Strain identifier

BacDive ID: 10495

Type strain: No

Species: Neisseria shayeganii

Strain Designation: 12337, WC 04-12337

Strain history: CIP <- 2009, W.J. Wolfgang, Wadsworth Cent., Albany, New-York, USA <- Hudson Valley Hosp. Cent., New-York, USA: strain WC 04-12337

NCBI tax ID(s): 607712 (species)

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General

@ref: 16226

BacDive-ID: 10495

DSM-Number: 22244

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, Gram-positive, rod-shaped

description: Neisseria shayeganii 12337 is a microaerophile, Gram-positive, rod-shaped bacterium that was isolated from patient's arm wound.

NCBI tax id

  • NCBI tax id: 607712
  • Matching level: species

strain history

@refhistory
16226<- W. J. Wolfgang and V. Derbyshire, Wadsworth Center, NYS Dept. of Health, Albany, USA; WC 04-12337 <- Hudson Valley Hospital Center
122584CIP <- 2009, W.J. Wolfgang, Wadsworth Cent., Albany, New-York, USA <- Hudson Valley Hosp. Cent., New-York, USA: strain WC 04-12337

doi: 10.13145/bacdive10495.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Neisseriaceae
  • genus: Neisseria
  • species: Neisseria shayeganii
  • full scientific name: Neisseria shayeganii Wolfgang et al. 2011

@ref: 16226

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Neisseria

species: Neisseria shayeganii

full scientific name: Neisseria shayeganii Wolfgang et al. 2011

strain designation: 12337, WC 04-12337

type strain: no

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
122584positiverod-shapedno
69480negative98.104

colony morphology

  • @ref: 16226
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16226COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
36850MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and NeisseriayesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml);PolyVitex mischung (10.000 ml)
122584CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45
122584CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperature
16226positivegrowth37
36850positivegrowth37
62245positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16226microaerophile
62245microaerophile
122584obligate aerobe

spore formation

@refspore formationconfidence
69480no92.398
69481no99

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12258417632nitrate+reduction
12258416301nitrite-reduction
6837718257ornithine-degradation
6837727897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6837735581indoleno
12258435581indoleno

metabolite tests

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68377tryptophan deaminase-4.1.99.1
68377proline-arylamidase+3.4.11.5
68377alkaline phosphatase-3.1.3.1
68377ornithine decarboxylase-4.1.1.17
122584oxidase+
122584catalase+1.11.1.6
122584urease-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
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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    62245C12:08.412
    62245C14:06.814
    62245C15:01.515
    62245C16:028.616
    62245C12:0 3OH7.113.455
    62245C16:1 ω7c18.815.819
    62245C17:1 ω8c0.516.792
    62245C18:1 DMA 17.2521.517.252
    62245C18:1 ω7c /12t/9t10.517.824
    62245C18:1 ω9c2.517.769
    62245C18:2 ω6,9c/C18:0 ANTE10.717.724
    62245Unidentified0.412.258
    62245Unidentified2.716.295
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
62245-+++-+--------------
122584-+++-+----+---------

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
62245-------+--++-
16226++++--+/---++--
16226-++++--+/---++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
16226patient's arm woundNew York, Westchester CountyUSAUSANorth America
62245Human wound,47-yr-old woman,armNY State,Westchester CountyUSAUSANorth America2004-09-09
122584Human, Arm woundNew YorkUnited States of AmericaUSANorth America2004

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Host Body-Site#Other#Wound
#Host Body-Site#Limb#Arm

taxonmaps

  • @ref: 69479
  • File name: preview.99_1465.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_837;97_979;98_1155;99_1465&stattab=map
  • Last taxonomy: Neisseria shayeganii
  • 16S sequence: FJ654665
  • Sequence Identity:
  • Total samples: 4600
  • soil counts: 65
  • aquatic counts: 276
  • animal counts: 4241
  • plant counts: 18

Safety information

risk assessment

  • @ref: 122584
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 16226
  • description: Neisseria shayeganii strain WC 04-12337 16S ribosomal RNA gene, partial sequence
  • accession: FJ654665
  • length: 1463
  • database: nuccore
  • NCBI tax ID: 607712

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Neisseria shayeganii DSM 22244GCA_014054965completencbi607712
66792Neisseria shayeganii strain DSM 22244607712.7completepatric607712

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno99no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.104no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.061no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes67.956no
69480spore-formingspore-formingAbility to form endo- or exosporesno92.398no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.961yes
69480flagellatedmotile2+Ability to perform flagellated movementno85.306no

External links

@ref: 16226

culture collection no.: DSM 22244, CIP 109932, CCUG 60228

straininfo link

  • @ref: 79772
  • straininfo: 371497

Reference

@idauthorscataloguedoi/urltitle
16226Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22244)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22244
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
36850Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7731
62245Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 60228)https://www.ccug.se/strain?id=60228
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)
68377Automatically annotated from API NH
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
79772Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID371497.1StrainInfo: A central database for resolving microbial strain identifiers
122584Curators of the CIPCollection of Institut Pasteur (CIP 109932)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109932