Strain identifier
BacDive ID: 5388
Type strain:
Species: Erythrobacter neustonensis
Strain history: CIP <- 1994, ACM <- J.A. Fuerst, Queensland Univ., Australia
NCBI tax ID(s): 1112 (species)
General
@ref: 3570
BacDive-ID: 5388
DSM-Number: 9434
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative
description: Erythrobacter neustonensis DSM 9434 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from eutrophic freshwater pond.
NCBI tax id
- NCBI tax id: 1112
- Matching level: species
strain history
@ref | history |
---|---|
3570 | <- J. A. Fuerst, ACM |
121281 | CIP <- 1994, ACM <- J.A. Fuerst, Queensland Univ., Australia |
doi: 10.13145/bacdive5388.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Erythrobacteraceae
- genus: Erythrobacter
- species: Erythrobacter neustonensis
- full scientific name: Erythrobacter neustonensis (Fuerst et al. 1993) Xu et al. 2020
synonyms
- @ref: 20215
- synonym: Porphyrobacter neustonensis
@ref: 3570
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Sphingomonadales
family: Erythrobacteraceae
genus: Porphyrobacter
species: Porphyrobacter neustonensis
full scientific name: Porphyrobacter neustonensis Fuerst et al. 1993
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.991 | ||
121281 | negative | oval-shaped | yes |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3570 | PYGV AGAR (DSMZ Medium 621) | yes | https://mediadive.dsmz.de/medium/621 | Name: PYGV AGAR (DSMZ Medium 621) Composition: Agar 15.0 g/l MgSO4 x 7 H2O 0.625264 g/l Glucose 0.25 g/l Peptone 0.25 g/l Yeast extract 0.25 g/l Nitrilotriacetic acid 0.210526 g/l CaCl2 x 2 H2O 0.0703158 g/l FeSO4 x 7 H2O 0.00208422 g/l Na2MoO4 x 2 H2O 0.000266736 g/l Pyridoxine hydrochloride 0.0001 g/l p-Aminobenzoic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavine 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Metall salt sol. 44 Distilled water |
40962 | MEDIUM 108 - for Porphyrobacter neustonensis | yes | Distilled water make up to (1000.000 ml);Agar (5.000 g);Glucose (0.250 g);Yeast extract (0.250 g);Peptone (0.250 g);Vitamins solution - M0417 (10.000 ml);Mineral solution - M0417 (20.000 ml) | |
121281 | CIP Medium 13 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3570 | positive | growth | 30 | mesophilic |
40962 | positive | growth | 30 | mesophilic |
121281 | positive | growth | 10-37 | |
121281 | no | growth | 5 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 121281
- oxygen tolerance: obligate aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.996 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
121281 | 4853 | esculin | + | hydrolysis |
121281 | 17632 | nitrate | - | reduction |
121281 | 16301 | nitrite | - | reduction |
121281 | 17632 | nitrate | - | respiration |
antibiotic resistance
- @ref: 121281
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
- @ref: 121281
- Chebi-ID: 35581
- metabolite: indole
- production: no
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 |
121281 | oxidase | - | |
121281 | gelatinase | + | |
121281 | amylase | + | |
121281 | DNase | + | |
121281 | caseinase | - | 3.4.21.50 |
121281 | catalase | + | 1.11.1.6 |
121281 | tween esterase | + | |
121281 | lecithinase | - | |
121281 | urease | - | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121281 | - | + | + | + | - | + | + | + | + | - | + | + | - | + | - | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121281 | + | - | - | - | - | - | - | + | - | + | + | - | - | - | - | + | - | - | + | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | + | + | - | - | - | - | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
3570 | eutrophic freshwater pond | Queensland, Brisbane, University Lake | Australia | AUS | Australia and Oceania | |
121281 | Environment, Lake, fresh water | Brisbane | Australia | AUS | Australia and Oceania | 1983 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Freshwater |
#Environmental | #Aquatic | #Pond (small) |
taxonmaps
- @ref: 69479
- File name: preview.99_4330.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_251;97_1392;98_1691;99_4330&stattab=map
- Last taxonomy: Erythrobacter neustonensis
- 16S sequence: AB033327
- Sequence Identity:
- Total samples: 31
- soil counts: 4
- aquatic counts: 20
- animal counts: 6
- plant counts: 1
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
3570 | 1 | Risk group (German classification) |
121281 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Porphyrobacter neustonensis 16S ribosomal RNA | L01785 | 1353 | ena | 1112 |
20218 | Porphyrobacter neustonensis 16S ribosomal RNA gene sequence | M96745 | 1353 | ena | 1112 |
20218 | Porphyrobacter neustonensis gene for 16S ribosomal RNA, partial sequence | AB033327 | 1478 | ena | 1112 |
20218 | Porphyrobacter neustonensis strain DSM 9434 16S ribosomal RNA gene, partial sequence | AF465838 | 1413 | ena | 1112 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Erythrobacter neustonensis DSM 9434 | GCA_001663175 | complete | ncbi | 1112 |
66792 | Porphyrobacter neustonensis strain DSM 9434 | 1112.5 | complete | patric | 1112 |
66792 | Erythrobacter neustonensis DSM 9434 | 2751185752 | complete | img | 1112 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 82.388 | no |
gram-positive | no | 97.743 | no |
anaerobic | no | 99.272 | no |
aerobic | yes | 95.503 | no |
halophile | no | 89.006 | no |
spore-forming | no | 95.476 | no |
thermophile | no | 97.17 | no |
glucose-util | yes | 86.767 | no |
motile | yes | 56.764 | no |
glucose-ferment | no | 92.597 | no |
External links
@ref: 3570
culture collection no.: DSM 9434, ACM 2844, CIP 104070
straininfo link
- @ref: 74879
- straininfo: 48613
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3570 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9434) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9434 | |||
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 | |
40962 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15937 | ||||
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 | |
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 | |||
74879 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID48613.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121281 | Curators of the CIP | Collection of Institut Pasteur (CIP 104070) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104070 |