Strain identifier

BacDive ID: 10470

Type strain: Yes

Species: Neisseria gonorrhoeae

Strain Designation: B5025, B 5025

Strain history: CIP <- 1979, ATCC <- NCTC <- J.F. Wilson, UK: strain B 5025

NCBI tax ID(s): 485 (species)

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General

@ref: 3507

BacDive-ID: 10470

DSM-Number: 9188

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative

description: Neisseria gonorrhoeae B5025 is a microaerophile, mesophilic, Gram-negative bacterium of the family Neisseriaceae.

NCBI tax id

  • NCBI tax id: 485
  • Matching level: species

strain history

@refhistory
3507<- ATCC; ATCC 19424 <- NCTC; NCTC 8375 <- J.F. Wilson; B5025
67770CIP 79.18 <-- ATCC 19424 <-- NCTC 8375 <-- J. F. Wilson; UK: B 5025.
119705CIP <- 1979, ATCC <- NCTC <- J.F. Wilson, UK: strain B 5025

doi: 10.13145/bacdive10470.20250331.9.3

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 gonorrhoeae
  • full scientific name: Neisseria gonorrhoeae (Zopf 1885) Trevisan 1885 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Merismopedia gonorrhoeae

@ref: 3507

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Neisseria

species: Neisseria gonorrhoeae

full scientific name: Neisseria gonorrhoeae (Zopf 1885) Trevisan 1885

strain designation: B5025, B 5025

type strain: yes

Morphology

cell morphology

  • @ref: 125438
  • gram stain: negative
  • confidence: 99.083

colony morphology

  • @ref: 3507
  • type of hemolysis: gamma
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3507COLUMBIA 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
36032MEDIUM 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)
3507CHOCOLATE AGAR (DSMZ Medium 429b)yeshttps://mediadive.dsmz.de/medium/429bName: CHOCOLATE AGAR (DSMZ Medium 429b) Composition: Horse blood 100.0 g/l Sheep blood 100.0 g/l Columbia agar base
119705CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperature
3507positivegrowth37
36032positivegrowth37
48585positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
3507microaerophile
48585microaerophile
125439microaerophile96.2

spore formation

@refspore formationconfidence
125438no92.411
125439no97.7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837727897tryptophan-energy source
6837718257ornithine-degradation
6837717992sucrose-builds acid from
6837715824D-fructose-builds acid from
6837717306maltose-builds acid from

metabolite production

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
3507catalase+1.11.1.6
3507cytochrome-c oxidase+1.9.3.1
68377tryptophan deaminase-4.1.99.1
68377ornithine decarboxylase-4.1.1.17

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
3507-+--------+--
3507+--------+---
3507---------+---
3507+-----+/-+/--+---
3507+--------++--
3507-+--------+--
3507-+--------++-
3507-+--------+--
3507-+-----+/-+/--+--
3507----------+--
3507-+--------+--

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsampling datelatitudelongitudeisolation date
36032SunderlandUnited KingdomGBREurope
48585SunderlandUnited KingdomGBREurope1950
3507SunderlandUnited KingdomGBREurope54.9-1.3833
119705SunderlandUnited KingdomGBREurope1950

taxonmaps

  • @ref: 69479
  • File name: preview.99_52.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_42;97_44;98_48;99_52&stattab=map
  • Last taxonomy: Neisseria gonorrhoeae subclade
  • 16S sequence: X07714
  • Sequence Identity:
  • Total samples: 3694
  • soil counts: 26
  • aquatic counts: 208
  • animal counts: 3447
  • plant counts: 13

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
35072Risk group (German classification)
1197052Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Neisseria gonorrhoeae gene for 16S ribosomal RNAX077141544nuccore485
3507Neisseria gonorrhoeae 16S rRNA gene, partialAJ247238457nuccore485

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Neisseria gonorrhoeae strain DSM 9188485.1339wgspatric485
66792Neisseria gonorrhoeae DSM 91882770939566draftimg485
67770Neisseria gonorrhoeae DSM 9188GCA_003315235scaffoldncbi485

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno99.083no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.409yes
125438spore-formingspore-formingAbility to form endo- or exosporesno92.411no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no60.51yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98yes
125438motile2+flagellatedAbility to perform flagellated movementno88.316no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97.7
125439BacteriaNetmotilityAbility to perform movementno77.1
125439BacteriaNetgram_stainReaction to gram-stainingnegative75.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthmicroaerophile96.2

External links

@ref: 3507

culture collection no.: CCUG 26876, CIP 79.18, DSM 9188, ATCC 19424, NCTC 8375, JCM 33543

straininfo link

  • @ref: 79747
  • straininfo: 389413

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity6208219Evaluation of Gonozyme, an enzyme immunoassay for the rapid diagnosis of gonorrhea.Manis RD Jr, Harris B, Geiseler PJJ Clin Microbiol10.1128/jcm.20.4.742-746.19841984Female, Gonorrhea/*diagnosis/drug therapy, Humans, *Immunoenzyme Techniques, Male, Staining and LabelingEnzymology
Pathogenicity12435671Mosaic-like structure of penicillin-binding protein 2 Gene (penA) in clinical isolates of Neisseria gonorrhoeae with reduced susceptibility to cefixime.Ameyama S, Onodera S, Takahata M, Minami S, Maki N, Endo K, Goto H, Suzuki H, Oishi YAntimicrob Agents Chemother10.1128/AAC.46.12.3744-3749.20022002Amino Acid Sequence, *Bacterial Proteins, *Carrier Proteins, Cefixime/*pharmacology, Hexosyltransferases/drug effects/*genetics, Humans, Male, Microbial Sensitivity Tests, Molecular Sequence Data, Mosaicism/genetics, Multienzyme Complexes/drug effects/*genetics, *Muramoylpentapeptide Carboxypeptidase, Neisseria gonorrhoeae/drug effects/*genetics/isolation & purification, Penicillin-Binding Proteins, Peptidyl Transferases/drug effects/*geneticsGenetics
Metabolism17540669Decreased affinity of mosaic-structure recombinant penicillin-binding protein 2 for oral cephalosporins in Neisseria gonorrhoeae.Ochiai S, Sekiguchi S, Hayashi A, Shimadzu M, Ishiko H, Matsushima-Nishiwaki R, Kozawa O, Yasuda M, Deguchi TJ Antimicrob Chemother10.1093/jac/dkm1662007Administration, Oral, Animals, Anti-Bacterial Agents/*metabolism/pharmacology, Bacterial Proteins/genetics, Baculoviridae/genetics/metabolism, Cells, Cultured, Cephalosporins/*metabolism/pharmacology, Humans, Male, Mosaicism, Neisseria gonorrhoeae/*drug effects/metabolism, Penicillin-Binding Proteins/chemistry/genetics/isolation & purification/*metabolism, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, SpodopteraPathogenicity
Pathogenicity23880127Plants traditionally used individually and in combination to treat sexually transmitted infections in northern Maputaland, South Africa: antimicrobial activity and cytotoxicity.Naidoo D, van Vuuren SF, van Zyl RL, de Wet HJ Ethnopharmacol10.1016/j.jep.2013.07.0182013Anti-Infective Agents/administration & dosage/pharmacology/*therapeutic use/toxicity, Cell Survival/drug effects, Drug Synergism, Drug Therapy, Combination, HEK293 Cells, Humans, *Medicine, African Traditional, Microbial Sensitivity Tests, Plant Extracts/administration & dosage/pharmacology/*therapeutic use/toxicity, Plants, Medicinal/*chemistry, Sexually Transmitted Diseases/*drug therapy/*microbiology, South Africa, Treatment Outcome
33062385Biological activities and variation of symbiotic fungi isolated from Coral reefs collected from Red Sea in Egypt.Abd El-Rahman TMA, Tharwat NA, Abo El-Souad SMS, El-Beih AA, El-Diwany AIMycology10.1080/21501203.2020.17414702020
Phylogeny36309905Kingella pumchi sp. nov., an organism isolated from human vertebral puncture tissue.Xiao M, Liu R, Du J, Liu R, Zhai L, Wang H, Yao S, Xu YCAntonie Van Leeuwenhoek10.1007/s10482-022-01786-w2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3507Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9188)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9188
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
36032Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/11043
48585Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 26876)https://www.ccug.se/strain?id=26876
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68377Automatically annotated from API NH
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
79747Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID389413.1StrainInfo: A central database for resolving microbial strain identifiers
119705Curators of the CIPCollection of Institut Pasteur (CIP 79.18)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2079.18
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1