Strain identifier

BacDive ID: 11477

Type strain: Yes

Species: Paenibacillus macquariensis

Strain history: CIP <- 1988, DSMZ, Bacillus macquariensis <- ATCC <- B.J. Marshall

NCBI tax ID(s): 948756 (species)

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General

@ref: 2010

BacDive-ID: 11477

DSM-Number: 2

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, psychrophilic, motile

description: Paenibacillus macquariensis DSM 2 is an aerobe, spore-forming, psychrophilic bacterium that was isolated from soil.

NCBI tax id

  • NCBI tax id: 948756
  • Matching level: species

strain history

@refhistory
2010<- ATCC <- B.J. Marshall
120740CIP <- 1988, DSMZ, Bacillus macquariensis <- ATCC <- B.J. Marshall

doi: 10.13145/bacdive11477.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Paenibacillaceae
  • genus: Paenibacillus
  • species: Paenibacillus macquariensis
  • full scientific name: Paenibacillus macquariensis (Marshall and Ohye 1966) Ash et al. 1994

  • synonyms

    • @ref: 20215
    • synonym: Bacillus macquariensis

@ref: 2010

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Paenibacillaceae

genus: Paenibacillus

species: Paenibacillus macquariensis subsp. macquariensis

full scientific name: Paenibacillus macquariensis subsp. macquariensis (Marshall and Ohye 1966) Hoshino et al. 2009

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.234
69480100positive
120740negativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
37135MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
2010NUTRIENT AGAR (DSMZ Medium 1)yesName: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/1
120740CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
120740CIP Medium 18yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=18

culture temp

@refgrowthtypetemperaturerange
2010positivegrowth20psychrophilic
37135positivegrowth22psychrophilic
53646positivegrowth20psychrophilic
53646nogrowth30mesophilic
120740positivegrowth10-22psychrophilic
120740nogrowth30mesophilic
120740nogrowth37mesophilic
120740nogrowth45thermophilic
120740nogrowth55thermophilic

culture pH

  • @ref: 120740
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
53646aerobe
120740facultative anaerobe

spore formation

@refspore formationconfidence
69481yes100
69480yes100
120740yes

halophily

@refsaltgrowthtested relationconcentration
120740NaClpositivegrowth0-2 %
120740NaClnogrowth4 %
120740NaClnogrowth6 %
120740NaClnogrowth8 %
120740NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose+builds acid from16634
68371melezitose+builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin+builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside+builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside+builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
120740citrate-carbon source16947
120740nitrate-reduction17632
120740nitrite-reduction16301
120740nitrate+respiration17632

metabolite production

  • @ref: 120740
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 120740
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
120740oxidase+
120740alcohol dehydrogenase-1.1.1.1
120740gelatinase-
120740amylase-
120740DNase-
120740caseinase-3.4.21.50
120740catalase+1.11.1.6
120740tween esterase-
120740lecithinase-
120740lysine decarboxylase-4.1.1.18
120740ornithine decarboxylase-4.1.1.17
120740urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase+3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120740-+++------+-+++++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120740----++--+++++----+-+++++++++++++-++++-++---+--+-+/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2010soilMacquarie islandAustraliaAUSAustralia and Oceania
53646Soil
120740Environment, SoilMacquarie IslandAntarcticaATAAntarctica

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_4494.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15358;96_113;97_120;98_3378;99_4494&stattab=map
  • Last taxonomy: Paenibacillus
  • 16S sequence: X60625
  • Sequence Identity:
  • Total samples: 1731
  • soil counts: 1259
  • aquatic counts: 100
  • animal counts: 152
  • plant counts: 220

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
20101Risk group (German classification)
1207401Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Paenibacillus macquariensis subsp. macquariensis genes for 16S rRNA, 16S-23S internal transcribed spacer, 23S rRNA, partial and complete sequence, strain: DSM2AB468954586ena1468
20218Vibrionaceae bacterium DSM2 16S ribosomal RNA gene, partial sequenceKC439178925ena1343286
20218Paenibacillus macquariensis subsp. macquariensis partial 16S rRNA gene, strain DSM/ATCC23464X573051556ena1468
20218Paenibacillus macquariensis subsp. macquariensis 16S ribosomal RNA, strain NCTC 10419X606251438ena1468
2010Paenibacillus macquariensis subsp. macquariensis gene for 16S rRNA, partial sequenceAB0731931539ena1468

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenibacillus macquariensis ATCC 23464GCA_900156375scaffoldncbi948756
66792Paenibacillus macquariensis strain ATCC 23464948756.4wgspatric948756
66792Paenibacillus macquariensis strain ATCC 23464948756.3wgspatric948756
66792Paenibacillus macquariensis ATCC 234642681812895draftimg948756

GC content

@refGC-contentmethod
201041.6Buoyant density centrifugation (BD)
201039.3thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes90.614no
flagellatedyes86.627no
gram-positiveyes68.468no
anaerobicno97.138yes
aerobicyes72.371no
halophileno93.589no
spore-formingyes96.449no
thermophileno99.942yes
glucose-utilyes88.024no
glucose-fermentno79.174no

External links

@ref: 2010

culture collection no.: DSM 2, ATCC 23464, CIP 103269, LMG 6935, NCTC 10419, CCUG 37394, NCIMB 9934

straininfo link

  • @ref: 80711
  • straininfo: 1151

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15388704Paenibacillus antarcticus sp. nov., a novel psychrotolerant organism from the Antarctic environment.Montes MJ, Mercade E, Bozal N, Guinea JInt J Syst Evol Microbiol10.1099/ijs.0.63078-02004Anaerobiosis, Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Fatty Acids/analysis/isolation & purification, Genes, rRNA, Geologic Sediments/*microbiology, Gram-Positive Bacteria/*classification/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, TemperatureEnzymology
Phylogeny19605719Paenibacillus macquariensis subsp. defensor subsp. nov., isolated from boreal soil.Hoshino T, Nakabayashi T, Hirota K, Matsuno T, Koiwa R, Fujiu S, Saito I, Tkachenko OB, Matsuyama H, Yumoto IInt J Syst Evol Microbiol10.1099/ijs.0.006304-02009Aerobiosis, Antibiosis, Bacterial Typing Techniques, Base Composition, Basidiomycota/growth & development, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Far East, Fatty Acids/analysis, Gram-Positive Bacteria/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytologyGenetics
Phylogeny19783613Paenibacillus glacialis sp. nov., isolated from the Kafni glacier of the Himalayas, India.Kishore KH, Begum Z, Pathan AAK, Shivaji SInt J Syst Evol Microbiol10.1099/ijs.0.015271-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Ice Cover/*microbiology, India, Molecular Sequence Data, Paenibacillus/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny29068277Paenibacillus crassostreae sp. nov., isolated from the Pacific oyster Crassostrea gigas.Shin SK, Kim E, Yi HInt J Syst Evol Microbiol10.1099/ijsem.0.0024442017Animals, Bacterial Typing Techniques, Base Composition, Crassostrea/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Paenibacillus/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2010Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
37135Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15048
53646Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37394)https://www.ccug.se/strain?id=37394
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)
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
80711Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID1151.1StrainInfo: A central database for resolving microbial strain identifiers
120740Curators of the CIPCollection of Institut Pasteur (CIP 103269)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103269