Strain identifier

BacDive ID: 1210

Type strain: Yes

Species: Ectobacillus funiculus

Strain Designation: NAF001

Strain history: CIP <- 2001, R. Iriye, Shinshu Univ., Nagano, Japan: strain NAF001

NCBI tax ID(s): 137993 (species)

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General

@ref: 5634

BacDive-ID: 1210

DSM-Number: 15141

keywords: 16S sequence, Bacteria, aerobe, spore-forming, Gram-variable, motile, filament-shaped, colony-forming

description: Ectobacillus funiculus NAF001 is an aerobe, spore-forming, Gram-variable bacterium that forms circular colonies and was isolated from activated sludge of domestic wastewater treatment tanks.

NCBI tax id

  • NCBI tax id: 137993
  • Matching level: species

strain history

@refhistory
5634<- R. Iriye
371062001, R. Iriye, Shinshu University, Japan: strain NAF001
67770R. Iriye NAF001.
119493CIP <- 2001, R. Iriye, Shinshu Univ., Nagano, Japan: strain NAF001

doi: 10.13145/bacdive1210.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Ectobacillus
  • species: Ectobacillus funiculus
  • full scientific name: Ectobacillus funiculus (Ajithkumar et al. 2002) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus funiculus

@ref: 5634

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Ectobacillus

species: Ectobacillus funiculus

full scientific name: Ectobacillus funiculus (Ajithkumar et al. 2002) Gupta et al. 2020

strain designation: NAF001

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
23310variable4.0-6.0 µm0.8-2.0 µmfilament-shapedyesperitrichous
119493positiverod-shapedno

colony morphology

@refcolony colorcolony shapemedium used
23310opaque, off-whitecircularNG agar
119493

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5634NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23310NG agaryes
37106MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119493CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
5634positivegrowth30
23310positivegrowth20-40
23310nogrowth10
37106positivegrowth30
67770positivegrowth30

culture pH

  • @ref: 119493
  • ability: positive
  • type: growth
  • pH: 6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23310aerobe
23310anaerobe
119493obligate aerobe

spore formation

  • @ref: 23310
  • spore description: centrally located, ellipsoidal
  • type of spore: endospore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
23310NaClnogrowth5 %
119493NaClpositivegrowth0 %
119493NaClnogrowth2 %
119493NaClnogrowth4 %
119493NaClnogrowth6 %
119493NaClnogrowth8 %
119493NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2331016947citrate-assimilation
2331016443D-tagatose-assimilation
2331065327D-xylose-assimilation
2331017268myo-inositol-assimilation
2331030849L-arabinose-assimilation
2331015589L-malate-assimilation
2331017716lactose-assimilation
2331016634raffinose-assimilation
2331017814salicin-assimilation
2331017151xylitol-assimilation
2331027897tryptophan-energy source
23310casein-hydrolysis
233105291gelatin-hydrolysis
2331053426tween 80-hydrolysis
2331027605D-psicose+assimilation
2331016988D-ribose+assimilation
2331016551D-trehalose+assimilation
2331028757fructose+assimilation
2331017234glucose+assimilation
2331017754glycerol+assimilation
2331017306maltose+assimilation
2331017992sucrose+assimilation
233104853esculin+hydrolysis
2331028017starch+hydrolysis
2331016199urea+hydrolysis
2331017632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837118403L-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
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
6837117814salicin+builds acid from
683714853esculin+builds acid from
6837118305arbutin+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
6837117266L-sorbose-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
6837117108D-arabinose-builds acid from
6837117754glycerol-builds acid from
11949316947citrate-carbon source
1194934853esculin+hydrolysis
11949317632nitrate+reduction
11949316301nitrite+reduction
11949317632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
2331035581indoleno
2331015688acetoinyes
11949335581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
2331015688acetoin+
2331035581indole-
11949315688acetoin-
11949317234glucose-

enzymes

@refvalueactivityec
23310catalase+1.11.1.6
23310cytochrome oxidase-1.9.3.1
23310tryptophan deaminase-4.1.99.1
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
119493oxidase-
119493beta-galactosidase+3.2.1.23
119493alcohol dehydrogenase-1.1.1.1
119493gelatinase-
119493amylase+
119493DNase-
119493caseinase-3.4.21.50
119493catalase-1.11.1.6
119493tween esterase-
119493lecithinase-
119493lipase-
119493lysine decarboxylase-4.1.1.18
119493ornithine decarboxylase-4.1.1.17
119493urease-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
119493--++-+-----+++-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119493-+/--+/--+---+/-+++/--+/-+/-+/-+/-+--++/-++++/-+-+++++++/-+-++----+/--+/---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
119493+++++++++++++++++++++++++++--+-+++-++---+--+++++-+-+-+++++-++-+-+++---+----+---++-+---+--++++++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
5634activated sludge of domestic wastewater treatment tanksFukushimaJapanJPNAsia
67770Suspended water of a domestic wastewater treatment tankNakajima, Nishishirakawa, FukushimaJapanJPNAsia
119493Environment, Activated sludge of wastewater tanksFukushimaJapanJPNAsia1997

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Container (Reservoir)
#Engineered#Waste#Activated sludge
#Engineered#Waste#Wastewater

taxonmaps

  • @ref: 69479
  • File name: preview.99_28513.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_14079;97_17161;98_21315;99_28513&stattab=map
  • Last taxonomy: Bacillus funiculus subclade
  • 16S sequence: AB049195
  • Sequence Identity:
  • Total samples: 10709
  • soil counts: 6181
  • aquatic counts: 1267
  • animal counts: 1450
  • plant counts: 1811

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
56341Risk group (German classification)
1194931Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Bacillus sp. NAF001 gene for 16S rRNA, partial sequence
  • accession: AB049195
  • length: 1530
  • database: nuccore
  • NCBI tax ID: 137993

GC content

  • @ref: 23310
  • GC-content: 37.2
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 5634

culture collection no.: DSM 15141, CIP 107128, JCM 11201, KCTC 3796

straininfo link

  • @ref: 70866
  • straininfo: 100518

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12148618Bacillus funiculus sp. nov., novel filamentous isolates from activated sludge.Ajithkumar VP, Ajithkumar B, Iriye R, Sakai TInt J Syst Evol Microbiol10.1099/00207713-52-4-11412002Bacillus/chemistry/*classification/growth & development/*isolation & purification, Fatty Acids/analysis, Microscopy, Electron, Scanning, Nucleic Acid Hybridization, Quinones/analysis, Sewage/*microbiologyEnzymology
Phylogeny17158988Bacillus panaciterrae sp. nov., isolated from soil of a ginseng field.Ten LN, Baek SH, Im WT, Liu QM, Aslam Z, Lee STInt J Syst Evol Microbiol10.1099/ijs.0.64403-02006Agriculture, Bacillus/chemistry/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Panax/*growth & development, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny25505346Bacillus polymachus sp. nov., with a broad range of antibacterial activity, isolated from forest topsoil samples by using a modified culture method.Nguyen TM, Kim JInt J Syst Evol Microbiol10.1099/ijs.0.070326-02014Anti-Bacterial Agents/chemistry, Bacillus/chemistry/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5634Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15141)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15141
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
23310Vasudevan P Ajithkumar, Bindu Ajithkumar, Ryozo Iriye, Tadashi Sakai10.1099/00207713-52-4-1141Bacillus funiculus sp. nov., novel filamentous isolates from activated sludge.IJSEM 52: 1141-1144 200212148618
37106Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4530
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
70866Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100518.1StrainInfo: A central database for resolving microbial strain identifiers
119493Curators of the CIPCollection of Institut Pasteur (CIP 107128)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107128