Strain identifier

BacDive ID: 7517

Type strain: Yes

Species: Acaricomes phytoseiuli

Strain Designation: CSC

Strain history: CIP <- 2006, CCUG <- 2004, DSMZ

NCBI tax ID(s): 1120917 (strain), 291968 (species)

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General

@ref: 5270

BacDive-ID: 7517

DSM-Number: 14247

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped, animal pathogen

description: Acaricomes phytoseiuli CSC is an aerobe, mesophilic, Gram-positive animal pathogen that was isolated from predatory mite Phytoseiulus persimilis.

NCBI tax id

NCBI tax idMatching level
1120917strain
291968species

strain history

@refhistory
5270<- C. Schütte and M. Dicke; CSC <- C. Schütte
67770DSM 14247 <-- C. Schütte and M. Dicke strain CSC.
121819CIP <- 2006, CCUG <- 2004, DSMZ

doi: 10.13145/bacdive7517.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micrococcales
  • family: Micrococcaceae
  • genus: Acaricomes
  • species: Acaricomes phytoseiuli
  • full scientific name: Acaricomes phytoseiuli Pukall et al. 2006

@ref: 5270

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micrococcaceae

genus: Acaricomes

species: Acaricomes phytoseiuli

full scientific name: Acaricomes phytoseiuli Pukall et al. 2006 emend. Nouioui et al. 2018

strain designation: CSC

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31628positive1-1.5 µm0.5-0.8 µmcoccus-shaped
69480no93.56
69480positive100
121819positiverod-shapedno

colony morphology

@refcolony colorincubation periodmedium used
18380Lemon yellow (1012)10-14 daysISP 2
18380Lemon yellow (1012)10-14 daysISP 3
18380Lemon yellow (1012)10-14 daysISP 4
18380Lemon yellow (1012)10-14 daysISP 5
18380Lemon yellow (1012)10-14 daysISP 6
18380Lemon yellow (1012)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
18380noISP 2
18380noISP 3
18380noISP 4
18380noISP 5
18380noISP 6
18380noISP 7

pigmentation

  • @ref: 31628
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_14247_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14247_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14247_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14247_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_14247_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5270TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
18380ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
18380ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
18380ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
18380ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
18380ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
18380ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
40126MEDIUM 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)
121819CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121819CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperaturerange
5270positivegrowth25mesophilic
18380positiveoptimum25mesophilic
31628positivegrowth15-30mesophilic
31628positiveoptimum25mesophilic
40126positivegrowth25mesophilic
58666positivegrowth30mesophilic
67770positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
31628positivegrowth6-9.5alkaliphile
31628positiveoptimum06-08

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31628aerobe
58666aerobe
121819obligate aerobe

spore formation

@refspore formationconfidence
31628no
69481no100
69480no99.996

observation

@refobservation
31628aggregates in chains
67770quinones: MK-10(H2) (MMK-10(H2)), MK-11(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3162823652dextrin+carbon source
3162828757fructose+carbon source
3162817234glucose+carbon source
3162829987glutamate+carbon source
3162817306maltose+carbon source
3162837684mannose+carbon source
3162817992sucrose+carbon source
12181917632nitrate-reduction
12181916301nitrite-reduction
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea+hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 121819
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31628catalase+1.11.1.6
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
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+
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
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase+
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15
121819oxidase-
121819catalase+1.11.1.6
121819urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
18380---+--+--++--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
18380+++++--+-++---++---
121819+++-+--+--+---+-----

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentgeographic location
5270predatory mite Phytoseiulus persimilisPhytoseiulus persimilisNetherlandsNLDEurope
58666From the predatory mite Phytoseiulus persimilis
67770Predatory mite Phytoseiulus persimilisPhytoseiulus persimilis
121819Predatory mite, Phytoseiulus persimilisGermanyDEUEuropeBraunschweig

isolation source categories

  • Cat1: #Host
  • Cat2: #Arthropoda

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
5270yes1Risk group (German classification)
1218191Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5270
  • description: Acaricomes phytoseiuli partial 16S rRNA gene, type strain DSM 14247T
  • accession: AJ812213
  • length: 1478
  • database: ena
  • NCBI tax ID: 291968

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acaricomes phytoseiuli DSM 142471120917.3wgspatric1120917
66792Acaricomes phytoseiuli DSM 14247 test2517572146draftimg1120917
67770Acaricomes phytoseiuli DSM 14247GCA_000376245contigncbi1120917

GC content

@refGC-contentmethod
527057.7
6777062.3genome sequence analysis
6777057.2-58.2high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.859no
flagellatedno97.665no
gram-positiveyes93.663no
anaerobicno99.08no
aerobicyes89.756yes
halophileyes54.14no
spore-formingno94.693yes
thermophileno97.487yes
glucose-utilyes86.441yes
glucose-fermentno88.86yes

External links

@ref: 5270

culture collection no.: DSM 14247, CCUG 49701, NBRC 107788, CIP 109141, JCM 14300

straininfo link

  • @ref: 76962
  • straininfo: 132653

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16449459Acaricomes phytoseiuli gen. nov., sp. nov., isolated from the predatory mite Phytoseiulus persimilis.Pukall R, Schumann P, Schutte C, Gols R, Dicke MInt J Syst Evol Microbiol10.1099/ijs.0.63930-02006Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Micrococcaceae/*classification/genetics/*isolation & purification/physiology, Mites/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
18423485Novel bacterial pathogen Acaricomes phytoseiuli causes severe disease symptoms and histopathological changes in the predatory mite Phytoseiulus persimilis (Acari, Phytoseiidae).Schutte C, Gols R, Kleespies RG, Poitevin O, Dicke MJ Invertebr Pathol10.1016/j.jip.2008.03.0062008Actinobacteria/*physiology, Animals, Female, Gastrointestinal Tract/microbiology/ultrastructure, Gram-Positive Bacterial Infections/*pathology/physiopathology, Microscopy, Electron, Transmission, Mites/*microbiology, Pest Control, Biological/methods, Polymerase Chain Reaction
36321911Detection, Detrimental Effects, and Transmission Pathways of the Pathogenic Bacterium Acaricomes phytoseiuli in Commercial Predatory Mites.Xie Z, Hoffmann AA, Zhang B, Xu XMicrobiol Spectr10.1128/spectrum.02654-222022

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
5270Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14247)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14247
18380Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM14247.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
31628Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2791328776041
40126Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6849
58666Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 49701)https://www.ccug.se/strain?id=49701
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 life28604660 35: 676-683 2017
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
76962Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132653.1StrainInfo: A central database for resolving microbial strain identifiers
121819Curators of the CIPCollection of Institut Pasteur (CIP 109141)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109141