod-shapedyes
69480yes97.987
69480positive100
120662positiverod-shapedno

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
233191-5 mmcreamy grey, translucentirregular1 dayTSA
120662

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7738CASO 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
23319Trypticase Soy Agar (TSA)yes
40624MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120662CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7738positivegrowth30mesophilic
23319positivemaximum35-45
23319positiveminimum15-20psychrophilic
23319positiveoptimum30mesophilic
40624positivegrowth30mesophilic
67770positivegrowth30mesophilic
120662positivegrowth22-37
120662nogrowth10psychrophilic
120662nogrowth45thermophilic
120662nogrowth55thermophilic

culture pH

@refabilitytypepHPH range
23319positiveminimum5.5-6.0
23319positiveoptimum7.0
23319positivemaximum8.0-8.5alkaliphile
120662positivegrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23319facultative anaerobe
120662facultative anaerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
23319ellipsoidal, subterminally and occasionally terminally, slightly swollen sporangiaendosporeyes
69481yes100
69480yes99.999
120662yes

halophily

@refsaltgrowthtested relationconcentration
120662NaClpositivegrowth0-2 %
120662NaClnogrowth4 %
120662NaClnogrowth6 %
120662NaClnogrowth8 %
120662NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2331916947citrate-assimilation
23319168082-dehydro-D-gluconate-builds acid from
23319174265-dehydro-D-gluconate-builds acid from
2331915963ribitol-builds acid from
2331917108D-arabinose-builds acid from
2331918333D-arabitol-builds acid from
2331928847D-fucose-builds acid from
2331962318D-lyxose-builds acid from
2331916899D-mannitol-builds acid from
2331916024D-mannose-builds acid from
2331928053melibiose-builds acid from
2331916634raffinose-builds acid from
2331916443D-tagatose-builds acid from
2331965327D-xylose-builds acid from
2331916813galactitol-builds acid from
2331917113erythritol-builds acid from
2331928260galactose-builds acid from
2331924265gluconate-builds acid from
2331917754glycerol-builds acid from
2331928087glycogen-builds acid from
2331915443inulin-builds acid from
2331930849L-arabinose-builds acid from
2331918403L-arabitol-builds acid from
2331918287L-fucose-builds acid from
2331917266L-sorbose-builds acid from
2331965328L-xylose-builds acid from
2331917716lactose-builds acid from
2331917268myo-inositol-builds acid from
23319320061methyl alpha-D-glucopyranoside-builds acid from
2331943943methyl alpha-D-mannoside-builds acid from
2331926546rhamnose-builds acid from
2331933942ribose-builds acid from
2331930911sorbitol-builds acid from
2331917151xylitol-builds acid from
23319O-nitrophenyl-beta-D-galactopyranosid-hydrolysis
2331917632nitrate-reduction
2331927613amygdalin+builds acid from
2331918305arbutin+builds acid from
2331917057cellobiose+builds acid from
2331915824D-fructose+builds acid from
2331917634D-glucose+builds acid from
233196731melezitose+builds acid from
2331916551D-trehalose+builds acid from
2331932528turanose+builds acid from
2331928066gentiobiose+builds acid from
2331917306maltose+builds acid from
23319506227N-acetylglucosamine+builds acid from
2331917814salicin+builds acid from
2331917992sucrose+builds acid from
23319casein+hydrolysis
233194853esculin+hydrolysis
233195291gelatin+hydrolysis
2331928017starch+/-builds acid from
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
12066216947citrate-carbon source
1206624853esculin+hydrolysis
12066217632nitrate-reduction
12066216301nitrite-reduction
12066217632nitrate-respiration

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
2331937943colistinyesyes100 µg
2331927902tetracyclineyesyes100 µg
2331928971ampicillinyesyes25 µg
2331917076streptomycinyesyes25 µg
233196104kanamycinyesyes30 µg
23319100147nalidixic acidyesyes30 µg
2331917698chloramphenicolyesyes50 µg
2331971415nitrofurantoinyesyes50 µg

metabolite production

@refChebi-IDmetaboliteproduction
2331935581indoleno
2331916136hydrogen sulfideno
2331915688acetoinyes
12066235581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
2331915688acetoin+
12066215688acetoin+

enzymes

@refvalueactivityec
23319arginine dihydrolase-3.5.3.6
23319catalase+/-1.11.1.6
23319lysine decarboxylase-4.1.1.18
23319ornithine decarboxylase-4.1.1.17
23319tryptophan deaminase-4.1.99.1
23319urease-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
120662oxidase+
120662beta-galactosidase-3.2.1.23
120662alcohol dehydrogenase-1.1.1.1
120662gelatinase+/-
120662amylase-
120662DNase-
120662caseinase-3.4.21.50
120662catalase+1.11.1.6
120662tween esterase-
120662lecithinase+
120662lipase-
120662lysine decarboxylase-4.1.1.18
120662ornithine decarboxylase-4.1.1.17
120662tryptophan deaminase-
120662urease-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
120662-+++-+-+-+++---+++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120662+---------++---------+++++++--++-+----++------+--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120662++++-----++-------+------------+----------------++---------++-+--+---+-----+-------------++--+++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeisolation date
23319geothermal soil taken from an active fumaroleLucifer Hill, Candlemans IslandAntarcticaATAAustralia and Oceania-57.0667-26.7
7738geothermal soilCandlemas Island, Sub AnarticAntarcticaATAAustralia and Oceania
67770Volcanic soil on Candlemas IslandSouth Sandwich archipelagoBritish Oversea TerritoriesGBR
120662Environment, Geothermal soilCandlemas IslandUnited KingdomGBREurope1998

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7004.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3285;97_4030;98_5144;99_7004&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: AJ419629
  • Sequence Identity:
  • Total samples: 5068
  • soil counts: 3503
  • aquatic counts: 505
  • animal counts: 669
  • plant counts: 391

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
77381Risk group (German classification)
1206621Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7738
  • description: Bacillus luciferensis partial 16S rRNA gene, strain LMG 18422
  • accession: AJ419629
  • length: 1502
  • database: ena
  • NCBI tax ID: 178774

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bacillus luciferensis strain DSM 18845178774.9wgspatric178774
66792Gottfriedia luciferensis DSM 188452916864039draftimg178774
67770Gottfriedia luciferensis DSM 18845GCA_002156865contigncbi178774

GC content

  • @ref: 7738
  • GC-content: 33

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes86.514yes
gram-positiveyes76.682yes
anaerobicno98.258no
aerobicyes64.534yes
halophileno90.619no
spore-formingyes94.833yes
thermophileno98.961yes
glucose-utilyes85.613no
flagellatedyes70.087no
glucose-fermentno92.153no

External links

@ref: 7738

culture collection no.: DSM 18845, CIP 107105, JCM 12212, KCTC 3846, LMG 18422

straininfo link

  • @ref: 70912
  • straininfo: 12011

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12508857Bacillus luciferensis sp. nov., from volcanic soil on Candlemas Island, South Sandwich archipelago.Logan NA, Lebbe L, Verhelst A, Goris J, Forsyth G, Rodriguez-Diaz M, Heyndrickx M, De Vos PInt J Syst Evol Microbiol10.1099/00207713-52-6-19852002Antarctic Regions, Atlantic Islands, Bacillus/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Soil Microbiology, Volcanic EruptionsGenetics
Phylogeny17766868Bacillus acidiceler sp. nov., isolated from a forensic specimen, containing Bacillus anthracis pX02 genes.Peak KK, Duncan KE, Veguilla W, Luna VA, King DS, Heller L, Heberlein-Larson L, Reeves F, Cannons AC, Amuso P, Cattani JInt J Syst Evol Microbiol10.1099/ijs.0.64993-02007Bacillus/*classification/genetics/*isolation & purification/physiology, Bacillus anthracis/*genetics, Bacterial Typing Techniques, Carbohydrate Metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Florida, Genes, rRNA, Gram-Positive Bacterial Infections/*microbiology, Hydrogen-Ion Concentration, Locomotion/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Spores, Bacterial/cytologyGenetics
Phylogeny28920837Bacillus solisilvae sp. nov., isolated from forest soil.Pan T, He H, Wang X, Shen Y, Zhao J, Yan K, Wang X, Liu C, Zhang J, Xiang WInt J Syst Evol Microbiol10.1099/ijsem.0.0023122017Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35604629Gottfriedia endophyticus sp. nov., a novel indole-acetic acid producing bacterium isolated from the roots of rice plant.Chhetri G, Kim I, Seo TAntonie Van Leeuwenhoek10.1007/s10482-022-01748-22022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7738Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18845)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18845
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
23319Niall A Logan, Liesbeth Lebbe, An Verhelst, Johan Goris, Gillian Forsyth, Marina Rodriguez-Diaz, Marc Heyndrickx, Paul De Vos10.1099/00207713-52-6-1985Bacillus luciferensis sp. nov., from volcanic soil on Candlemas Island, South Sandwich archipelago.IJSEM 52: 1985-1989 200212508857
40624Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19308
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
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
70912Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12011.1StrainInfo: A central database for resolving microbial strain identifiers
120662Curators of the CIPCollection of Institut Pasteur (CIP 107105)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107105