Strain identifier

BacDive ID: 2278

Type strain: Yes

Species: Marinilactibacillus piezotolerans

Strain Designation: LT20

Strain history: CIP <- 2005, JCM <- 2004, L. Toffin, CNRS, Plouzané, France: strain LT20

NCBI tax ID(s): 258723 (species)

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General

@ref: 6298

BacDive-ID: 2278

DSM-Number: 16108

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

description: Marinilactibacillus piezotolerans LT20 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from marine sediment .

NCBI tax id

  • NCBI tax id: 258723
  • Matching level: species

strain history

@refhistory
6298<- L. Toffin; LT20
67770L. Toffin LT20.
121829CIP <- 2005, JCM <- 2004, L. Toffin, CNRS, Plouzané, France: strain LT20

doi: 10.13145/bacdive2278.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Carnobacteriaceae
  • genus: Marinilactibacillus
  • species: Marinilactibacillus piezotolerans
  • full scientific name: Marinilactibacillus piezotolerans Toffin et al. 2005

@ref: 6298

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Marinilactibacillus

species: Marinilactibacillus piezotolerans

full scientific name: Marinilactibacillus piezotolerans Toffin et al. 2005

strain designation: LT20

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31295positive2.1 µm0.325 µmrod-shapedno
69480positive100
121829positiverod-shapedno

colony morphology

@refincubation periodhemolysis ability
62983-7 days
1218291

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6298BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l Glucose 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
34008Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
121829CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121829CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6298positivegrowth30mesophilic
31295positivegrowth04-50
31295positiveoptimum38.5mesophilic
34008positivegrowth37mesophilic
67770positivegrowth37mesophilic
121829positivegrowth15-37
121829nogrowth5psychrophilic
121829nogrowth41thermophilic

culture pH

@refabilitytypepHPH range
31295positivegrowth5.5-10alkaliphile
31295positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6298facultative anaerobe
31295facultative anaerobe
121829facultative anaerobe

spore formation

@refspore formationconfidence
31295no
69480no99.886

halophily

@refsaltgrowthtested relationconcentration
31295NaClpositivegrowth0-11.91 %
31295NaClpositiveoptimum1.49 %
121829NaClpositivegrowth2-10 %
121829NaClnogrowth0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3129530089acetate+carbon source
3129517057cellobiose+carbon source
3129516236ethanol+carbon source
3129528757fructose+carbon source
3129528260galactose+carbon source
3129517234glucose+carbon source
3129517716lactose+carbon source
3129517306maltose+carbon source
3129529864mannitol+carbon source
3129530911sorbitol+carbon source
3129517992sucrose+carbon source
3129518222xylose+carbon source
68371Potassium 2-ketogluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-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
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
12182916947citrate-carbon source
1218294853esculin+hydrolysis
121829606565hippurate+hydrolysis
12182917632nitrate-builds gas from
12182917632nitrate-reduction
12182916301nitrite-builds gas from
12182916301nitrite-reduction
12182915792malonate-assimilation

metabolite production

  • @ref: 121829
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31295alkaline phosphatase+3.1.3.1
31295catalase+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
121829oxidase-
121829beta-galactosidase+3.2.1.23
121829alcohol dehydrogenase-1.1.1.1
121829gelatinase-
121829amylase-
121829DNase-
121829caseinase-3.4.21.50
121829catalase+1.11.1.6
121829tween esterase-
121829gamma-glutamyltransferase-2.3.2.2
121829lecithinase-
121829lipase-
121829lysine decarboxylase-4.1.1.18
121829ornithine decarboxylase-4.1.1.17
121829phenylalanine ammonia-lyase-4.3.1.24
121829tryptophan deaminase-
121829urease-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
121829--++-+---+-+----+---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121829+/----+/-+/-----+/-+/-+/-----+/-+/---+/-+/-+/-+/-+/-+/-+/---+/-+/-------+/---+/-----+/--+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121829---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationlatitudelongitudecountryorigin.countrycontinent
6298marine sediment (depth 4790m)Pacific Ocean, Pacific Ocean, Ocean Drillin propgram, Nankai trough32.245135.025
67770Deep sub-seafloor sediment core collected at Nankai Trough, off the coast of JapanJapanJPNAsia
121829Environment, Deep sub-seafloor sediment coreNankai TroughJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_1040.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_27;96_597;97_699;98_814;99_1040&stattab=map
  • Last taxonomy: Marinilactibacillus
  • 16S sequence: AY485792
  • Sequence Identity:
  • Total samples: 941
  • soil counts: 153
  • aquatic counts: 248
  • animal counts: 488
  • plant counts: 52

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
62981Risk group (German classification)
1218291Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6298
  • description: Marinilactibacillus piezotolerans 16S ribosomal RNA gene, partial sequence
  • accession: AY485792
  • length: 1332
  • database: ena
  • NCBI tax ID: 258723

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinilactibacillus piezotolerans DSM 16108GCA_900114235scaffoldncbi258723
66792Marinilactibacillus piezotolerans strain DSM 16108258723.5wgspatric258723
66792Marinilactibacillus piezotolerans DSM 161082636415975draftimg258723

GC content

@refGC-contentmethod
3129542
6777042high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno82no
motileyes54.103no
flagellatedno83.067no
gram-positiveyes89.38no
anaerobicno96.343yes
aerobicno92.146yes
halophileyes83.362yes
spore-formingno85.441yes
glucose-fermentyes78.308no
thermophileno97.306yes
glucose-utilyes92.783yes

External links

@ref: 6298

culture collection no.: DSM 16108, JCM 12337, CIP 108666

straininfo link

  • @ref: 71836
  • straininfo: 135120

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653899Marinilactibacillus piezotolerans sp. nov., a novel marine lactic acid bacterium isolated from deep sub-seafloor sediment of the Nankai Trough.Toffin L, Zink K, Kato C, Pignet P, Bidault A, Bienvenu N, Birrien JL, Prieur DInt J Syst Evol Microbiol10.1099/ijs.0.63236-02005Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Gram-Positive Asporogenous Rods/*classification/genetics/isolation & purification/physiology, Hydrostatic Pressure, Japan, Lactic Acid/*metabolism, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny35595934Marinilactibacillus kalidii sp. nov., an Indole Acetic Acid-Producing Endophyte Isolated from a Shoot of Halophyte Kalidium cuspidatum.Huang XX, Xu L, Shang J, Sun JQCurr Microbiol10.1007/s00284-022-02894-62022Bacterial Typing Techniques, *Chenopodiaceae/microbiology, China, DNA, Bacterial/genetics, *Endophytes, Fatty Acids/chemistry, Indoleacetic Acids, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Salt-Tolerant Plants, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6298Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16108)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16108
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
31295Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2761428776041
34008Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6320
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)
71836Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID135120.1StrainInfo: A central database for resolving microbial strain identifiers
121829Curators of the CIPCollection of Institut Pasteur (CIP 108666)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108666