Strain identifier

BacDive ID: 4305

Type strain: Yes

Species: Arsenophonus nasoniae

Strain Designation: SKI4, SK14

Strain history: CIP <- 2005, DSMZ <- J.H. Werren: strain SK14

NCBI tax ID(s): 1121018 (strain), 638 (species)

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General

@ref: 5779

BacDive-ID: 4305

DSM-Number: 15247

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped, animal pathogen

description: Arsenophonus nasoniae SKI4 is an aerobe, mesophilic, Gram-negative animal pathogen that was isolated from wasp Nasonia vitripennis.

NCBI tax id

NCBI tax idMatching level
1121018strain
638species

strain history

@refhistory
5779<- ATCC <- J. H. Werren; SKI4
121239CIP <- 2005, DSMZ <- J.H. Werren: strain SK14

doi: 10.13145/bacdive4305.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Morganellaceae
  • genus: Arsenophonus
  • species: Arsenophonus nasoniae
  • full scientific name: Arsenophonus nasoniae Gherna et al. 1991

@ref: 5779

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Morganellaceae

genus: Arsenophonus

species: Arsenophonus nasoniae

full scientific name: Arsenophonus nasoniae Gherna et al. 1991

strain designation: SKI4, SK14

type strain: yes

Morphology

cell morphology

  • @ref: 121239
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refincubation period
57793-7 days
606171 day
121239

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_15247_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15247_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15247_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15247_4.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5779BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
40085MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
5779NUTRIENT 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
5779TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yeshttps://mediadive.dsmz.de/medium/535aName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
121239CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
5779positivegrowth28mesophilic
40085positivegrowth30mesophilic
60617positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
60617aerobe
121239obligate aerobe

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371L-arabitol-builds acid from18403
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371xylitol-builds acid from17151
68371melezitose-builds acid from6731
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68368L-arabinose-fermentation30849
68368amygdalin-fermentation27613
68368melibiose-fermentation28053
68368sucrose-fermentation17992
68368L-rhamnose-fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol-fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate-assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
121239nitrate-reduction17632
121239nitrite-reduction16301
68374ornithine-degradation18257
68374arginine-hydrolysis29016
68374lysine-degradation25094
68374urea-hydrolysis16199
68374L-arabitol-builds acid from18403
68374D-galacturonic acid-builds acid from18024
68374Potassium 5-ketogluconate-builds acid from
68374D-mannitol-builds acid from16899
68374maltose-builds acid from17306
68374ribitol-builds acid from15963
68374palatinose-builds acid from18394
68374malonate-assimilation15792
68374tryptophan-energy source27897
68374D-glucose-builds acid from17634
68374sucrose-builds acid from17992
68374L-arabinose-builds acid from30849
68374D-arabitol-builds acid from18333
68374trehalose-builds acid from27082
68374L-rhamnose-builds acid from62345
68374myo-inositol-builds acid from17268
68374cellobiose-builds acid from17057
68374sorbitol-builds acid from30911

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12123935581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6837435581indole-
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
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
68374L-aspartate arylamidase-3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase-3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase-3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase-4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase-4.1.1.17
68368cytochrome oxidase+1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
121239oxidase-
121239alcohol dehydrogenase-1.1.1.1
121239catalase+1.11.1.6
121239lysine decarboxylase-4.1.1.18
121239ornithine decarboxylase-4.1.1.17
121239urease-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
121239-----+--+-++--+-----

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
60617-----------+--------+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121239+/---+/-+/-+/---+/-+/-+/-+/-+/-----+/-----+/-+/-+/-+/-+/-+/---+/-+/-+/--+/-+/-+/--+/-+/-----+/--+/--+/-

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
60617--------------------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling date
5779wasp Nasonia vitripennisNasonia vitripennisUtahUSAUSANorth America
60617Wasp,Nasonia vitripennisUtah,near Salt Lake CityUSAUSANorth America1983
121239Wasp, Nasonia vitripennisUtahUnited States of AmericaUSANorth America

isolation source categories

  • Cat1: #Host
  • Cat2: #Arthropoda
  • Cat3: #Insecta

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
5779yes1Risk group (German classification)
1212391Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Arsenophonus nasoniae 16S ribosomal RNA gene, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA gene, partial sequenceAY2646744861ena638
20218Arsenophonus nasoniae 16S ribosomal RNAM908011490ena638

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arsenophonus nasoniae DSM 15247GCA_000429565scaffoldncbi1121018
66792Arsenophonus nasoniae DSM 152471121018.3wgspatric1121018
66792Arsenophonus nasoniae DSM 152472524614872draftimg1121018

GC content

  • @ref: 5779
  • GC-content: 39.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.348no
flagellatedno67.237no
gram-positiveno97.963no
anaerobicno97.432yes
aerobicyes61.004yes
halophileno76.187no
spore-formingno96.468no
thermophileno94.903yes
glucose-utilyes80.938no
glucose-fermentyes88.019yes

External links

@ref: 5779

culture collection no.: DSM 15247, ATCC 49151, CIP 109007, CCUG 55501, LMG 12584

straininfo link

  • @ref: 73797
  • straininfo: 7845

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5779Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15247)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15247
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
40085Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6701
60617Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55501)https://www.ccug.se/strain?id=55501
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68374Automatically annotated from API ID32E
68382Automatically annotated from API zym
73797Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7845.1StrainInfo: A central database for resolving microbial strain identifiers
121239Curators of the CIPCollection of Institut Pasteur (CIP 109007)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109007