Strain identifier

BacDive ID: 135780

Type strain: Yes

Species: Aggregatibacter aphrophilus

Strain history: CIP <- 1970, NCTC <- 1939, O. Khairat, London, UK: strain 320, Haemophilus aphrophilus

NCBI tax ID(s): 985008 (strain), 732 (species)

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General

@ref: 35024

BacDive-ID: 135780

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

description: Aggregatibacter aphrophilus CIP 70.73 is a microaerophile, Gram-negative, oval-shaped bacterium that was isolated from Blood.

NCBI tax id

NCBI tax idMatching level
732species
985008strain

strain history

  • @ref: 35024
  • history: CIP <- 1970, NCTC <- 1939, O. Khairat, London, UK: strain 320, Haemophilus aphrophilus

doi: 10.13145/bacdive135780.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pasteurellales
  • family: Pasteurellaceae
  • genus: Aggregatibacter
  • species: Aggregatibacter aphrophilus
  • full scientific name: Aggregatibacter aphrophilus (Khairat 1940) Nørskov-Lauritsen and Kilian 2006

  • synonyms

    @refsynonym
    20215Haemophilus paraphrophilus
    20215Haemophilus aphrophilus

@ref: 35024

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Aggregatibacter

species: Aggregatibacter aphrophilus

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative98.438
35024negativeoval-shapedno

colony morphology

  • @ref: 35024
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
35024MEDIUM 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)
35024CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperature
35024positivegrowth37
44685positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44685microaerophile
35024facultative anaerobe

spore formation

@refspore formationconfidence
69480no90.492
69481no100

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
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
35024nitrate+reduction17632
35024nitrite-reduction16301
68381arginine-hydrolysis29016
68381D-ribose-builds acid from16988
68381D-mannitol-builds acid from16899
68381sorbitol-builds acid from30911
68381lactose+builds acid from17716
68381trehalose+builds acid from27082
68381raffinose-builds acid from16634
68381sucrose+builds acid from17992
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381hippurate-hydrolysis606565
68381glycogen-builds acid from28087
68381pullulan-builds acid from27941
68381maltose+builds acid from17306
68381melibiose-builds acid from28053
68381melezitose-builds acid from6731
68381methyl beta-D-glucopyranoside-builds acid from320055
68381D-tagatose-builds acid from16443
68381urea-hydrolysis16199

antibiotic resistance

  • @ref: 35024
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
3502435581indoleno
6838115688acetoinno

metabolite tests

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase+3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase+3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
35024oxidase-
35024beta-galactosidase+3.2.1.23
35024alcohol dehydrogenase-1.1.1.1
35024catalase-1.11.1.6
35024lysine decarboxylase-4.1.1.18
35024ornithine decarboxylase-4.1.1.17
35024urease-3.5.1.5

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
35024+--------++++--------+-----++-++--+++--+------+-+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
44685--+--+---++-+-----+------+------

Isolation, sampling and environmental information

isolation

  • @ref: 35024
  • sample type: Blood
  • isolation date: 1939

Safety information

risk assessment

  • @ref: 35024
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
124043Aggregatibacter aphrophilus strain CIP 70.73 16S ribosomal RNA gene, partial sequence.EU0835291506nuccore985008
124043Aggregatibacter aphrophilus ATCC 33389 16S ribosomal RNA gene, partial sequence.M750411479nuccore985008

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aggregatibacter aphrophilus ATCC 33389 NCTC 5906GCA_900636915completencbi985008
66792Aggregatibacter aphrophilus ATCC 33389GCA_000226495contigncbi985008
66792Aggregatibacter aphrophilus ATCC 33389985008.3wgspatric985008
66792Aggregatibacter aphrophilus ATCC 33389 strain NCTC5906 strain NCTC 5906985008.4completepatric985008
66792Aggregatibacter aphrophilus ATCC 33389 NCTC 59062841352428completeimg985008
66792Aggregatibacter aphrophilus 320, ATCC 333892537561844draftimg985008

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.438no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no93.114yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no85.065yes
69480spore-formingspore-formingAbility to form endo- or exosporesno90.492no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno97.5yes
69480flagellatedmotile2+Ability to perform flagellated movementno88.655no

External links

@ref: 35024

culture collection no.: CIP 70.73, ATCC 33389, CCUG 3715, NCTC 5906

straininfo link

  • @ref: 93069
  • straininfo: 40472

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny3935663Differentiation among closely related organisms of the Actinobacillus-Haemophilus-Pasteurella group by means of lysozyme and EDTA.Olsen I, Brondz IJ Clin Microbiol10.1128/jcm.22.4.629-636.19851985Actinobacillus/*classification/drug effects/ultrastructure, Bacteriolysis/drug effects, Edetic Acid/*pharmacology, Haemophilus/*classification/drug effects/ultrastructure, Hydrogen-Ion Concentration, Microscopy, Electron, Muramidase/*pharmacology, Pasteurella/*classification/drug effects/ultrastructure, Species Specificity, Temperature, Tromethamine/pharmacologyPathogenicity
Pathogenicity7521967Use of a nonradioactive genetic probe identified, synthesized, and labeled in the polymerase chain reaction.Preus HR, Russell DTScand J Dent Res10.1111/j.1600-0722.1994.tb01173.x1994Adult, Aggregatibacter actinomycetemcomitans/*genetics, Blotting, Southern, DNA Primers, *DNA Probes, DNA, Bacterial/*genetics, DNA-Directed DNA Polymerase, Deoxyuracil Nucleotides, Digoxigenin/analogs & derivatives, Gene Amplification, Genetic Markers/genetics, Haemophilus/*genetics, Humans, Indicators and Reagents, *Nucleic Acid Hybridization, Periodontitis/microbiology, *Polymerase Chain Reaction, RNA-Directed DNA Polymerase, Taq PolymerasePhylogeny
Phylogeny16957111Reclassification of Actinobacillus actinomycetemcomitans, Haemophilus aphrophilus, Haemophilus paraphrophilus and Haemophilus segnis as Aggregatibacter actinomycetemcomitans gen. nov., comb. nov., Aggregatibacter aphrophilus comb. nov. and Aggregatibacter segnis comb. nov., and emended description of Aggregatibacter aphrophilus to include V factor-dependent and V factor-independent isolates.Norskov-Lauritsen N, Kilian MInt J Syst Evol Microbiol10.1099/ijs.0.64207-02006Actinobacillus/*classification/enzymology/genetics, DNA, Bacterial/*analysis, Haemophilus/*classification/enzymology/genetics, Molecular Sequence Data, Nicotinamide Phosphoribosyltransferase, Pentosyltransferases/*genetics, RNA, Ribosomal, 16SEnzymology

Reference

@idauthorstitledoi/urlcatalogue
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
35024Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2070.73Collection of Institut Pasteur (CIP 70.73)
44685Curators of the CCUGhttps://www.ccug.se/strain?id=3715Culture Collection University of Gothenburg (CCUG) (CCUG 3715)
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
68371Automatically annotated from API 50CH acid
68381Automatically annotated from API rID32STR
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
93069Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID40472.1
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy