Strain identifier

BacDive ID: 1935

Type strain: Yes

Species: Robbsia andropogonis

Strain history: CIP <- 1998, CFBP <- NCPPB <- A.J. Ullstrup

NCBI tax ID(s): 28092 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 3623

BacDive-ID: 1935

DSM-Number: 9511

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

description: Robbsia andropogonis DSM 9511 is an obligate aerobe, mesophilic, motile plant pathogen that was isolated from Sorghum vulgare.

NCBI tax id

  • NCBI tax id: 28092
  • Matching level: species

strain history

@refhistory
3623<- NCPPB <- A.J. Ullstrup
67770LMG 2129 <-- NCPPB 934 <-- A. J. Ullstrup.
116378CIP <- 1998, CFBP <- NCPPB <- A.J. Ullstrup

doi: 10.13145/bacdive1935.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Robbsia
  • species: Robbsia andropogonis
  • full scientific name: Robbsia andropogonis (Smith 1911) Lopes-Santos et al. 2017
  • synonyms

    @refsynonym
    20215Pseudomonas andropogonis
    20215Burkholderia andropogonis
    20215Bacterium woodsii
    20215Pseudomonas woodsii
    20215Paraburkholderia andropogonis
    20215Bacterium andropogoni

@ref: 3623

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Robbsia

species: Robbsia andropogonis

full scientific name: Robbsia andropogonis (Smith 1911) Lopes-Santos et al. 2017

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.412
6948099.998negative
116378yesnegativerod-shaped

pigmentation

  • @ref: 116378
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3623REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
41960MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116378CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
3623positivegrowth28mesophilic
41960positivegrowth30mesophilic
67770positivegrowth30mesophilic
116378positivegrowth25-41
116378nogrowth5psychrophilic
116378nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116378
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
116378NaClpositivegrowth0-2 %
116378NaClnogrowth4 %
116378NaClnogrowth6 %
116378NaClnogrowth8 %
116378NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
11637816947citrate-carbon source
1163784853esculin-hydrolysis
11637817632nitrate-reduction
11637816301nitrite-reduction
11637817632nitrate-respiration

antibiotic resistance

  • @ref: 116378
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11637835581indoleno

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

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
68369cytochrome oxidase-1.9.3.1
68369gelatinase-
68369arginine dihydrolase-3.5.3.6
116378oxidase-
116378beta-galactosidase+3.2.1.23
116378alcohol dehydrogenase-1.1.1.1
116378gelatinase-
116378amylase-
116378DNase-
116378caseinase-3.4.21.50
116378catalase+1.11.1.6
116378tween esterase-
116378lecithinase-
116378lipase-
116378lysine decarboxylase-4.1.1.18
116378ornithine decarboxylase-4.1.1.17
116378protease-
116378tryptophan deaminase-
116378urease+3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    65614C14:04.814
    65614C16:014.216
    65614C14:0 3OH/C16:1 ISO I3.615.485
    65614C16:0 2OH4.917.233
    65614C16:0 3OH5.117.52
    65614C16:1 2OH3.617.047
    65614C16:1 ω5c0.515.908
    65614C16:1 ω7c18.515.819
    65614C17:0 CYCLO616.888
    65614C18:1 2OH1.619.088
    65614C18:1 ω7c /12t/9t24.317.824
    65614C18:2 ω6,9c/C18:0 ANTE0.217.724
    65614C19:0 CYCLO ω8c10.818.9
    65614Unidentified0.317.984
    65614Unidentified0.518.066
    65614Unidentified0.718.834
    65614Unidentified0.419.596
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116378-+++-+----++-+------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
3623----++-+++++-----++/---
3623-------+++++-----+---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116378+++-+------+-+-----++-----+----+++--++-+---++---+++--+++--+---+++--------+-+---++--------+++++-+--+

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
3623Sorghum vulgareSorghum vulgareUSAUSANorth America
67770Sorghum bicolorSorghum bicolor
116378Sorghum vulgareUnited States of AmericaUSANorth America1961

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_3296.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_1719;97_2058;98_2528;99_3296&stattab=map
  • Last taxonomy: Burkholderiaceae
  • 16S sequence: JX986957
  • Sequence Identity:
  • Total samples: 7073
  • soil counts: 1091
  • aquatic counts: 1003
  • animal counts: 1710
  • plant counts: 3269

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
3623yes1Risk group (German classification)
1163781Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Burkholderia andropogonis DNA for 16S ribosomal RNA, 23S ribosomal RNA, partial sequenceD87085681ena28092
3623P.andropogonis 16S ribosomal RNAX670371466ena28092
3623Burkholderia andropogonis 16S ribosomal RNA gene, partial sequenceJX9869571483ena28092
67770Burkholderia andropogonis strain IBSBF199 16S ribosomal RNA gene, partial sequenceKM0832641105ena28092

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Robbsia andropogonis LMG 2129GCA_902833845scaffoldncbi28092
66792Burkholderia andropogonis strain ICMP280728092.6wgspatric28092
66792Robbsia andropogonis strain LMG 212928092.8wgspatric28092
66792Robbsia andropogonis ICMP28072627853839draftimg28092
67770Robbsia andropogonis ICMP2807GCA_000970345contigncbi28092

GC content

@refGC-contentmethod
362358.92sequence analysis
6777058.92genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno75.623no
gram-positiveno98.075no
anaerobicno98.856no
aerobicyes89.131no
halophileno93.911no
spore-formingno93.301no
thermophileno98.585yes
glucose-utilyes89.855yes
motileyes90.08no
glucose-fermentno85.18no

External links

@ref: 3623

culture collection no.: DSM 9511, ATCC 23061, CCUG 32772, CFBP 2421, CIP 105771, ICMP 2807, JCM 10487, LMG 2129, NCPPB 934, NRRL B-14296, BCRC 12861, CCUG 41876, KACC 10474, KCTC 2963

straininfo link

  • @ref: 71580
  • straininfo: 3922

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny7639998Construction of species-specific primers for Pseudomonas andropogonis based on 16S rDNA sequences.Bagsic RD, Fegan M, Li X, Hayward ACLett Appl Microbiol10.1111/j.1472-765x.1995.tb01013.x1995Base Sequence, *DNA Primers, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Polymerase Chain Reaction/*methods, Pseudomonas/*genetics/isolation & purification, RNA, Ribosomal, 16S/*genetics, Sensitivity and Specificity, Sequence Alignment, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Species SpecificityGenetics
Phylogeny11211258Genotypic and chemotaxonomic evidence for the reclassification of Pseudomonas woodsii (Smith 1911) Stevens 1925 as Burkholderia andropogonis (Smith 1911) Gillis et al. 1995.Coenye T, Laevens S, Gillis M, Vandamme PInt J Syst Evol Microbiol10.1099/00207713-51-1-1832001Bacterial Proteins/analysis, Burkholderia/chemistry/*classification/genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Molecular Sequence Data, Pseudomonas/chemistry/*classification/genetics, RNA, Ribosomal, 16S/geneticsGenetics
Genetics25977431Draft Genome Sequence of Burkholderia andropogonis Type Strain ICMP2807, Isolated from Sorghum bicolor.Lopes-Santos L, Castro DB, Ottoboni LM, Park D, Weir BS, Destefano SAGenome Announc10.1128/genomeA.00455-152015Phylogeny
Phylogeny31851603Pararobbsia silviterrae gen. nov., sp. nov., isolated from forest soil and reclassification of Burkholderia alpina as Pararobbsia alpina comb. nov.Lin QH, Lv YY, Gao ZH, Qiu LHInt J Syst Evol Microbiol10.1099/ijsem.0.0039322020Bacterial Typing Techniques, Base Composition, Burkholderia/classification, Burkholderiaceae/*classification/isolation & purification, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
35253486First report of bacterial leaf spot disease on Pueraria montana var. thomsonii caused by Robbsia andropogonis in China.Cui X, Cai Y, Chen R, Liu QPlant Dis10.1094/PDIS-12-21-2848-PDN2022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3623Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9511)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9511
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
41960Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17827
65614Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32772)https://www.ccug.se/strain?id=32772
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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
71580Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3922.1StrainInfo: A central database for resolving microbial strain identifiers
116378Curators of the CIPCollection of Institut Pasteur (CIP 105771)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105771