Strain identifier
BacDive ID: 13515
Type strain: 
Species: Haloechinothrix alba
Strain history: <- S.-K. Tang, YIM; YIM 93221
NCBI tax ID(s): 664784 (species)
version 8.1 (current version)
General
@ref: 15779
BacDive-ID: 13515
DSM-Number: 45207
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped
description: Haloechinothrix alba DSM 45207 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from salt lake soil.
NCBI tax id
- NCBI tax id: 664784
- Matching level: species
strain history
- @ref: 15779
- history: <- S.-K. Tang, YIM; YIM 93221
doi: 10.13145/bacdive13515.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Haloechinothrix
- species: Haloechinothrix alba
- full scientific name: Haloechinothrix alba Tang et al. 2010
@ref: 15779
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Haloechinothrix
species: Haloechinothrix alba
full scientific name: Haloechinothrix alba Tang et al. 2010
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 29676 | positive | rod-shaped | no | |
| 69480 | positive | 100 | ||
| 69480 | no | 93.22 |
pigmentation
- @ref: 29676
- production: yes
multimedia
- @ref: 15779
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45207.jpg
- caption: Medium 1302 37°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link |
|---|---|---|---|
| 15779 | STARCH-MINERAL SALT-AGAR (STMS) + 10%NACL (DSMZ Medium 1240) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium1240.pdf |
| 15779 | YIM MEDIUM + 10 % NACL (DSMZ Medium 1302) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium1302.pdf |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 15779 | positive | growth | 37 | mesophilic |
| 29676 | positive | growth | 20-45 | |
| 29676 | positive | optimum | 37 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29676 | positive | growth | 04-08 | acidophile |
| 29676 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 29676
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 29676 | no | |
| 69481 | yes | 97 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29676 | NaCl | positive | growth | 09-23 % |
| 29676 | NaCl | positive | optimum | 15 % |
observation
- @ref: 29676
- observation: aggregates in chains
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29676 | 16449 | alanine | + | carbon source |
| 29676 | 29016 | arginine | + | carbon source |
| 29676 | 22653 | asparagine | + | carbon source |
| 29676 | 15428 | glycine | + | carbon source |
| 29676 | 27570 | histidine | + | carbon source |
| 29676 | 37684 | mannose | + | carbon source |
| 29676 | 26271 | proline | + | carbon source |
| 29676 | 26546 | rhamnose | + | carbon source |
| 29676 | 17822 | serine | + | carbon source |
| 29676 | 26986 | threonine | + | carbon source |
| 29676 | 27082 | trehalose | + | carbon source |
| 29676 | 17151 | xylitol | + | carbon source |
Isolation, sampling and environmental information
isolation
- @ref: 15779
- sample type: salt lake soil
- geographic location: Xinjiang Province, Qijiaojing Lake,
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 43.4467
- longitude: 91.4869
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_143131.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_54917;97_70825;98_95042;99_143131&stattab=map
- Last taxonomy: Haloechinothrix alba subclade
- 16S sequence: GQ366705
- Sequence Identity:
- Total samples: 597
- soil counts: 118
- aquatic counts: 79
- animal counts: 380
- plant counts: 20
Safety information
risk assessment
- @ref: 15779
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15779
- description: Haloechinothrix alba strain YIM 93221 16S ribosomal RNA gene, partial sequence
- accession: GQ366705
- length: 1474
- database: ena
- NCBI tax ID: 664784
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Haloechinothrix alba DSM 45207 | GCA_900188115 | contig | ncbi | 664784 |
| 66792 | Haloechinothrix alba strain DSM 45207 | 664784.3 | wgs | patric | 664784 |
| 66792 | Haloechinothrix alba DSM 45207 | 2724679784 | draft | img | 664784 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 15779 | 68.1 | high performance liquid chromatography (HPLC) |
| 29676 | 68.1 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 97 | no |
| gram-positive | yes | 87.668 | no |
| anaerobic | no | 98.267 | yes |
| halophile | yes | 81.757 | yes |
| spore-forming | no | 50 | no |
| glucose-util | yes | 87.513 | no |
| thermophile | no | 87.153 | no |
| flagellated | no | 97.869 | no |
| motile | no | 93.431 | yes |
| aerobic | yes | 91.575 | no |
| glucose-ferment | no | 94.114 | no |
External links
@ref: 15779
culture collection no.: DSM 45207, CCTCC AB 208140, YIM 93221
straininfo link
- @ref: 82706
- straininfo: 401936
literature
- topic: Phylogeny
- Pubmed-ID: 19880632
- title: Haloechinothrix alba gen. nov., sp. nov., a halophilic, filamentous actinomycete of the suborder Pseudonocardineae.
- authors: Tang SK, Wang Y, Zhang H, Lee JC, Lou K, Kim CJ, Li WJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.018531-0
- year: 2009
- mesh: Actinobacteria/classification/genetics/isolation & purification/metabolism, Actinomycetales/*classification/genetics/*isolation & purification/metabolism, Bacterial Typing Techniques, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Fresh Water/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 15779 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45207) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45207 | ||||
| 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 | ||||
| 29676 | 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 | 26061 | 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) | ||||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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 | ||||
| 82706 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID401936.1 | StrainInfo: A central database for resolving microbial strain identifiers |