Strain identifier
BacDive ID: 130232
Type strain: 
Species: Paraburkholderia fungorum
Strain Designation: PNG-April
Strain history: <- A. Rusch, Southern Illinois University Carbondale <- S. Islam; PNG-April
NCBI tax ID(s): 1441714 (species)
version 8.1 (current version)
General
@ref: 21543
BacDive-ID: 130232
DSM-Number: 28142
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Paraburkholderia fungorum PNG-April is a mesophilic, motile bacterium that was isolated from arsenic-rich shallow-sea hydrothermal area.
NCBI tax id
- NCBI tax id: 1441714
- Matching level: species
strain history
- @ref: 21543
- history: <- A. Rusch, Southern Illinois University Carbondale <- S. Islam; PNG-April
doi: 10.13145/bacdive130232.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Burkholderiaceae
- genus: Paraburkholderia
- species: Paraburkholderia fungorum
- full scientific name: Paraburkholderia fungorum (Coenye et al. 2001) Sawana et al. 2015
synonyms
@ref synonym 20215 Burkholderia fungorum 20215 Paraburkholderia insulsa 20215 Burkholderia insulsa
@ref: 21543
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiaceae
genus: Paraburkholderia
species: Paraburkholderia insulsa
full scientific name: Paraburkholderia insulsa (Rusch et al. 2015) Dobritsa and Samadpour 2016
strain designation: PNG-April
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.227 | |
| 69480 | 99.995 | negative |
colony morphology
- @ref: 21543
- incubation period: 1-2 days
Culture and growth conditions
culture medium
- @ref: 21543
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
- @ref: 21543
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.987 |
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 | 16024 | D-mannose | + | assimilation |
| 68369 | 30849 | L-arabinose | + | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 21543 | catalase | + | 1.11.1.6 |
| 21543 | cytochrome-c oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 21543 | + | - | - | - | - | +/- | - | + | + | + | + | +/- | + | - | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
- @ref: 21543
- sample type: arsenic-rich shallow-sea hydrothermal area
- geographic location: Ambitle Island, Tutum Bay (04°05' S 153° 33' E)
- country: Papua New Guinea
- origin.country: PNG
- continent: Australia and Oceania
- latitude: -4.0833
- longitude: 153.55
isolation source categories
| Cat1 | Cat2 |
|---|---|
| #Environmental | #Aquatic |
| #Climate | #Hot |
taxonmaps
- @ref: 69479
- File name: preview.99_1264.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_173;97_187;98_381;99_1264&stattab=map
- Last taxonomy: Burkholderiaceae
- 16S sequence: KF733462
- Sequence Identity:
- Total samples: 30294
- soil counts: 15481
- aquatic counts: 4252
- animal counts: 6757
- plant counts: 3804
Safety information
risk assessment
- @ref: 21543
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21543
- description: Burkholderia insulsa strain PNG-April 16S ribosomal RNA gene, partial sequence
- accession: KF733462
- length: 1414
- database: ena
- NCBI tax ID: 1441714
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Paraburkholderia fungorum LMG 28183 | GCA_003002115 | contig | ncbi | 134537 |
| 66792 | Paraburkholderia insulsa strain LMG 28183 | 1441714.3 | wgs | patric | 1441714 |
| 66792 | Pseudomonas sp. DSM 28142 | 1615675.3 | wgs | patric | 1441714 |
| 66792 | Paraburkholderia insulsa LMG 28183 | 2708743155 | draft | img | 1441714 |
GC content
- @ref: 21543
- GC-content: 62.0
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 87.321 | no |
| gram-positive | no | 97.704 | no |
| anaerobic | no | 98.92 | no |
| halophile | no | 94.869 | no |
| spore-forming | no | 91.086 | no |
| thermophile | no | 99.644 | no |
| glucose-util | yes | 91.715 | no |
| aerobic | yes | 89.222 | no |
| flagellated | no | 85.966 | no |
| glucose-ferment | no | 89.283 | yes |
External links
@ref: 21543
culture collection no.: DSM 28142, LMG 28183
straininfo link
- @ref: 88774
- straininfo: 392406
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25323596 | Burkholderia insulsa sp. nov., a facultatively chemolithotrophic bacterium isolated from an arsenic-rich shallow marine hydrothermal system. | Rusch A, Islam S, Savalia P, Amend JP | Int J Syst Evol Microbiol | 10.1099/ijs.0.064477-0 | 2014 | *Arsenic, Bacterial Typing Techniques, Base Composition, Burkholderia/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Heterotrophic Processes, Hydrothermal Vents/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Papua New Guinea, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Genetics |
| Phylogeny | 29461181 | Paraburkholderia aromaticivorans sp. nov., an aromatic hydrocarbon-degrading bacterium, isolated from gasoline-contaminated soil. | Lee Y, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002661 | 2018 | Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gasoline/*microbiology, Hydrocarbons, Aromatic/*metabolism, Nucleic Acid Hybridization, Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
| 21543 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28142 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28142) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 68369 | Automatically annotated from API 20NE | |||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 88774 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID392406.1 |