Strain identifier
BacDive ID: 2347
Type strain: 
Species: Phenylobacterium haematophilum
Strain history: <- CCUG <- Blood Dept., PHL, Göteborg, Sweden
NCBI tax ID(s): 98513 (species)
version 8.1 (current version)
General
@ref: 15955
BacDive-ID: 2347
DSM-Number: 21793
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Phenylobacterium haematophilum DSM 21793 is a mesophilic, motile bacterium that was isolated from human blood.
NCBI tax id
- NCBI tax id: 98513
- Matching level: species
strain history
- @ref: 15955
- history: <- CCUG <- Blood Dept., PHL, Göteborg, Sweden
doi: 10.13145/bacdive2347.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Caulobacterales
- family: Caulobacteraceae
- genus: Phenylobacterium
- species: Phenylobacterium haematophilum
- full scientific name: Phenylobacterium haematophilum Abraham et al. 2008
@ref: 15955
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Caulobacteraceae
genus: Phenylobacterium
species: Phenylobacterium haematophilum
full scientific name: Phenylobacterium haematophilum Abraham et al. 2008
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.765 | |
| 69480 | 99.987 | negative |
Culture and growth conditions
culture medium
- @ref: 15955
- name: PYEM MEDIUM (DSMZ Medium 1157)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1157
- composition: Name: PYEM MEDIUM (DSMZ Medium 1157) Composition: Yeast extract 2.0 g/l Peptone 2.0 g/l Glucose 1.0 g/l NH4Cl 0.5 g/l MgSO4 0.2 g/l CaCl2 0.1 g/l Riboflavin Distilled water
culture temp
- @ref: 15955
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.983 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 15955 | human blood | Göteborg | Sweden | SWE | Europe | |
| 48557 | Human blood,22-yr-old woman | Göteborg | Sweden | SWE | Europe | 1990-05-14 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body Product | #Fluids | #Blood |
taxonmaps
- @ref: 69479
- File name: preview.99_20544.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_73;96_931;97_3078;98_3864;99_20544&stattab=map
- Last taxonomy: Phenylobacterium haematophilum subclade
- 16S sequence: AJ244650
- Sequence Identity:
- Total samples: 13779
- soil counts: 4761
- aquatic counts: 3973
- animal counts: 2399
- plant counts: 2646
Sequence information
16S sequences
- @ref: 15955
- description: Phenylobacterium haematophilum partial 16S rRNA gene, type strain LMG 11050T
- accession: AJ244650
- length: 1436
- database: ena
- NCBI tax ID: 98513
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Phenylobacterium haematophilum DSM 21793 | GCA_014196295 | contig | ncbi | 98513 |
| 66792 | Phenylobacterium haematophilum strain DSM 21793 | 98513.3 | wgs | patric | 98513 |
| 66792 | Phenylobacterium haematophilum DSM 21793 | 2829855964 | draft | img | 98513 |
GC content
- @ref: 15955
- GC-content: 67.8
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 86.668 | no |
| flagellated | no | 82.31 | no |
| gram-positive | no | 98.52 | no |
| anaerobic | no | 97.822 | no |
| halophile | no | 97.134 | no |
| spore-forming | no | 95.893 | no |
| thermophile | no | 98.756 | yes |
| glucose-util | yes | 75.856 | no |
| aerobic | yes | 89.322 | no |
| glucose-ferment | no | 93.769 | no |
External links
@ref: 15955
culture collection no.: DSM 21793, CCUG 26751, LMG 11050
straininfo link
- @ref: 71902
- straininfo: 10470
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18676485 | Phylogeny by a polyphasic approach of the order Caulobacterales, proposal of Caulobacter mirabilis sp. nov., Phenylobacterium haematophilum sp. nov. and Phenylobacterium conjunctum sp. nov., and emendation of the genus Phenylobacterium. | Abraham WR, Macedo AJ, Lunsdorf H, Fischer R, Pawelczyk S, Smit J, Vancanneyt M | Int J Syst Evol Microbiol | 10.1099/ijs.0.65567-0 | 2008 | Bacterial Typing Techniques, Blood/*microbiology, Caulobacter/*classification/genetics/isolation & purification/physiology, Caulobacteraceae/*classification/genetics/isolation & purification/physiology, DNA, Bacterial, Fatty Acids/analysis, Fresh Water/*microbiology, Genotype, Humans, Phenotype, *Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Species Specificity | Enzymology |
| Phylogeny | 27267215 | Phenylobacterium aquaticum sp. nov., isolated from the reservoir of a water purifier. | Jo JH, Choi GM, Lee SY, Im WT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001223 | 2016 | Bacterial Typing Techniques, Base Composition, Caulobacteraceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistry, *Water Microbiology, Water Purification, Water Supply | Enzymology |
| Phylogeny | 35583433 | Phenylobacterium glaciei sp. nov., isolated from Vestrebroggerbreen, a valley glacier in Svalbard, Arctic. | Thomas FA, Sinha RK, Hatha AAM, Krishnan KP | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005375 | 2022 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Fatty Acids/chemistry, *Ice Cover, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Svalbard | Transcriptome |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 15955 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21793) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21793 | |
| 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 | |
| 48557 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 26751) | https://www.ccug.se/strain?id=26751 | |
| 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) | |
| 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 | |
| 71902 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID10470.1 | StrainInfo: A central database for resolving microbial strain identifiers |