Strain identifier
BacDive ID: 160789
Type strain: 
Species: Pandoraea fibrosis
Strain Designation: 6399
Strain history: <- R. Ee, Univ. of Malaya, Kuala Lumpur, Malaysia; 6399 <- Royal Hobart Hospital, Dept. of Microbiology staff, Tasmania, Australia
NCBI tax ID(s): 1891094 (species)
version 8.1 (current version)
General
@ref: 67726
BacDive-ID: 160789
DSM-Number: 103228
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Pandoraea fibrosis 6399 is a mesophilic, motile bacterium that was isolated from sputumof cystic fibrosis patient.
NCBI tax id
- NCBI tax id: 1891094
- Matching level: species
strain history
- @ref: 67726
- history: <- R. Ee, Univ. of Malaya, Kuala Lumpur, Malaysia; 6399 <- Royal Hobart Hospital, Dept. of Microbiology staff, Tasmania, Australia
doi: 10.13145/bacdive160789.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Burkholderiaceae
- genus: Pandoraea
- species: Pandoraea fibrosis
- full scientific name: Pandoraea fibrosis See-Too et al. 2019
@ref: 67726
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Burkholderiaceae
genus: Pandoraea
species: Pandoraea fibrosis
full scientific name: Pandoraea fibrosis See-Too et al. 2019
strain designation: 6399
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.669 | |
| 69480 | 99.963 | negative |
Culture and growth conditions
culture medium
- @ref: 67726
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
culture temp
- @ref: 67726
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.943 |
| 69481 | no | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 67726
- sample type: sputumof cystic fibrosis patient
- geographic location: Tasmania
- country: Australia
- origin.country: AUS
- continent: Australia and Oceania
- latitude: -42.8819
- longitude: 147.324
taxonmaps
- @ref: 69479
- File name: preview.99_814.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_494;97_563;98_648;99_814&stattab=map
- Last taxonomy: Pandoraea
- 16S sequence: KX712083
- Sequence Identity:
- Total samples: 20583
- soil counts: 6943
- aquatic counts: 4192
- animal counts: 3605
- plant counts: 5843
Sequence information
16S sequences
- @ref: 67726
- description: Pandoraea fibrosis strain 6399 16S ribosomal RNA gene, partial sequence
- accession: KX712083
- length: 1537
- database: ena
- NCBI tax ID: 1891094
Genome sequences
- @ref: 66792
- description: Pandoraea fibrosis 6399
- accession: GCA_000807775
- assembly level: complete
- database: ncbi
- NCBI tax ID: 1891094
GC content
- @ref: 67726
- GC-content: 62.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 90.573 | no |
| motile | yes | 90.573 | no |
| flagellated | no | 64.9 | no |
| flagellated | no | 64.9 | no |
| gram-positive | no | 98.82 | no |
| gram-positive | no | 98.82 | no |
| anaerobic | no | 99.374 | no |
| anaerobic | no | 99.374 | no |
| aerobic | yes | 93.781 | no |
| aerobic | yes | 93.781 | no |
| halophile | no | 91.47 | no |
| halophile | no | 91.47 | no |
| spore-forming | no | 95.357 | no |
| spore-forming | no | 95.357 | no |
| glucose-util | yes | 63.66 | no |
| glucose-util | yes | 63.66 | no |
| thermophile | no | 99.196 | no |
| thermophile | no | 99.196 | no |
| glucose-ferment | no | 89.93 | no |
| glucose-ferment | no | 89.93 | no |
External links
@ref: 67726
culture collection no.: DSM 103228
straininfo link
- @ref: 113004
- straininfo: 408377
literature
- topic: Phylogeny
- Pubmed-ID: 30676309
- title: Pandoraea fibrosis sp. nov., a novel Pandoraea species isolated from clinical respiratory samples.
- authors: See-Too WS, Ambrose M, Malley R, Ee R, Mulcahy E, Manche E, Lazenby J, McEwan B, Pagnon J, Chen JW, Chan KG, Turnbull L, Whitchurch CB, Roddam LF
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003147
- year: 2019
- mesh: Bacterial Typing Techniques, Base Composition, Burkholderiaceae/*classification/isolation & purification, Cystic Fibrosis, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Humans, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sputum/*microbiology, Tasmania, Ubiquinone/chemistry
- topic2: Pathogenicity
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 | |
| 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 | |
| 67726 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103228 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103228) | |
| 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 | |
| 113004 | 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-ID408377.1 |