Strain identifier

BacDive ID: 140408

Type strain: Yes

Species: Metabacillus iocasae

Strain Designation: S36

Strain history: <- H. Wang; Chinese Academy of Sciences, Qingdao, P.R. CHINA; S36

NCBI tax ID(s): 2291674 (species)

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General

@ref: 43015

BacDive-ID: 140408

DSM-Number: 104297

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

description: Metabacillus iocasae S36 is an aerobe, spore-forming, Gram-positive bacterium that forms circular colonies and was isolated from deep-sea sediment from a hydrothermal field.

NCBI tax id

  • NCBI tax id: 2291674
  • Matching level: species

strain history

  • @ref: 43015
  • history: <- H. Wang; Chinese Academy of Sciences, Qingdao, P.R. CHINA; S36

doi: 10.13145/bacdive140408.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Metabacillus
  • species: Metabacillus iocasae
  • full scientific name: Metabacillus iocasae (Wang et al. 2017) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus iocasae

@ref: 43015

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Metabacillus

species: Metabacillus iocasae

full scientific name: Metabacillus iocasae (Wang et al. 2017) Gupta et al. 2020

strain designation: S36

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
43901positive2.9-4.5 µm0.7-1.0 µmrod-shapedyesperitrichous
69480yes93.331
69480positive100

colony morphology

  • @ref: 43901
  • colony size: 1-3 mm
  • colony color: beige
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine agar 2216E

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43901Marine agar 2216Eyes
43015BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) 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 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

culture temp

@refgrowthtypetemperaturerange
43901positivegrowth16-50
43901positiveoptimum28mesophilic
43015positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43901positivegrowth6.0-10.0alkaliphile
43901positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 43901
  • oxygen tolerance: aerobe

spore formation

@refspore descriptiontype of sporespore formationconfidence
43901oval to round, centrally located in unswollen sporangiaendosporeyes
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
43901NaClpositivegrowth0-11 %(w/v)
43901NaClpositiveoptimum7 %(w/v)

observation

  • @ref: 43901
  • observation: quinone MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4390122599arabinose-assimilation
4390129864mannitol-assimilation
4390137684mannose-assimilation
4390153258sodium citrate-assimilation
4390118305arbutin-builds acid from
4390115963ribitol-builds acid from
4390117108D-arabinose-builds acid from
4390118333D-arabitol-builds acid from
4390128847D-fucose-builds acid from
4390112936D-galactose-builds acid from
4390162318D-lyxose-builds acid from
4390116899D-mannitol-builds acid from
4390116024D-mannose-builds acid from
4390117924D-sorbitol-builds acid from
4390116443D-tagatose-builds acid from
4390165327D-xylose-builds acid from
4390116813galactitol-builds acid from
4390117113erythritol-builds acid from
4390117268myo-inositol-builds acid from
4390115443inulin-builds acid from
4390130849L-arabinose-builds acid from
4390118403L-arabitol-builds acid from
4390118287L-fucose-builds acid from
4390162345L-rhamnose-builds acid from
4390117266L-sorbose-builds acid from
4390165328L-xylose-builds acid from
4390117716lactose-builds acid from
4390137684mannose-builds acid from
4390128053melibiose-builds acid from
4390117814salicin-builds acid from
4390117151xylitol-builds acid from
4390117234glucose-fermentation
4390117632nitrate-reduction
4390117234glucose+assimilation
4390117306maltose+assimilation
43901506227N-acetylglucosamine+assimilation
4390117057cellobiose+builds acid from
4390115824D-fructose+builds acid from
4390117634D-glucose+builds acid from
43901esculin ferric citrate+builds acid from
4390128087glycogen+builds acid from
43901maltose hydrate+builds acid from
43901506227N-acetylglucosamine+builds acid from
4390128017starch+builds acid from
4390117992sucrose+builds acid from
4390127082trehalose+builds acid from
43901309162-oxoglutarate+carbon source
43901286442-oxopentanoate+carbon source
43901739183-O-methyl-D-glucose+carbon source
4390130089acetate+carbon source
4390117925alpha-D-glucose+carbon source
439018295beta-hydroxybutyrate+carbon source
4390123456cyclodextrin+carbon source
4390115570D-alanine+carbon source
4390115824D-fructose+carbon source
4390117306maltose+carbon source
43901320061methyl alpha-D-glucopyranoside+carbon source
4390115361pyruvate+carbon source
4390117992sucrose+carbon source
4390117748thymidine+carbon source
4390127082trehalose+carbon source
4390116695uridine 5'-monophosphate+carbon source
439015291gelatin+hydrolysis
4390128017starch+hydrolysis
4390153426tween 80+hydrolysis
4390116988D-ribose+/-builds acid from
439016731melezitose+/-builds acid from
4390116634raffinose+/-builds acid from
4390116024D-mannose+/-carbon source
4390118183L-pyroglutamic acid+/-carbon source
4390117115L-serine+/-carbon source
4390175144lactamide+/-carbon source
4390173784glycyl-l-glutamate+/-carbon source
4390116704uridine+/-carbon source

metabolite production

  • @ref: 43901
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43901urease-3.5.1.5
43901esterase (C 4)+
43901esterase Lipase (C 8)+
43901leucine arylamidase+3.4.11.1
43901cystine arylamidase+3.4.11.3
43901chymotrypsin+3.4.4.5
43901naphthol-AS-BI-phosphohydrolase+
43901beta-galactosidase+3.2.1.23
43901alpha-glucosidase+3.2.1.20
43901alkaline phosphatase-3.1.3.1
43901lipase (C 14)-
43901valine arylamidase-
43901trypsin-3.4.21.4
43901acid phosphatase-3.1.3.2
43901alpha-galactosidase-3.2.1.22
43901beta-glucuronidase-3.2.1.31
43901beta-glucosidase-3.2.1.21
43901N-acetyl-beta-glucosaminidase-3.2.1.52
43901alpha-mannosidase-3.2.1.24
43901alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43901C15:0 anteiso17
    43901C17:0 anteiso4.6
    43901C17:1 anteiso A0.4
    43901C14:02.4
    43901C16:03.7
    43901C16:0 N-alcohol1.8
    43901C16:1ω11c5.1
    43901C16:1ω7c / C16:1ω6c2
    43901C16:1ω7c alcohol5.5
    43901C17:00.4
    43901C17:1 I / anteiso-C17:1 B4.7
    43901C18:1ω9c0.8
    43901C14:0 iso5.7
    43901C15:0 iso31.9
    43901C16:0 iso6
    43901C17:0 iso3.2
    43901C17:1 iso ω10c2.5
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine broth 2216E
  • agar/liquid: liquid
  • incubation temperature: 28
  • incubation time: 3
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment culture
43015deep-sea sediment from a hydrothermal fieldManus Basin, Pacmanus hydrothermal field (151° 40' 37.970'' E 3° 44' 03.222'' S)Papua New GuineaPNGAustralia and Oceania-4.6283151.677
43901marine sediment sample collected in Pacmanus hydrothermal field, Manus Basin, Papua New Guinea, at a depth of 1851 mPacmanus hydrothermal field, Manus BasinPapua New GuineaPNGAustralia and Oceania-3.73423151.677Marine agar 2216E

isolation source categories

Cat1Cat2Cat3
#Condition#Thermophilic (>45°C)
#Environmental#Aquatic#Hydrothermal vent
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Safety information

risk assessment

  • @ref: 43015
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 43015
  • description: Bacillus iocasae 16S ribosomal RNA gene, partial sequence
  • accession: KY462210
  • length: 1510
  • database: ena
  • NCBI tax ID: 2291674

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Metabacillus iocasae DSM 104297GCA_016909075contigncbi2291674
66792Bacillus iocasae strain DSM 1042972291674.3wgspatric2291674
66792Bacillus iocasae DSM 1042972901267961draftimg2291674

GC content

@refGC-contentmethod
4390143high performance liquid chromatography (HPLC)
4301543.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes89.026yes
gram-positiveyes90.324no
anaerobicno97.135yes
aerobicyes88.875yes
halophileyes58.588no
spore-formingyes96.892yes
glucose-utilyes87.62no
flagellatedyes83.987yes
thermophileno94.535no
glucose-fermentno90.647yes

External links

@ref: 43015

culture collection no.: DSM 104297, CGMCC 1.16030, KCTC 33864

straininfo link

  • @ref: 96684
  • straininfo: 405018

literature

  • topic: Phylogeny
  • Pubmed-ID: 28866991
  • title: Bacillus iocasae sp. nov., isolated from Pacmanus hydrothermal field, Manus Basin.
  • authors: Wang HL, Zhang J, Sun L
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002164
  • year: 2017
  • mesh: Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Pacific Ocean, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
43015Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-104297Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104297)
43901Hai-liang Wang, Jian Zhang, Li SunBacillus iocasae sp. nov., isolated from Pacmanus hydrothermal field, Manus Basin10.1099/ijsem.0.002164IJSEM 67: 3547-3552 201728866991
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
96684Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID405018.1