Strain identifier

BacDive ID: 4386

Type strain: Yes

Species: Erwinia amylovora

Strain Designation: S59/5

Strain history: <- ATCC <- R.A. Lelliott, S59/5

NCBI tax ID(s): 1219359 (strain), 552 (species)

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General

@ref: 9175

BacDive-ID: 4386

DSM-Number: 30165

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

description: Erwinia amylovora S59/5 is an aerobe, mesophilic plant pathogen that was isolated from pear .

NCBI tax id

NCBI tax idMatching level
552species
1219359strain

strain history

  • @ref: 9175
  • history: <- ATCC <- R.A. Lelliott, S59/5

doi: 10.13145/bacdive4386.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Erwiniaceae
  • genus: Erwinia
  • species: Erwinia amylovora
  • full scientific name: Erwinia amylovora (Burrill 1882) Winslow et al. 1920 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Micrococcus amylovorus

@ref: 9175

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Erwiniaceae

genus: Erwinia

species: Erwinia amylovora

full scientific name: Erwinia amylovora (Burrill 1882) Winslow et al. 1920 emend. Hauben et al. 1998

strain designation: S59/5

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 9175
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
9175positivegrowth26mesophilic
44806positivegrowth26mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 44806
  • oxygen tolerance: aerobe

compound production

@refcompound
9175ß lactamase
9175sugars (reducing)

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44806C12:05.412
    44806C14:04.614
    44806C15:00.415
    44806C16:030.316
    44806C17:00.817
    44806C18:00.318
    44806C13:0 ISO 2OH0.313.814
    44806C14:0 3OH/C16:1 ISO I8.715.485
    44806C16:1 ω7c34.415.819
    44806C17:0 CYCLO3.816.888
    44806C18:1 ω7c /12t/9t8.617.824
    44806C18:2 ω6,9c/C18:0 ANTE0.617.724
    44806C19:0 CYCLO ω9c0.218.87
    44806Unidentified113.947
    44806Unidentified0.315.17
    44806unknown 14.5030.514.503
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinent
9175pear (Pyris communis)Pyris communisUnited KingdomGBREurope
44806Pear (Pyrus communis)United KingdomGBREurope

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_717.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_7;97_502;98_576;99_717&stattab=map
  • Last taxonomy: Erwinia
  • 16S sequence: FJ611856
  • Sequence Identity:
  • Total samples: 2160
  • soil counts: 90
  • aquatic counts: 255
  • animal counts: 1537
  • plant counts: 278

Safety information

risk assessment

  • @ref: 9175
  • pathogenicity plant: yes
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Erwinia amylovora strain BC2280 16S ribosomal RNA gene, partial sequenceAF1403411480ena552
20218Erwinia amylovora strain CFBP 1232 16S ribosomal RNA gene, partial sequenceFJ6118561361ena552
20218Erwinia amylovora 16S rRNA gene (strain DSM 30165)AJ2334101497ena552
20218Erwinia amylovora LMG 2024 16S ribosomal RNAZ960881481ena552
20218Erwinia amylovora gene for 16S rRNA, partial sequence, strain: NBRC 12687AB6803171465ena552
20218Erwinia amylovora gene for 16S ribosomal RNA, partial sequence, strain: NCPPB683AB2428771110ena552

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Erwinia amylovora ATCC 15580GCA_017161565completencbi552
66792Erwinia amylovora NBRC 12687 = CFBP 1232 type strain: CFBP 1232GCA_000367625contigncbi1219359
66792Erwinia amylovora NBRC 126871219359.3wgspatric1219359
66792Erwinia amylovora strain ATCC 15580552.412completepatric552
66792Erwinia amylovora NBRC 126872588253839draftimg1219359
66792Erwinia amylovora NBRC 12687 = CFBP 1232GCA_000696075contigncbi1219359

GC content

  • @ref: 9175
  • GC-content: 54.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno57.586no
gram-positiveno98.547no
anaerobicno98.394yes
aerobicno58.61no
halophileno80.372no
spore-formingno94.526no
thermophileno98.458yes
glucose-utilyes95.832no
motileyes89.505no
glucose-fermentyes88.592no

External links

@ref: 9175

culture collection no.: DSM 30165, ATCC 15580, CCM 1114, IFO 12687, NBRC 12687, NCPPB 683, PDDCC 15, PDDCC 1540, CCUG 4906, IFO 13538

straininfo link

  • @ref: 73877
  • straininfo: 2372

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9175Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 30165)https://www.dsmz.de/collection/catalogue/details/culture/DSM-30165
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
44806Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4906)https://www.ccug.se/strain?id=4906
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)
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
73877Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2372.1StrainInfo: A central database for resolving microbial strain identifiers