Strain identifier

BacDive ID: 1363

Type strain: Yes

Species: Lentibacillus kapialis

Strain Designation: PN7-6

Strain history: CIP <- 2007, JCM <- 2004, A. Pakdeeto, Chulalongkorn Univ., Bangkok, Thailand: strain PN7-6

NCBI tax ID(s): 340214 (species)

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General

@ref: 7923

BacDive-ID: 1363

DSM-Number: 19124

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

description: Lentibacillus kapialis PN7-6 is an obligate aerobe, spore-forming, Gram-positive bacterium that forms circular colonies and has a red pigmentation.

NCBI tax id

  • NCBI tax id: 340214
  • Matching level: species

strain history

@refhistory
7923<- JCM <- A. Pakdeeto, PN7-6
67770A. Pakdeeto PN7-6.
120390CIP <- 2007, JCM <- 2004, A. Pakdeeto, Chulalongkorn Univ., Bangkok, Thailand: strain PN7-6

doi: 10.13145/bacdive1363.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Lentibacillus
  • species: Lentibacillus kapialis
  • full scientific name: Lentibacillus kapialis Pakdeeto et al. 2007

@ref: 7923

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Lentibacillus

species: Lentibacillus kapialis

full scientific name: Lentibacillus kapialis Pakdeeto et al. 2007

strain designation: PN7-6

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
23000positive0.8-2.5 µm0.2-0.4 µmrod-shapedno
120390positiverod-shapedno

colony morphology

  • @ref: 23000
  • colony size: 0.2-1.3 mm
  • colony shape: circular

pigmentation

  • @ref: 23000
  • production: yes
  • color: red

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7923HALOBACTERIA MEDIUM (DSMZ Medium 372)yeshttps://mediadive.dsmz.de/medium/372Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
42174MEDIUM 204 - for Halorubrum, Marinococcus and NatrialbayesDistilled water make up to (1000.000 ml);Sodium chloride (200.000 g);Potassium chloride (2.000 g);ManganeseII chloride tetrahydrate (0.360 mg);Magnesium sulphate heptahydrate (20.000 g);Agar (20.000 g);Yeast extract (5.000 g);Ferrous chloride tetrahydrate
120390CIP Medium 204yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=204

culture temp

@refgrowthtypetemperature
7923positivegrowth30
23000positivegrowth15.0-45.0
23000positiveoptimum37.0
42174positivegrowth37
67770positivegrowth37

culture pH

@refabilitytypepHPH range
23000positivegrowth5.0-9.0alkaliphile
23000positiveoptimum7.0

Physiology and metabolism

oxygen tolerance

  • @ref: 23000
  • oxygen tolerance: obligate aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
23000spherical,terminal,in swollen sporangiaendosporeyes
69481yes97

halophily

@refsaltgrowthtested relationconcentrationhalophily level
23000NaClpositivegrowth5.0-30.0 %
23000NaCloptimum15.0 %
23000moderately halophilic

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2300027613amygdalin-builds acid from
2300017057cellobiose-builds acid from
2300016551D-trehalose-builds acid from
2300065327D-xylose-builds acid from
230004853esculin-builds acid from
2300024265gluconate-builds acid from
2300015443inulin-builds acid from
2300030849L-arabinose-builds acid from
2300062345L-rhamnose-builds acid from
2300017716lactose-builds acid from
2300017268myo-inositol-builds acid from
2300016634raffinose-builds acid from
2300017814salicin-builds acid from
23000casein-hydrolysis
230004853esculin-hydrolysis
2300017368hypoxanthine-hydrolysis
2300028017starch-hydrolysis
2300053426tween 80-hydrolysis
2300018186tyrosine-hydrolysis
2300015318xanthine-hydrolysis
2300015824D-fructose+builds acid from
2300012936D-galactose+builds acid from
2300017634D-glucose+builds acid from
2300016899D-mannitol+builds acid from
2300016024D-mannose+builds acid from
2300016988D-ribose+builds acid from
2300017754glycerol+builds acid from
2300030911sorbitol+builds acid from
2300017992sucrose+builds acid from
2300029016arginine+hydrolysis
230005291gelatin+hydrolysis
2300017632nitrate+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
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
12039017632nitrate+reduction
12039016301nitrite-reduction

metabolite production

  • @ref: 120390
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
23000catalase+1.11.1.6
23000cytochrome oxidase+1.9.3.1
23000urease+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
120390oxidase+
120390catalase+1.11.1.6
120390urease+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
120390-++--+----++--+--+--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120390---------+/----------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment cultureenrichment culture durationenrichment culture temperature
23000fermented shrimp paste from a marketNakhonsrithammaratThailandTHAAsiaagar plates of JCM medium no.1687 days37.0
7923fermented shrimp pasteThailandTHAAsia
67770Fermented shrimp paste ('ka-pi') produced in Thailand
120390Shrimp paste, fermentedThailandTHAAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Seafood
#Engineered#Food production#Fermented

taxonmaps

  • @ref: 69479
  • File name: preview.99_113409.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3088;97_4217;98_5388;99_113409&stattab=map
  • Last taxonomy: Lentibacillus kapialis
  • 16S sequence: AB231905
  • Sequence Identity:
  • Total samples: 4
  • soil counts: 2
  • aquatic counts: 1
  • animal counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
79231Risk group (German classification)
1203901Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7923
  • description: Lentibacillus kapialis gene for 16S ribosomal RNA, partial sequence
  • accession: AB231905
  • length: 1516
  • database: nuccore
  • NCBI tax ID: 340214

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lentibacillus kapialis JCM 12580GCA_014646635scaffoldncbi340214
66792Lentibacillus kapialis strain JCM 12580340214.3wgspatric340214

GC content

@refGC-contentmethod
792341.6
2300041.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes97no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes83.219no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no95.419no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes77.643yes
69480spore-formingspore-formingAbility to form endo- or exosporesyes72.285no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno89.836yes
69480flagellatedmotile2+Ability to perform flagellated movementno56.806yes

External links

@ref: 7923

culture collection no.: DSM 19124, JCM 12580, PCU 259, TISTR 1551, CIP 109544

straininfo link

  • @ref: 71014
  • straininfo: 297252

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17267980Lentibacillus kapialis sp. nov., from fermented shrimp paste in Thailand.Pakdeeto A, Tanasupawat S, Thawai C, Moonmangmee S, Kudo T, Itoh TInt J Syst Evol Microbiol10.1099/ijs.0.64315-02007Animals, Bacillaceae/*classification/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Decapoda/*microbiology, Diaminopimelic Acid/analysis, Fatty Acids/analysis/chemistry, Fermentation, *Food Microbiology, Genes, rRNA, Molecular Sequence Data, Peptidoglycan/chemistry, Phospholipids/analysis/chemistry, Phylogeny, Pigments, Biological/biosynthesis, Quinones/analysis/chemistry, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNABiotechnology
Phylogeny18676465Lentibacillus salis sp. nov., a moderately halophilic bacterium isolated from a salt lake.Lee JC, Li WJ, Xu LH, Jiang CL, Kim CJInt J Syst Evol Microbiol10.1099/ijs.0.65545-02008Bacillaceae/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fresh Water/*microbiology, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Sodium Chloride, Species SpecificityGenetics
Phylogeny19666788Lentibacillus jeotgali sp. nov., a halophilic bacterium isolated from traditional Korean fermented seafood.Jung MJ, Roh SW, Kim MS, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.013565-02009Animals, Bacillaceae/*classification/genetics/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Fermentation, Genes, rRNA, Genotype, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Pectinidae/*microbiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Sequence Analysis, DNA, *Sodium Chloride, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7923Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19124)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19124
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
23000Amnat Pakdeeto,Somboon Tanasupawat,Chitti Thawai,Somporn Moonmangmee,Takuji Kudo,Takashi Itoh10.1099/ijs.0.64315-0Lentibacillus kapialis sp. nov., from fermented shrimp paste in ThailandIJSEM 57: 364-369 200717267980
42174Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7299
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
71014Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297252.1StrainInfo: A central database for resolving microbial strain identifiers
120390Curators of the CIPCollection of Institut Pasteur (CIP 109544)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109544