Strain identifier

BacDive ID: 4997

Type strain: Yes

Species: Pantoea ananatis

Strain Designation: EB9

Strain history: CIP <- 1997, CFBP <- D.W. Dye: strain EB9 <- C.F. Robbs: strain ENA318

NCBI tax ID(s): 1378093 (strain), 553 (species)

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General

@ref: 7210

BacDive-ID: 4997

DSM-Number: 17873

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile, plant pathogen

description: Pantoea ananatis EB9 is a facultative anaerobe, mesophilic, motile plant pathogen that was isolated from Ananas comosus.

NCBI tax id

NCBI tax idMatching level
1378093strain
553species

strain history

@refhistory
7210<- NCPPB
67770Takigawa EhCOT-3.
116371CIP <- 1997, CFBP <- D.W. Dye: strain EB9 <- C.F. Robbs: strain ENA318

doi: 10.13145/bacdive4997.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Erwiniaceae
  • genus: Pantoea
  • species: Pantoea ananatis
  • full scientific name: Pantoea ananatis corrig. (Serrano 1928) Mergaert et al. 1993

  • synonyms

    @refsynonym
    20215Erwinia ananatis
    20215Erwinia uredovora
    20215Xanthomonas uredovorus
    20215Erwinia ananas
    20215Pantoea ananas

@ref: 7210

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Erwiniaceae

genus: Pantoea

species: Pantoea ananatis

full scientific name: Pantoea ananatis (Serrano 1928) Mergaert et al. 1993

strain designation: EB9

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.736
6948099.987negative
116371yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7210TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
38540MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116371CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
7210positivegrowth30mesophilic
38540positivegrowth30mesophilic
67770positivegrowth30mesophilic
116371positivegrowth10-37
116371nogrowth5psychrophilic
116371nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116371
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.926

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol+builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371turanose-builds acid from32528
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371arbutin+builds acid from18305
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside+builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
68368nitrate-reduction17632
68368L-arabinose+fermentation30849
68368amygdalin+fermentation27613
68368melibiose+fermentation28053
68368sucrose+fermentation17992
68368L-rhamnose+fermentation62345
68368sorbitol+fermentation30911
68368myo-inositol+fermentation17268
68368D-mannitol+fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan+energy source27897
68368urea-hydrolysis16199
68368citrate+assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
116371mannitol+fermentation29864
116371citrate+carbon source16947
116371glucose+fermentation17234
116371lactose+fermentation17716
116371nitrate+reduction17632
116371nitrite-reduction16301
116371malonate-assimilation15792
116371sodium thiosulfate-builds gas from132112
116371glucose+degradation17234

antibiotic resistance

  • @ref: 116371
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836817997dinitrogenno
6836816301nitriteno
6836815688acetoinyes
6836835581indoleyes
6836816136hydrogen sulfideno
11637135581indoleyes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin+
6836835581indole+
11637115688acetoin+
11637117234glucose+

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
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+
68382acid phosphatase+3.1.3.2
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
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68368cytochrome oxidase-1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23
116371oxidase-
116371beta-galactosidase+3.2.1.23
116371alcohol dehydrogenase-1.1.1.1
116371gelatinase-
116371catalase+1.11.1.6
116371lysine decarboxylase-4.1.1.18
116371ornithine decarboxylase-4.1.1.17
116371phenylalanine ammonia-lyase-4.3.1.24
116371tryptophan deaminase-
116371urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116371-+++-+----++-+------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOXNO2N2
7210+---+---++-+++++++++---
7210+---+---++-+++++++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116371+--+++---++++-+-+/-+++-++/-++/-+/-++++++--+---+/--+/----+-++/-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116371+++++-++-+++++++++++++-+--+----+++--+-----+++----+++-+++++-++-+-+--------+-+--+++-+---+--++++++---+

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
7210Ananas comosusAnanas comosusBrazilBRAMiddle and South America
116371Food, Pineapple comususBrazilBRAMiddle and South America1965

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_727.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_310;97_507;98_583;99_727&stattab=map
  • Last taxonomy: Pantoea ananatis
  • 16S sequence: Z96081
  • Sequence Identity:
  • Total samples: 8803
  • soil counts: 845
  • aquatic counts: 764
  • animal counts: 5045
  • plant counts: 2149

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
7210yes1Risk group (German classification)
1163711Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pantoea ananatis gene for 16S ribosomal RNA, partial sequenceAB0047581445ena553
20218Pantoea ananatis strain LMG 2665 16S ribosomal RNA gene, partial sequenceFJ6118151387ena553
20218Erwinia ananas 16S ribosomal RNA gene, partial sequenceU801961455ena553
7210Pantoea ananas LMG 2665 16S ribosomal RNAZ960811495ena553
67770Pantoea ananatis JCM 6986 gene for 16S ribosomal RNA, partial sequenceLC4621851462ena553

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pantoea ananatis LMG 2665GCA_000710035contigncbi1378093
66792Pantoea ananatis LMG 2665GCA_000661975scaffoldncbi1378093
66792Pantoea ananatis LMG 26651378093.4wgspatric1378093
66792Pantoea ananatis LMG 26651378093.3wgspatric1378093
66792Pantoea ananatis LMG26652585427963draftimg1378093
66792Pantoea ananatis LMG 26652576861011draftimg1378093

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes91.558no
flagellatedno62.118no
gram-positiveno97.948no
anaerobicno99.091no
halophileno83.896no
spore-formingno94.424no
glucose-utilyes95.954no
aerobicno65.476no
thermophileno99.333yes
glucose-fermentyes90.17no

External links

@ref: 7210

culture collection no.: DSM 17873, ATCC 33244, JCM 6986, LMG 2665, NCPPB 1846, CIP 105207, ICMP 1850, CFBP 3612, ENA 318

straininfo link

  • @ref: 74492
  • straininfo: 2406

literature

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Genetics24855311Draft Genome Sequence of Pantoea ananatis Strain LMG 2665T, a Bacterial Pathogen of Pineapple Fruitlets.Adam Z, Tambong JT, Lewis CT, Levesque CA, Chen W, Bromfield ES, Khan IU, Xu RGenome Announc10.1128/genomeA.00489-142014
Pathogenicity25411959Pantoea ananatis Utilizes a Type VI Secretion System for Pathogenesis and Bacterial Competition.Shyntum DY, Theron J, Venter SN, Moleleki LN, Toth IK, Coutinho TAMol Plant Microbe Interact10.1094/MPMI-07-14-0219-R2015Bacterial Secretion Systems/*genetics/physiology, Gene Knockout Techniques, Genes, Bacterial, Host-Pathogen Interactions/*genetics/physiology, Multigene Family, Mutation, Onions/microbiology, Pantoea/*genetics/*pathogenicity/physiology, Plant Diseases/*microbiology, Virulence/*genetics/physiology
Genetics27510302Characterization of two LuxI/R homologs in Pantoea ananatis LMG 2665(T).Sibanda S, Theron J, Shyntum DY, Moleleki LN, Coutinho TACan J Microbiol10.1139/cjm-2016-01432016Bacterial Proteins/*genetics, *Biofilms, Genome, Bacterial/genetics, Mutation/genetics, Pantoea/*genetics/*pathogenicity, Quorum Sensing/*genetics, Repressor Proteins/*genetics, Trans-Activators/*genetics, Transcription Factors/*genetics
Transcriptome29518982Transcriptome Profiling Reveals the EanI/R Quorum Sensing Regulon in Pantoea Ananatis LMG 2665(T).Sibanda S, Kwenda S, Tanui CK, Shyntum DY, Coutinho TA, Moleleki LNGenes (Basel)10.3390/genes90301482018
30708894First Report of Pantoea beijingensis Induced Soft Rot Disease of Pleurotus nebrodensis in China.Xu F, Liu Y, Ma YW, Wang SX, Zhang DP, Zhao SPlant Dis10.1094/PDIS-11-13-1150-PDN2014
30754492First Report of Leaf Spot Disease of Maize Caused by Pantoea ananatis in Argentina.Alippi AM, Lopez ACPlant Dis10.1094/PDIS-94-4-0487A2010
30754503Grain Discoloration of Rice Caused by Pantoea ananatis (synonym Erwinia uredovora) in China.Yan H, Yu SH, Xie GL, Fang W, Su T, Li BPlant Dis10.1094/PDIS-94-4-0482B2010
31572315Functional Characterization of a Global Virulence Regulator Hfq and Identification of Hfq-Dependent sRNAs in the Plant Pathogen Pantoea ananatis.Shin GY, Schachterle JK, Shyntum DY, Moleleki LN, Coutinho TA, Sundin GWFront Microbiol10.3389/fmicb.2019.020752019
34319767First Report of New Bacterial Leaf Blight of Rice Caused by Pantoea ananatis in Southeast China.Yu L, Yang C, Ji Z, Zeng Y, Liang Y, Hou YPlant Dis10.1094/PDIS-05-21-0988-PDN2021
36222725First report of bacterial leaf streak in sweet corn caused by Pantoea ananatis in southeast China.Zhang N, Li X, Li Y, Lu W, Xie L, Li GPlant Dis10.1094/PDIS-06-22-1465-PDN2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7210Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17873)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17873
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
38540Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17202
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
74492Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2406.1StrainInfo: A central database for resolving microbial strain identifiers
116371Curators of the CIPCollection of Institut Pasteur (CIP 105207)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105207