Strain identifier

BacDive ID: 11162

Type strain: Yes

Species: Actinopolymorpha pittospori

Strain history: DSM 45354 <-- C. Franco PIP 143 <-- O. Kaewkla.

NCBI tax ID(s): 648752 (species)

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General

@ref: 16346

BacDive-ID: 11162

DSM-Number: 45354

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic

description: Actinopolymorpha pittospori DSM 45354 is a spore-forming, mesophilic bacterium that was isolated from surface-sterilized leave of the Australian native apricot tree Pittosporum phylliraeoides.

NCBI tax id

  • NCBI tax id: 648752
  • Matching level: species

strain history

@refhistory
16346<- C. Franco, Flinders Univ., Bedford Park, South Australia; PIP 143 <- O. Kaewkla
67770DSM 45354 <-- C. Franco PIP 143 <-- O. Kaewkla.

doi: 10.13145/bacdive11162.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Propionibacteriales
  • family: Actinopolymorphaceae
  • genus: Actinopolymorpha
  • species: Actinopolymorpha pittospori
  • full scientific name: Actinopolymorpha pittospori Kaewkla and Franco 2011

@ref: 16346

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinopolymorphaceae

genus: Actinopolymorpha

species: Actinopolymorpha pittospori

full scientific name: Actinopolymorpha pittospori Kaewkla and Franco 2011

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no90.033
69480100positive

colony morphology

@refcolony colormedium used
69385Beige (1001)ISP 7
69385Ivory (1014)ISP 5
69385Light ivory (1015)ISP 2
69385Light ivory (1015)ISP 6
69385Olive grey (7002)suter with tyrosine
69385Olive yellow (1020)suter without tyrosine
69385Oyster white (1013)ISP 3
69385Oyster white (1013)ISP 4

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69385noAerial myceliumISP 2
69385noAerial myceliumISP 3
69385noAerial myceliumISP 4
69385noAerial myceliumISP 5
69385noAerial myceliumISP 6
69385noAerial myceliumISP 7
69385noAerial myceliumsuter with tyrosine
69385noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69385yesMelanin
69385yessoluble pigmentOcher brown (8001), beige (1001)

multimedia

@refmultimedia contentcaptionintellectual property rights
16346https://www.dsmz.de/microorganisms/photos/DSM_45354.jpgMedium 65 28°C© Leibniz-Institut DSMZ
69385DSM_45354_image3.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69385DSM_45354_image4.jpegPlates (65, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16346GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
16346GPHF-MEDIUM (DSMZ Medium 553)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium553.pdf

culture temp

@refgrowthtypetemperaturerange
16346positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes90
69480yes96.578

halophily

  • @ref: 69385
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H6), MK-10(H4), MK-10(H8)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6938522599arabinose+growth
6938562968cellulose+/-growth
6938528757fructose+growth
6938517234glucose+growth
6938517268inositol+growth
6938537684mannose+/-growth
6938516634raffinose+growth
6938526546rhamnose+growth
6938517992sucrose+growth
6938518222xylose+growth
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

enzymes

@refvalueactivityec
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
68382alkaline phosphatase+3.1.3.1
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase+3.2.1.24

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69385-+-+-++++-+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69385++/-+/-+/-+++/-+/-+/-+/-+/-+/-+-+++++/-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
16346surface-sterilized leave of the Australian native apricot tree Pittosporum phylliraeoidesPittosporum phylliraeoidesAdelaide, Flinders University campusAustraliaAUSAustralia and Oceania
67770Leaves of Pittosporum phylliraeoides growing on the campus of Flinders Univ.Pittosporum phylliraeoidesAdelaide, South AustraliaAustraliaAUSAustralia and Oceania

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Leaf (Phyllosphere)
#Host Body-Site#Plant#Sterilized plant part

taxonmaps

  • @ref: 69479
  • File name: preview.99_136881.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_779;96_20597;97_25630;98_59531;99_136881&stattab=map
  • Last taxonomy: Actinopolymorpha pittospori
  • 16S sequence: FJ805429
  • Sequence Identity:
  • Total samples: 933
  • soil counts: 786
  • aquatic counts: 37
  • animal counts: 47
  • plant counts: 63

Safety information

risk assessment

  • @ref: 16346
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16346
  • description: Actinopolymorpha pittospori strain PIP 143 16S ribosomal RNA gene, partial sequence
  • accession: FJ805429
  • length: 1407
  • database: ena
  • NCBI tax ID: 648752

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinopolymorpha pittospori DSM 45354GCA_014873875contigncbi648752
66792Actinopolymorpha pittospori strain DSM 45354648752.3wgspatric648752
66792Actinopolymorpha pittospori DSM 453542880531579draftimg648752

GC content

  • @ref: 16346
  • GC-content: 69.6
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes90no
gram-positiveyes89.659no
anaerobicno98.861no
halophileno91.541no
spore-formingyes78.473no
glucose-utilyes85.772yes
thermophileno97.442yes
flagellatedno98.534no
aerobicyes93.697no
motileno90.712no
glucose-fermentno88.013no

External links

@ref: 16346

culture collection no.: DSM 45354, ACM 5288, JCM 18294, NRRL B-24810, PIP 143

straininfo link

  • @ref: 80411
  • straininfo: 403178

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21148677Actinopolymorpha pittospori sp. nov., an endophyte isolated from surface-sterilized leaves of an apricot tree (Pittosporum phylliraeoides).Kaewkla O, Franco CMMInt J Syst Evol Microbiol10.1099/ijs.0.029579-02010Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Australia, Base Composition, DNA, Bacterial/genetics, Endophytes/*classification/genetics/*isolation & purification/metabolism, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, Plant Leaves/*microbiology, Prunus/*microbiology, RNA, Ribosomal, 16S/geneticsMetabolism
Phylogeny26297147Tenggerimyces mesophilus gen. nov., sp. nov., a member of the family Nocardioidaceae.Sun HM, Zhang T, Wei YZ, Liu HY, Yu LY, Zhang YQInt J Syst Evol Microbiol10.1099/ijsem.0.0004212015Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Desert Climate, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitle
16346Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45354)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45354
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
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69385Wink, J.https://cdn.dsmz.de/wink/DSM%2045354.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
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
80411Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403178.1StrainInfo: A central database for resolving microbial strain identifiers