Strain identifier
BacDive ID: 1935
Type strain:
Species: Robbsia andropogonis
Strain history: CIP <- 1998, CFBP <- NCPPB <- A.J. Ullstrup
NCBI tax ID(s): 28092 (species)
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
@ref | history |
---|---|
3623 | <- NCPPB <- A.J. Ullstrup |
67770 | LMG 2129 <-- NCPPB 934 <-- A. J. Ullstrup. |
116378 | CIP <- 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
@ref synonym 20215 Pseudomonas andropogonis 20215 Burkholderia andropogonis 20215 Bacterium woodsii 20215 Pseudomonas woodsii 20215 Paraburkholderia andropogonis 20215 Bacterium 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
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | yes | 95.412 | ||
69480 | 99.998 | negative | ||
116378 | yes | negative | rod-shaped |
pigmentation
- @ref: 116378
- production: no
- name: Pyocyanin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3623 | REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) | yes | https://mediadive.dsmz.de/medium/1a | Name: 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 |
41960 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
116378 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3623 | positive | growth | 28 | mesophilic |
41960 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
116378 | positive | growth | 25-41 | |
116378 | no | growth | 5 | psychrophilic |
116378 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 116378
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.997 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
116378 | NaCl | positive | growth | 0-2 % |
116378 | NaCl | no | growth | 4 % |
116378 | NaCl | no | growth | 6 % |
116378 | NaCl | no | growth | 8 % |
116378 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68369 | 25115 | malate | + | assimilation |
68369 | 17128 | adipate | - | assimilation |
68369 | 27689 | decanoate | - | assimilation |
68369 | 24265 | gluconate | - | assimilation |
68369 | 17306 | maltose | - | assimilation |
68369 | 59640 | N-acetylglucosamine | - | assimilation |
68369 | 16899 | D-mannitol | + | assimilation |
68369 | 16024 | D-mannose | + | assimilation |
68369 | 30849 | L-arabinose | + | assimilation |
68369 | 17634 | D-glucose | + | assimilation |
68369 | 5291 | gelatin | - | hydrolysis |
68369 | 29016 | arginine | - | hydrolysis |
68369 | 17634 | D-glucose | - | fermentation |
68369 | 27897 | tryptophan | - | energy source |
68369 | 17632 | nitrate | - | reduction |
116378 | 16947 | citrate | - | carbon source |
116378 | 4853 | esculin | - | hydrolysis |
116378 | 17632 | nitrate | - | reduction |
116378 | 16301 | nitrite | - | reduction |
116378 | 17632 | nitrate | - | 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
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68369 | 35581 | indole | no |
116378 | 35581 | indole | no |
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68369 | cytochrome oxidase | - | 1.9.3.1 |
68369 | gelatinase | - | |
68369 | arginine dihydrolase | - | 3.5.3.6 |
116378 | oxidase | - | |
116378 | beta-galactosidase | + | 3.2.1.23 |
116378 | alcohol dehydrogenase | - | 1.1.1.1 |
116378 | gelatinase | - | |
116378 | amylase | - | |
116378 | DNase | - | |
116378 | caseinase | - | 3.4.21.50 |
116378 | catalase | + | 1.11.1.6 |
116378 | tween esterase | - | |
116378 | lecithinase | - | |
116378 | lipase | - | |
116378 | lysine decarboxylase | - | 4.1.1.18 |
116378 | ornithine decarboxylase | - | 4.1.1.17 |
116378 | protease | - | |
116378 | tryptophan deaminase | - | |
116378 | urease | + | 3.5.1.5 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 65614 C14:0 4.8 14 65614 C16:0 14.2 16 65614 C14:0 3OH/C16:1 ISO I 3.6 15.485 65614 C16:0 2OH 4.9 17.233 65614 C16:0 3OH 5.1 17.52 65614 C16:1 2OH 3.6 17.047 65614 C16:1 ω5c 0.5 15.908 65614 C16:1 ω7c 18.5 15.819 65614 C17:0 CYCLO 6 16.888 65614 C18:1 2OH 1.6 19.088 65614 C18:1 ω7c /12t/9t 24.3 17.824 65614 C18:2 ω6,9c/C18:0 ANTE 0.2 17.724 65614 C19:0 CYCLO ω8c 10.8 18.9 65614 Unidentified 0.3 17.984 65614 Unidentified 0.5 18.066 65614 Unidentified 0.7 18.834 65614 Unidentified 0.4 19.596 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116378 | - | + | + | + | - | + | - | - | - | - | + | + | - | + | - | - | - | - | - | - |
API 20NE
@ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3623 | - | - | - | - | + | + | - | + | + | + | + | + | - | - | - | - | - | + | +/- | - | - |
3623 | - | - | - | - | - | - | - | + | + | + | + | + | - | - | - | - | - | + | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116378 | + | + | + | - | + | - | - | - | - | - | - | + | - | + | - | - | - | - | - | + | + | - | - | - | - | - | + | - | - | - | - | + | + | + | - | - | + | + | - | + | - | - | - | + | + | - | - | - | + | + | + | - | - | + | + | + | - | - | + | - | - | - | + | + | + | - | - | - | - | - | - | - | - | + | - | + | - | - | - | + | + | - | - | - | - | - | - | - | - | + | + | + | + | + | - | + | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
3623 | Sorghum vulgare | Sorghum vulgare | USA | USA | North America | |
67770 | Sorghum bicolor | Sorghum bicolor | ||||
116378 | Sorghum vulgare | United States of America | USA | North America | 1961 |
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
@ref | pathogenicity plant | biosafety level | biosafety level comment |
---|---|---|---|
3623 | yes | 1 | Risk group (German classification) |
116378 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Burkholderia andropogonis DNA for 16S ribosomal RNA, 23S ribosomal RNA, partial sequence | D87085 | 681 | ena | 28092 |
3623 | P.andropogonis 16S ribosomal RNA | X67037 | 1466 | ena | 28092 |
3623 | Burkholderia andropogonis 16S ribosomal RNA gene, partial sequence | JX986957 | 1483 | ena | 28092 |
67770 | Burkholderia andropogonis strain IBSBF199 16S ribosomal RNA gene, partial sequence | KM083264 | 1105 | ena | 28092 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Robbsia andropogonis LMG 2129 | GCA_902833845 | scaffold | ncbi | 28092 |
66792 | Burkholderia andropogonis strain ICMP2807 | 28092.6 | wgs | patric | 28092 |
66792 | Robbsia andropogonis strain LMG 2129 | 28092.8 | wgs | patric | 28092 |
66792 | Robbsia andropogonis ICMP2807 | 2627853839 | draft | img | 28092 |
67770 | Robbsia andropogonis ICMP2807 | GCA_000970345 | contig | ncbi | 28092 |
GC content
@ref | GC-content | method |
---|---|---|
3623 | 58.92 | sequence analysis |
67770 | 58.92 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 75.623 | no |
gram-positive | no | 98.075 | no |
anaerobic | no | 98.856 | no |
aerobic | yes | 89.131 | no |
halophile | no | 93.911 | no |
spore-forming | no | 93.301 | no |
thermophile | no | 98.585 | yes |
glucose-util | yes | 89.855 | yes |
motile | yes | 90.08 | no |
glucose-ferment | no | 85.18 | no |
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
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 7639998 | Construction of species-specific primers for Pseudomonas andropogonis based on 16S rDNA sequences. | Bagsic RD, Fegan M, Li X, Hayward AC | Lett Appl Microbiol | 10.1111/j.1472-765x.1995.tb01013.x | 1995 | Base 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 Specificity | Genetics |
Phylogeny | 11211258 | Genotypic 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 P | Int J Syst Evol Microbiol | 10.1099/00207713-51-1-183 | 2001 | Bacterial 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/genetics | Genetics |
Genetics | 25977431 | Draft Genome Sequence of Burkholderia andropogonis Type Strain ICMP2807, Isolated from Sorghum bicolor. | Lopes-Santos L, Castro DB, Ottoboni LM, Park D, Weir BS, Destefano SA | Genome Announc | 10.1128/genomeA.00455-15 | 2015 | Phylogeny | |
Phylogeny | 31851603 | Pararobbsia 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 LH | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003932 | 2020 | Bacterial 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/chemistry | Transcriptome |
35253486 | First report of bacterial leaf spot disease on Pueraria montana var. thomsonii caused by Robbsia andropogonis in China. | Cui X, Cai Y, Chen R, Liu Q | Plant Dis | 10.1094/PDIS-12-21-2848-PDN | 2022 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3623 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9511) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9511 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
41960 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/17827 | ||||
65614 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 32772) | https://www.ccug.se/strain?id=32772 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68369 | Automatically annotated from API 20NE | |||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
71580 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID3922.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116378 | Curators of the CIP | Collection of Institut Pasteur (CIP 105771) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105771 |