Strain identifier

BacDive ID: 140287

Type strain: Yes

Species: Actinomyces vulturis

Strain Designation: VUL7

Strain history: <- X. Meng, Chinese Center for Disease Control and Prevention, Beijing, China; VUL7

NCBI tax ID(s): 1857645 (species)

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General

@ref: 42894

BacDive-ID: 140287

DSM-Number: 103437

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-positive, rod-shaped, colony-forming

description: Actinomyces vulturis VUL7 is a facultative anaerobe, Gram-positive, rod-shaped bacterium that forms circular colonies and was isolated from faeces of vulture Gyps himalayensis.

NCBI tax id

  • NCBI tax id: 1857645
  • Matching level: species

strain history

  • @ref: 42894
  • history: <- X. Meng, Chinese Center for Disease Control and Prevention, Beijing, China; VUL7

doi: 10.13145/bacdive140287.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Actinomycetales
  • family: Actinomycetaceae
  • genus: Actinomyces
  • species: Actinomyces vulturis
  • full scientific name: Actinomyces vulturis Meng et al. 2017

@ref: 42894

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinomycetaceae

genus: Actinomyces

species: Actinomyces vulturis

full scientific name: Actinomyces vulturis Meng et al. 2017

strain designation: VUL7

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43234positive1.0-1.3 µm0.5-0.8 µmrod-shapedno
69480no96.341
69480positive100

colony morphology

  • @ref: 43234
  • type of hemolysis: gamma
  • colony size: <1 mm
  • colony color: grey-white
  • colony shape: circular
  • incubation period: 2 days
  • medium used: sheep-blood agar

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43234sheep-blood agaryes
42894BBL ACTINOMYCES BROTH (DSMZ Medium 1029)yeshttps://mediadive.dsmz.de/medium/1029Name: BBL ACTINOMYCES BROTH (DSMZ Medium 1029) Composition: Infusion Broth 1.425 g/l Potassium Phosphate 0.855 g/l Dextrose 0.285 g/l Yeast extract 0.285 g/l Pancreatic digest of casein 0.228 g/l L-Cysteine HCl 0.057 g/l Starch 0.057 g/l Ammonium Sulfate 0.057 g/l Magnesium sulfate 0.0114 g/l Calcium Chloride 0.00057 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
43234positivegrowth4-55
42894positivegrowth37mesophilic

culture pH

  • @ref: 43234
  • ability: positive
  • type: growth
  • pH: 4-11
  • PH range: alkaliphile

Physiology and metabolism

oxygen tolerance

  • @ref: 43234
  • oxygen tolerance: facultative anaerobe

spore formation

@reftype of sporespore formationconfidence
43234sporeno
69481no100
69480no99.998

halophily

  • @ref: 43234
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-4 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4323412936D-galactose+builds acid from
4323417634D-glucose+builds acid from
4323415824D-fructose+builds acid from
43234506227N-acetylglucosamine+builds acid from
4323417306maltose+builds acid from
4323417716lactose+builds acid from
4323428053melibiose+builds acid from
4323417992sucrose+builds acid from
4323427082trehalose+builds acid from
432346731melezitose+builds acid from
4323416634raffinose+builds acid from
4323432528turanose+builds acid from
4323428017starch-builds acid from
4323427613amygdalin-builds acid from
4323418305arbutin-builds acid from
4323417108D-arabinose-builds acid from
4323417057cellobiose-builds acid from
4323416899D-mannitol-builds acid from
4323416988D-ribose-builds acid from
4323416443D-tagatose-builds acid from
4323465327D-xylose-builds acid from
432344853esculin-builds acid from
4323428066gentiobiose-builds acid from
4323428087glycogen-builds acid from
4323415443inulin-builds acid from
4323418287L-fucose-builds acid from
4323465328L-xylose-builds acid from
43234320061methyl alpha-D-glucopyranoside-builds acid from
43234potassium 5-dehydro-D-gluconate-builds acid from
4323432032potassium gluconate-builds acid from
4323417814salicin-builds acid from
4323427941pullulan-builds acid from
43234320055methyl beta-D-glucopyranoside-builds acid from
43234esculin ferric citrate-builds acid from
4323417754glycerol-builds acid from
4323416024D-mannose-builds acid from
432345291gelatin-hydrolysis
4323417632nitrate-reduction
43234potassium 2-dehydro-D-gluconate-builds acid from
4323417113erythritol-builds acid from
4323430849L-arabinose-builds acid from
4323415963ribitol-builds acid from
43234methyl alpha-D-xylopyranoside-builds acid from
4323417266L-sorbose-builds acid from
4323462345L-rhamnose-builds acid from
4323416813galactitol-builds acid from
4323417268myo-inositol-builds acid from
4323417924D-sorbitol-builds acid from
4323443943methyl alpha-D-mannoside-builds acid from
4323417151xylitol-builds acid from
4323462318D-lyxose-builds acid from
4323428847D-fucose-builds acid from
4323418333D-arabitol-builds acid from
4323418403L-arabitol-builds acid from

enzymes

@refvalueactivityec
43234esterase (C 4)+
43234esterase Lipase (C 8)+
43234leucine arylamidase+3.4.11.1
43234acid phosphatase+3.1.3.2
43234beta-galactosidase+3.2.1.23
43234alpha-glucosidase+3.2.1.20
43234naphthol-AS-BI-phosphohydrolase+
43234arginine dihydrolase+3.5.3.6
43234tripeptide aminopeptidase+3.4.11.4
43234alkaline phosphatase-3.1.3.1
43234valine arylamidase-
43234alpha-galactosidase-3.2.1.22
43234beta-glucosidase-3.2.1.21
43234N-acetyl-beta-glucosaminidase-3.2.1.52
43234pyrrolidonyl arylamidase-3.4.19.3
43234catalase+1.11.1.6
43234beta-mannosidase-3.2.1.25
43234cytochrome oxidase-1.9.3.1
43234lipase (C 14)-
43234cystine arylamidase-3.4.11.3
43234trypsin-3.4.21.4
43234alpha-chymotrypsin-3.4.21.1
43234beta-glucuronidase-3.2.1.31
43234alpha-mannosidase-3.2.1.24
43234alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43234C12:00.9
    43234C14:06
    43234C16:030.9
    43234C17:00.6
    43234C18:09.5
    43234C16:1ω9c5.2
    43234C18:1ω9c36.2
    43234C16:1ω7c / C16:1ω6c0.9
    43234anteiso-C18:0 / C18:2ω6, 9c6.7
    43234C18:1ω7c / C18:1ω6c3.3
  • type of FA analysis: whole cell analysis
  • incubation medium: BHI-sheep blood
  • agar/liquid: agar
  • incubation time: 2
  • software version: Sherlock 4.5
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
42894faeces (rectal swab) of vulture Gyps himalayensisGyps himalayensisTibet-Qinghai plateauChinaCHNAsia
43234rectal swab samples of Gyps himalayensisTibet-Qinghai Plateau, ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Birds
#Host Body Product#Gastrointestinal tract#Feces (Stool)
#Host Body-Site#Gastrointestinal tract#Rectum
#Infection#Patient#Swab

taxonmaps

  • @ref: 69479
  • File name: preview.99_4632.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_124;96_2307;97_2801;98_3478;99_4632&stattab=map
  • Last taxonomy: Actinomyces vulturis subclade
  • 16S sequence: KX360125
  • Sequence Identity:
  • Total samples: 2778
  • soil counts: 77
  • aquatic counts: 164
  • animal counts: 2526
  • plant counts: 11

Safety information

risk assessment

  • @ref: 42894
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 42894
  • description: Actinomyces vulturis strain VUL7 16S ribosomal RNA gene, partial sequence
  • accession: KX360125
  • length: 1456
  • database: ena
  • NCBI tax ID: 1857645

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomyces vulturis VUL7GCA_001687305scaffoldncbi1857645
66792Actinomyces vulturis VUL72791355098draftimg1857645

GC content

@refGC-contentmethod
4323454.4genome sequence analysis
4289454.4sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno97.012no
gram-positiveyes93.747yes
anaerobicno85.282yes
aerobicno94.84yes
halophileno85.714no
spore-formingno95.224no
glucose-utilyes88.095no
thermophileno91.181no
motileno91.267yes
glucose-fermentyes76.666no

External links

@ref: 42894

culture collection no.: DSM 103437, CGMCC 4.7366

straininfo link

  • @ref: 96593
  • straininfo: 404005

literature

  • topic: Phylogeny
  • Pubmed-ID: 28629509
  • title: Actinomyces vulturis sp. nov., isolated from Gyps himalayensis.
  • authors: Meng X, Lu S, Wang Y, Lai XH, Wen Y, Jin D, Yang J, Bai X, Zhang G, Pu J, Lan R, Xu J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001851
  • year: 2017
  • mesh: Actinomyces/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Falconiformes/*microbiology, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rectum/microbiology, Sequence Analysis, DNA, Tibet, Ubiquinone/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
42894Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103437Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103437)
43234Xiangli Meng, Shan Lu, Yiting Wang, Xin-He Lai, Yumeng Wen, Dong Jin, Jing Yang, Xiangning Bai, Gui Zhang, Ji Pu, Ruiting Lan and Jianguo XuActinomyces vulturis sp. nov., isolated from Gyps himalayensis10.1099/ijsem.0.001851IJSEM 67: 1720-1726 201728629509
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
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/
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
96593Reimer, 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-ID404005.1