Strain identifier
BacDive ID: 7141
Type strain: 
Species: Neomegalonema perideroedes
Strain Designation: GR1
Strain history: <- T. R. Thomsen
NCBI tax ID(s): 1122218 (strain), 217219 (species)
version 8.1 (current version)
General
@ref: 5979
BacDive-ID: 7141
DSM-Number: 15528
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped
description: Neomegalonema perideroedes GR1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from activated bulking sludge; industrial wastewater.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 217219 | species |
| 1122218 | strain |
strain history
- @ref: 5979
- history: <- T. R. Thomsen
doi: 10.13145/bacdive7141.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodobacterales
- family: Neomegalonemataceae
- genus: Neomegalonema
- species: Neomegalonema perideroedes
- full scientific name: Candidatus Neomegalonema perideroedes corrig. Nielsen et al. 2003
synonyms
@ref synonym 20215 Meganema perideroedes 20215 Neomegalonema perideroedes
@ref: 5979
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Neomegalonemataceae
genus: Neomegalonema
species: Neomegalonema perideroedes
full scientific name: Neomegalonema perideroedes (Thomsen et al. 2006) Oren 2017
strain designation: GR1
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell shape | motility | confidence |
|---|---|---|---|---|---|
| 30080 | negative | 1.5-2 µm | rod-shaped | no | |
| 69480 | negative | 99.978 |
pigmentation
- @ref: 30080
- production: yes
Culture and growth conditions
culture medium
- @ref: 5979
- 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 | growth | type | temperature | range |
|---|---|---|---|---|
| 5979 | positive | growth | 25 | mesophilic |
| 30080 | positive | growth | 15-35 | |
| 30080 | positive | optimum | 25-30 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30080 | positive | growth | 7 |
| 30080 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 30080
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 30080 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.983 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 30080 | NaCl | positive | growth | 0-2 % |
| 30080 | NaCl | positive | optimum | 0-2 % |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30080 | catalase | + | 1.11.1.6 |
| 30080 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 5979
- sample type: activated bulking sludge; industrial wastewater
- geographic location: Grindsted
- country: Denmark
- origin.country: DNK
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Activated sludge |
| #Engineered | #Waste | #Industrial wastewater |
taxonmaps
- @ref: 69479
- File name: preview.99_4755.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_487;96_2352;97_2863;98_3564;99_4755&stattab=map
- Last taxonomy: Neomegalonema perideroedes subclade
- 16S sequence: AF180468
- Sequence Identity:
- Total samples: 2527
- soil counts: 524
- aquatic counts: 1740
- animal counts: 199
- plant counts: 64
Safety information
risk assessment
- @ref: 5979
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 30080
- description: Meganema perideroedes strain Gr1 16S ribosomal RNA gene, partial sequence
- accession: AF180468
- length: 1383
- database: nuccore
- NCBI tax ID: 1122218
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Neomegalonema perideroedes DSM 15528 | GCA_000374145 | scaffold | ncbi | 1122218 |
| 66792 | Meganema perideroedes DSM 15528 | 1122218.3 | wgs | patric | 1122218 |
| 66792 | Neomegalonema perideroedes DSM 15528 | 2515154196 | draft | img | 1122218 |
GC content
- @ref: 30080
- GC-content: 42.9
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 84.459 | yes |
| flagellated | no | 92.16 | no |
| gram-positive | no | 98.305 | yes |
| anaerobic | no | 98.362 | yes |
| aerobic | yes | 91.882 | yes |
| halophile | no | 87.55 | no |
| spore-forming | no | 96.601 | yes |
| glucose-util | yes | 76.486 | no |
| thermophile | no | 77.077 | yes |
| glucose-ferment | no | 92.066 | no |
External links
@ref: 5979
culture collection no.: DSM 15528, ATCC BAA 740
straininfo link
- @ref: 76595
- straininfo: 402021
literature
- topic: Phylogeny
- Pubmed-ID: 16902022
- title: Meganema perideroedes gen. nov., sp. nov., a filamentous alphaproteobacterium from activated sludge.
- authors: Thomsen TR, Blackall LL, de Muro MA, Nielsen JL, Nielsen PH
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02916-0
- year: 2006
- mesh: Alphaproteobacteria/chemistry/*classification/isolation & purification/physiology, Base Composition, Culture Media, DNA, Bacterial/genetics, Denmark, Fatty Acids/analysis, Industrial Waste/analysis, Molecular Sequence Data, Oligonucleotide Probes, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Sewage/*microbiology, Sodium Chloride, Species Specificity, Temperature, Ubiquinone/analysis
- topic2: Cultivation
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 5979 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15528) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15528 | |||
| 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 | |||
| 30080 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26437 | 28776041 | |
| 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 | |||
| 76595 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402021.1 | StrainInfo: A central database for resolving microbial strain identifiers |