Strain identifier

BacDive ID: 140960

Type strain: Yes

Species: Bacillus paranthracis

Strain Designation: Mn5

Strain history: CIP <- 2017, LMG <- 2015, Y. Liu, Third Inst. Ocean., Fujian Province, Xiamen, China: strain Mn5 <- M. Tian

NCBI tax ID(s): 2026186 (species)

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General

@ref: 43860

BacDive-ID: 140960

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

description: Bacillus paranthracis Mn5 is a facultative anaerobe, spore-forming, Gram-positive bacterium that forms circular colonies and was isolated from sediment of the Pacific Ocean.

NCBI tax id

  • NCBI tax id: 2026186
  • Matching level: species

strain history

@refhistory
67771<- Yang Liu, The Third Institute of State Oceanic Administration(SOA)
121571CIP <- 2017, LMG <- 2015, Y. Liu, Third Inst. Ocean., Fujian Province, Xiamen, China: strain Mn5 <- M. Tian

doi: 10.13145/bacdive140960.20250331.9.3

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 paranthracis
  • full scientific name: Bacillus paranthracis Liu et al. 2017

@ref: 43860

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Bacillaceae

genus: Bacillus

species: Bacillus paranthracis

strain designation: Mn5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
43860positive2.8-3.3 µm1.2-1.4 µmrod-shapedno
67771positive
121571positiverod-shapedno

colony morphology

  • @ref: 43860
  • colony size: 2-3 mm
  • colony color: off-white
  • colony shape: circular
  • incubation period: 2 days
  • medium used: Luria Bertani agar

Culture and growth conditions

culture medium

@refnamegrowthlink
43860LB (Luria-Bertani) MEDIUMyes
43860Trypticase soy agaryes
121571CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
43860positivegrowth15-45
43860positiveoptimum30
67771positivegrowth28

culture pH

@refabilitytypepHPH range
43860positivegrowth5.0-10.0alkaliphile
43860positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
43860facultative anaerobe
67771aerobe
125439anaerobe92.3

spore formation

  • @ref: 43860
  • spore description: central elliptical endospore
  • type of spore: endospore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
43860NaClpositivegrowth0-9 %(w/v)
43860NaClpositiveoptimum1-2 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4386027613amygdalin-builds acid from
4386022599arabinose-builds acid from
4386017234glucose-builds acid from
4386017754glycerol-builds acid from
4386017268myo-inositol-builds acid from
4386029864mannitol-builds acid from
4386028053melibiose-builds acid from
4386026546rhamnose-builds acid from
4386030911sorbitol-builds acid from
4386017992sucrose-builds acid from
4386028017starch-hydrolysis
4386016988D-ribose+builds acid from
4386016947citrate+carbon source
43860casein+hydrolysis
43860skimmed milk+hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
4386016136hydrogen sulfideno
4386035581indoleno
4386015688acetoinyes

metabolite tests

  • @ref: 43860
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
43860catalase+1.11.1.6
43860cytochrome oxidase+1.9.3.1
43860arginine dihydrolase+3.5.3.6
43860gelatinase+
43860beta-galactosidase-3.2.1.23
43860lysine decarboxylase-4.1.1.18
43860ornithine decarboxylase-4.1.1.17
43860urease-3.5.1.5
43860tryptophan deaminase-4.1.99.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43860C13:0 anteiso1.7
    43860C15:0 anteiso5.6
    43860C17:0 anteiso2.2
    43860C17:1 anteiso A1
    43860C12:01.6
    43860C14:05.4
    43860C14:0 3OH / C16:1 iso I1.7
    43860C16:014.6
    43860C16:1ω11c1
    43860C16:1ω7c / C15:0 iso 2OH9
    43860C18:01.8
    43860C18:1ω9c2.4
    43860C12:0 iso1.4
    43860C13:0 iso7
    43860C14:0 iso5.5
    43860C15:0 iso14.7
    43860C16:0 iso7.4
    43860C17:0 iso5.6
    43860C17:1 iso I /C17:1 anteiso B3.8
    43860C17:1 iso ω10c1.7
    43860C17:1 iso ω5c2.1
  • type of FA analysis: whole cell analysis
  • incubation medium: Tripticase soy agar
  • agar/liquid: agar
  • incubation temperature: 28
  • software version: Sherlock 6.0B
  • library/peak naming table: TSBA 6.0
  • system: MIS MIDI
  • instrument: Agilent 6850 gas chromatograph
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryisolation date
43860sediment of the Pacific Ocean
67771From sedimentsthe Pacific OceanPacific Ocean
121571Environment, SedimentsPacific Ocean2005-01-03

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_26.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_21;97_22;98_25;99_26&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: KJ812420
  • Sequence Identity:
  • Total samples: 4969
  • soil counts: 1920
  • aquatic counts: 446
  • animal counts: 1524
  • plant counts: 1079

Safety information

risk assessment

  • @ref: 121571
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 43860
  • description: Bacillus paranthracis strain MCCC 1A00395 16S ribosomal RNA gene, partial sequence
  • accession: KJ812420
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Bacillus paranthracis Mn5
  • accession: GCA_001883995
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 2026186

GC content

  • @ref: 43860
  • GC-content: 35.2
  • method: genome sequence analysis

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes73.73yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.31yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes51.778no
125438spore-formingspore-formingAbility to form endo- or exosporesyes85.486no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno94.329no
125438motile2+flagellatedAbility to perform flagellated movementyes84.765no
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes67.2
125439BacteriaNetmotilityAbility to perform movementyes66.5
125439BacteriaNetgram_stainReaction to gram-stainingpositive70.5
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe92.3

External links

@ref: 43860

culture collection no.: MCCC 1A00395, KCTC 33714, LMG 28873, NBRC 113914, CIP 111454

literature

  • topic: Phylogeny
  • Pubmed-ID: 28792367
  • title: Proposal of nine novel species of the Bacillus cereus group.
  • authors: Liu Y, Du J, Lai Q, Zeng R, Ye D, Xu J, Shao Z
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001821
  • year: 2017
  • mesh: Bacillus/*classification, Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
43860Yang Liu, Juan Du, Qiliang Lai, Runying Zeng, Dezan Ye, Jun Xu, Zongze ShaoProposal of nine novel species of the Bacillus cereus group10.1099/ijsem.0.001821IJSEM 67: 2499-2508 201728792367
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
121571Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20111454Collection of Institut Pasteur (CIP 111454)
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG