Strain identifier
BacDive ID: 158879
Type strain: 
Species: Conexivisphaera calida
Strain Designation: NAS-02
Strain history: T. Itoh: RIKEN BRC-JCM, Japan; NAS-02.
NCBI tax ID(s): 1874277 (species)
version 8.1 (current version)
General
@ref: 65701
BacDive-ID: 158879
DSM-Number: 105898
keywords: genome sequence, 16S sequence, Archaea, anaerobe, thermophilic, Gram-negative
description: Conexivisphaera calida NAS-02 is an anaerobe, thermophilic, Gram-negative archaeon that was isolated from Hot spring.
NCBI tax id
- NCBI tax id: 1874277
- Matching level: species
strain history
| @ref | history |
|---|---|
| 65701 | <- T. Itoh, RIKEN BRC-JCM, Japan; NAS-02 <- M. Onishi |
| 67770 | T. Itoh: RIKEN BRC-JCM, Japan; NAS-02. |
doi: 10.13145/bacdive158879.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/nitrososphaerota
- domain: Archaea
- phylum: Nitrososphaerota
- class: Conexivisphaeria
- order: Conexivisphaerales
- family: Conexivisphaeraceae
- genus: Conexivisphaera
- species: Conexivisphaera calida
- full scientific name: Conexivisphaera calida Kato et al. 2021
synonyms
- @ref: 20215
- synonym: Conexivisphaera calidus
@ref: 65701
domain: Archaea
phylum: Crenarchaeota
class: Thermoprotei
order: Thermoproteales
family: Thermoproteaceae
genus: Conexivisphaera
species: Conexivisphaera calida
full scientific name: Conexivisphaera calida Kato et al. 2021
strain designation: NAS-02
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.837
Culture and growth conditions
culture medium
- @ref: 65701
- name: CONEXIVISPHAERA MEDIUM (DSMZ Medium 1714)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1714
- composition: Name: CONEXIVISPHAERA MEDIUM (DSMZ Medium 1714) Composition: KH2PO4 2.96736 g/l Na2S2O3 x 5 H2O 2.4728 g/l MgSO4 x 7 H2O 0.49456 g/l Yeast extract 0.49456 g/l FeCl2 x 4 H2O 0.24728 g/l CaCl2 x 2 H2O 0.24728 g/l (NH4)2SO4 0.197824 g/l L-Cysteine HCl x H2O 0.049456 g/l Na2B4O7 x 10 H2O 0.00445104 g/l MnCl2 x 4 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.000217606 g/l Pyridoxine hydrochloride 9.8912e-05 g/l Thiamine HCl 4.9456e-05 g/l CuCl2 x 2 H2O 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Na2MoO4 x 2 H2O 2.96736e-05 g/l VOSO4 x 2 H2O 2.96736e-05 g/l Biotin 1.97824e-05 g/l Folic acid 1.97824e-05 g/l CoSO4 x 7 H2O 9.8912e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 65701 | positive | growth | 70 | thermophilic | |
| 67770 | positive | growth | 65 | thermophilic | |
| 69480 | thermophilic | 99.73 |
Physiology and metabolism
oxygen tolerance
- @ref: 69480
- oxygen tolerance: anaerobe
- confidence: 98.544
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 99.971 |
| 69481 | yes | 100 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 65701 | Hot spring | Oku-Shiobara, Tochigi | Japan | JPN | Asia |
| 67770 | Hot spring water from Oku-Shiobara | Tochigi | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_192721.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18188;96_71139;97_92402;98_125614;99_192721&stattab=map
- Last taxonomy: Conexivisphaera calida subclade
- 16S sequence: LC552068
- Sequence Identity:
- Total samples: 24
- aquatic counts: 24
Sequence information
16S sequences
- @ref: 67770
- description: Conexivisphaera calidus NAS-02 gene for 16S rRNA, partial sequence
- accession: LC552068
- length: 1508
- database: ena
- NCBI tax ID: 1874277
Genome sequences
- @ref: 66792
- description: Conexivisphaera calida NAS-02
- accession: GCA_013340765
- assembly level: complete
- database: ncbi
- NCBI tax ID: 1874277
GC content
| @ref | GC-content | method |
|---|---|---|
| 65701 | 62.1 | sequence analysis |
| 67770 | 62.1 | genome sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 100 | no |
| motile | no | 85.045 | no |
| flagellated | no | 97.571 | no |
| gram-positive | no | 96.833 | no |
| anaerobic | yes | 98.264 | no |
| aerobic | no | 93.7 | no |
| halophile | no | 80.777 | no |
| spore-forming | no | 97.791 | no |
| glucose-util | yes | 78.718 | no |
| thermophile | yes | 99.999 | yes |
| glucose-ferment | no | 62.771 | no |
External links
@ref: 65701
culture collection no.: DSM 105898, JCM 31663
straininfo link
- @ref: 111398
- straininfo: 404740
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 31171857 | Isolation and characterization of a thermophilic sulfur- and iron-reducing thaumarchaeote from a terrestrial acidic hot spring. | Kato S, Itoh T, Yuki M, Nagamori M, Ohnishi M, Uematsu K, Suzuki K, Takashina T, Ohkuma M | ISME J | 10.1038/s41396-019-0447-3 | 2019 | Archaea/classification/genetics/isolation & purification/*metabolism, DNA, Bacterial/genetics, Hot Springs/chemistry/*microbiology, Hot Temperature, Iron/*metabolism, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur/*metabolism | Metabolism |
| Phylogeny | 33295866 | Conexivisphaera calida gen. nov., sp. nov., a thermophilic sulfur- and iron-reducing archaeon, and proposal of Conexivisphaeraceae fam. nov., Conexivisphaerales ord. nov., and Conexivisphaeria class. nov. in the phylum Thaumarchaeota. | Kato S, Ohnishi M, Nagamori M, Yuki M, Takashina T, Ohkuma M, Itoh T | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004595 | 2020 | Archaea/*classification/isolation & purification, Base Composition, DNA, Archaeal/genetics, Hot Springs/*microbiology, Iron/metabolism, Japan, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur/metabolism | Metabolism |
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 | |
| 65701 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105898 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105898) | |
| 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 111398 | 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-ID404740.1 |