Strain identifier

BacDive ID: 2901

Type strain: Yes

Species: Acidovorax citrulli

Strain history: <- ICMP <- ATCC <- N. W. Schaad; C42 <- G. Sowell

NCBI tax ID(s): 80869 (species)

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General

@ref: 6729

BacDive-ID: 2901

DSM-Number: 17060

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen

description: Acidovorax citrulli CCUG 17393 is a mesophilic plant pathogen that was isolated from water soaked lesion on cotyledon of Citrullus lanatus.

NCBI tax id

  • NCBI tax id: 80869
  • Matching level: species

strain history

  • @ref: 6729
  • history: <- ICMP <- ATCC <- N. W. Schaad; C42 <- G. Sowell

doi: 10.13145/bacdive2901.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Acidovorax
  • species: Acidovorax citrulli
  • full scientific name: Acidovorax citrulli (Schaad et al. 1978) Schaad et al. 2009

  • synonyms

    @refsynonym
    20215Pseudomonas avenae subsp. citrulli
    20215Paracidovorax citrulli
    20215Acidovorax avenae subsp. citrulli
    20215Pseudomonas pseudoalcaligenes subsp. citrulli

@ref: 6729

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Acidovorax

species: Acidovorax citrulli

full scientific name: Acidovorax citrulli (Schaad et al. 1978) Schaad et al. 2009

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6729NUTRIENT 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
39524MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)

culture temp

@refgrowthtypetemperaturerange
6729positivegrowth28mesophilic
39524positivegrowth25mesophilic

Physiology and metabolism

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    46607C12:03.112
    46607C14:02.214
    46607C15:0215
    46607C16:030.516
    46607C10:0 3OH4.611.423
    46607C16:1 ω7c4815.819
    46607C18:1 ω7c /12t/9t9.717.824
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6729+---++---+----+-++--+
6729+--------+----+-++--+
6729+--------+----+-++--+

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentsampling date
6729water soaked lesion on cotyledon of Citrullus lanatusCitrullus lanatusUSAUSANorth America
46607Citrullus lanatus,watersoaked lesion on cotyledonUSAUSANorth America1977

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Other#Wound

taxonmaps

  • @ref: 69479
  • File name: preview.99_1323.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_1048;99_1323&stattab=map
  • Last taxonomy: Acidovorax
  • 16S sequence: JQ743863
  • Sequence Identity:
  • Total samples: 45753
  • soil counts: 16355
  • aquatic counts: 12286
  • animal counts: 6685
  • plant counts: 10427

Safety information

risk assessment

  • @ref: 6729
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Acidovorax citrulli strain ATCC 29625 16S ribosomal RNA gene, partial sequenceAF0787611517ena80869
20218Acidovorax avenae subsp. citrulli strain FC-247 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceDQ360418615ena80869
20218Acidovorax citrulli strain ICMP 7500 16S ribosomal RNA gene, partial sequenceGU3390881490ena80869
20218Acidovorax citrulli strain ICMP 7500 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceGU339093898ena80869
20218Acidovorax citrulli strain BC525 16S ribosomal RNA gene, partial sequenceJQ7438631426ena80869
20218Acidovorax citrulli strain BC525 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceJQ743876676ena80869

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paracidovorax citrulli DSM 17060GCA_900100305scaffoldncbi80869
66792Acidovorax citrulli strain DSM 1706080869.24wgspatric80869
66792Acidovorax citrulli DSM 170602634166347draftimg80869

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes87.581no
flagellatedyes70.73no
gram-positiveno98.998no
anaerobicno98.422no
aerobicyes93.782no
halophileno95.086no
spore-formingno93.518no
glucose-fermentno90.385no
thermophileno98.794yes
glucose-utilyes57.764yes

External links

@ref: 6729

culture collection no.: CCUG 17393, CIP 106436, DSM 17060, ATCC 29625, CCUG 1739, ICMP 7500, LMG 5376

straininfo link

  • @ref: 72424
  • straininfo: 121

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6729Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17060)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17060
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
39524Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18566
46607Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 17393)https://www.ccug.se/strain?id=17393
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)
68369Automatically annotated from API 20NE
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
72424Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID121.1StrainInfo: A central database for resolving microbial strain identifiers