Strain identifier

BacDive ID: 141060

Type strain: Yes

Species: Ventosimonas gracilis

Strain Designation: CV58

NCBI tax ID(s): 1680762 (species)

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General

@ref: 43939

BacDive-ID: 141060

DSM-Number: 100910

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, Gram-negative, rod-shaped

description: Ventosimonas gracilis CV58 is an obligate aerobe, Gram-negative, rod-shaped bacterium that was isolated from guts of the ant Cephalotes varians,from hollow mangrove twigs from Crocodile Lake National Wildlife Refuge, Key Largo, Forida, USA.

NCBI tax id

  • NCBI tax id: 1680762
  • Matching level: species

doi: 10.13145/bacdive141060.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Ventosimonadaceae
  • genus: Ventosimonas
  • species: Ventosimonas gracilis
  • full scientific name: Ventosimonas gracilis Lin et al. 2016

@ref: 43939

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Ventosimonadaceae

genus: Ventosimonas

species: Ventosimonas gracilis

strain designation: CV58

type strain: yes

Morphology

cell morphology

  • @ref: 43939
  • gram stain: negative
  • cell length: 2.4-4.5 µm
  • cell width: 0.4-0.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 43939
  • colony color: pale yellow
  • medium used: Trypticase soy agar

Culture and growth conditions

culture medium

@refnamegrowth
43939Brain heart infusion agaryes
43939Nutrient agar (NA)no
43939Reasoner's 2A agar (R2A)no
43939Trypticase soy agaryes

culture temp

@refgrowthtypetemperaturerange
43939positivegrowth23-40
43939positiveoptimum37mesophilic

culture pH

@refabilitytypepHPH range
43939positivegrowth5.5-8.5alkaliphile
43939positiveoptimum6.0-7.0

Physiology and metabolism

oxygen tolerance

  • @ref: 43939
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
43939NaClpositivegrowth0-1.5 %(w/v)
43939NaClpositiveoptimum0.5 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4393915963ribitol-carbon source
4393936219alpha-lactose-carbon source
4393918333D-arabitol-carbon source
4393917057cellobiose-carbon source
4393915824D-fructose-carbon source
4393912936D-galactose-carbon source
4393917634D-glucose-carbon source
4393916024D-mannose-carbon source
4393928053melibiose-carbon source
4393916634raffinose-carbon source
4393917126DL-carnitine-carbon source
4393918287L-fucose-carbon source
4393915603L-leucine-carbon source
439396359lactulose-carbon source
4393917309pectin-carbon source
4393917992sucrose-carbon source
4393917151xylitol-carbon source
43939167632-oxobutanoate+carbon source
43939309162-oxoglutarate+carbon source
4393913705acetoacetate+carbon source
4393916383cis-aconitate+carbon source
4393916947citrate+carbon source
4393915570D-alanine+carbon source
4393916523D-serine+carbon source
4393916865gamma-aminobutyric acid+carbon source
4393932323glucuronamide+carbon source
4393921217L-alaninamide+carbon source
43939L-alanine 4-nitroanilide+carbon source
4393973786L-alanylglycine+carbon source
4393916467L-arginine+carbon source
4393917196L-asparagine+carbon source
4393929991L-aspartate+carbon source
4393929985L-glutamate+carbon source
4393915729L-ornithine+carbon source
4393917203L-proline+carbon source
4393917115L-serine+carbon source
4393951850methyl pyruvate+carbon source
4393975146monomethyl succinate+carbon source
4393917272propionate+carbon source
4393917148putrescine+carbon source
43939143136succinamate+carbon source

antibiotic resistance

@refChEBImetaboliteis antibioticis resistant
4393929673rifamycin svyesyes
4393945735troleandomycinyesyes
439396472lincomycinyesyes
4393928001vancomycinyesyes
43939161680aztreonamyesyes

enzymes

@refvalueactivityec
43939catalase-1.11.1.6
43939urease-3.5.1.5
43939cytochrome oxidase+1.9.3.1
43939esterase (C 4)+
43939esterase Lipase (C 8)+
43939leucine arylamidase+3.4.11.1
43939valine arylamidase+
43939acid phosphatase+3.1.3.2
43939naphthol-AS-BI-phosphohydrolase+

Isolation, sampling and environmental information

isolation

  • @ref: 43939
  • sample type: guts of the ant Cephalotes varians,from hollow mangrove twigs from Crocodile Lake National Wildlife Refuge, Key Largo, Forida, USA
  • sampling date: 2012-10
  • geographic location: Crocodile Lake National Wildlife Refuge, Key Largo, fl
  • country: USA
  • origin.country: USA
  • continent: North America
  • latitude: 25.2925
  • longitude: -80.3055
  • enrichment culture: Trypticase soy agar

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_7012.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_619;96_3289;97_4035;98_5151;99_7012&stattab=map
  • Last taxonomy: Ventosimonas gracilis subclade
  • 16S sequence: KT258896
  • Sequence Identity:
  • Total samples: 1222
  • soil counts: 58
  • aquatic counts: 248
  • animal counts: 832
  • plant counts: 84

Sequence information

16S sequences

  • @ref: 43939
  • description: 16S rRNA gene sequence
  • accession: KT258896
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ventosimonas gracilis CV58GCA_001580025contigncbi1680762
66792Ventosimonas gracilis CV582728369576draftimg1680762

GC content

  • @ref: 43939
  • GC-content: 54.9
  • method: genome sequence analysis

External links

@ref: 43939

culture collection no.: NCIMB 15011, DSM 100910

literature

  • topic: Phylogeny
  • Pubmed-ID: 27054961
  • title: Ventosimonas gracilis gen. nov., sp. nov., a member of the Gammaproteobacteria isolated from Cephalotes varians ant guts representing a new family, Ventosimonadaceae fam. nov., within the order 'Pseudomonadales'.
  • authors: Lin JY, Hobson WJ, Wertz JT
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001068
  • year: 2016
  • mesh: Animals, Ants/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43939Jonathan Y. Lin, William J. Hobson, John T. WertzVentosimonas gracilis gen. nov., sp. nov., a member of the Gammaproteobacteria isolated from Cephalotes varians ant guts representing a new family, Ventosimonadaceae fam. nov., within the order 'Pseudomonadales'10.1099/ijsem.0.001068IJSEM 66: 2869-2875 201627054961
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/