Strain identifier
BacDive ID: 17023
Type strain: 
Species: Caldivirga maquilingensis
Strain Designation: MCC-UPLP 1200, IC-167
Strain history: T. Itoh and P. C. Sanchez IC-167.
NCBI tax ID(s): 397948 (strain), 76887 (species)
version 8.1 (current version)
General
@ref: 5066
BacDive-ID: 17023
DSM-Number: 13496
keywords: genome sequence, 16S sequence, Archaea, anaerobe, hyperthermophilic
description: Caldivirga maquilingensis MCC-UPLP 1200 is an anaerobe, hyperthermophilic archaeon that was isolated from acidic hot spring.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 76887 | species |
| 397948 | strain |
strain history
| @ref | history |
|---|---|
| 5066 | <- T. Itoh and P. C. Sanchez; IC-167 |
| 67770 | T. Itoh and P. C. Sanchez IC-167. |
doi: 10.13145/bacdive17023.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/thermoproteota
- domain: Archaea
- phylum: Thermoproteota
- class: Thermoprotei
- order: Thermoproteales
- family: Thermoproteaceae
- genus: Caldivirga
- species: Caldivirga maquilingensis
- full scientific name: Caldivirga maquilingensis Itoh et al. 1999
@ref: 5066
domain: Archaea
phylum: Crenarchaeota
class: Thermoprotei
order: Thermoproteales
family: Thermoproteaceae
genus: Caldivirga
species: Caldivirga maquilingensis
full scientific name: Caldivirga maquilingensis Itoh et al. 1999
strain designation: MCC-UPLP 1200, IC-167
type strain: yes
Culture and growth conditions
culture medium
- @ref: 5066
- name: CALDIVIRGA MEDIUM (DSMZ Medium 883)
- growth: yes
- link: https://mediadive.dsmz.de/medium/883
- composition: Name: CALDIVIRGA MEDIUM (DSMZ Medium 883) Composition: Sulfur 9.8912 g/l Trisodium citrate x 2 H2O 2.90801 g/l (NH4)2SO4 1.28586 g/l Na2S x 9 H2O 0.49456 g/l Yeast extract 0.49456 g/l KH2PO4 0.276954 g/l MgSO4 x 7 H2O 0.24728 g/l CaCl2 x 2 H2O 0.0692384 g/l FeCl3 x 6 H2O 0.0197824 g/l Na2B4O7 x 10 H2O 0.00445104 g/l MnCl2 x 4 H2O 0.00178042 g/l Sodium resazurin 0.00049456 g/l ZnSO4 x 7 H2O 0.000217606 g/l Pyridoxine hydrochloride 9.8912e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l CuCl2 x 2 H2O 4.9456e-05 g/l Nicotinic 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 |
|---|---|---|---|---|
| 5066 | positive | growth | 83 | hyperthermophilic |
| 67770 | positive | growth | 85 | hyperthermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 5066
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | geographic location |
|---|---|---|---|---|---|
| 5066 | acidic hot spring | Philippines | PHL | Asia | |
| 67770 | Acidic hot spring | Philippines | PHL | Asia | Mt. Maquiling |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Acidic | |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_187371.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17852;96_68926;97_89580;98_121872;99_187371&stattab=map
- Last taxonomy: Caldivirga maquilingensis subclade
- 16S sequence: AB013926
- Sequence Identity:
- Total samples: 3
- aquatic counts: 3
Safety information
risk assessment
- @ref: 5066
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Caldivirga maquilingensis strain IC-167 16S ribosomal RNA gene, partial sequence | JQ346759 | 1461 | ena | 76887 |
| 5066 | Caldivirga maquilingensis gene for 16S rRNA, partial sequence | AB013926 | 1642 | ena | 76887 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Caldivirga maquilingensis IC-167 | GCA_000018305 | complete | ncbi | 397948 |
| 66792 | Caldivirga maquilingensis IC-167 | 641228483 | complete | img | 397948 |
| 66792 | Caldivirga maquilingensis IC-167 | 397948.10 | complete | patric | 397948 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 5066 | 43 | |
| 67770 | 43 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | no | 86.493 | no |
| flagellated | no | 97.617 | no |
| gram-positive | no | 95.255 | no |
| anaerobic | yes | 96.84 | yes |
| aerobic | no | 90.889 | no |
| halophile | no | 86.625 | no |
| spore-forming | no | 96.555 | no |
| thermophile | yes | 99.715 | no |
| glucose-util | yes | 89.846 | no |
| glucose-ferment | no | 71.541 | no |
External links
@ref: 5066
culture collection no.: DSM 13496, ANMR 0178, ATCC 700844, JCM 10307, MCC-UPLB 1200
straininfo link
- @ref: 86024
- straininfo: 49478
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 10425774 | Caldivirga maquilingensis gen. nov., sp. nov., a new genus of rod-shaped crenarchaeote isolated from a hot spring in the Philippines. | Itoh T, Suzuki K, Sanchez PC, Nakase T | Int J Syst Bacteriol | 10.1099/00207713-49-3-1157 | 1999 | DNA, Archaeal/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Exons, Fresh Water/*microbiology, Genes, rRNA, Introns, Molecular Sequence Data, Phenotype, Philippines, Phylogeny, RNA, Ribosomal, 16S/genetics, Thermoproteaceae/*classification/isolation & purification/physiology/ultrastructure, Water Microbiology | Genetics |
| Phylogeny | 12768454 | Distribution of 16S rRNA introns among the family Thermoproteaceae and their evolutionary implications. | Itoh T, Nomura N, Sako Y | Extremophiles | 10.1007/s00792-003-0314-y | 2003 | Amino Acid Motifs, Archaea/genetics, Base Sequence, Escherichia coli/genetics, Evolution, Molecular, *Introns, Molecular Sequence Data, Open Reading Frames, Phylogeny, RNA, Ribosomal, 16S/*genetics, Thermoproteaceae/*genetics | Genetics |
| Enzymology | 27582034 | Characterization of a thermostable glycoside hydrolase (CMbg0408) from the hyperthermophilic archaeon Caldivirga maquilingensis IC-167. | Letsididi R, Hassanin HA, Koko MY, Ndayishimiye JB, Zhang T, Jiang B, Stressler T, Fischer L, Mu W | J Sci Food Agric | 10.1002/jsfa.8019 | 2016 | Archaea/chemistry/*enzymology/genetics, Archaeal Proteins/*chemistry/genetics/metabolism, Enzyme Stability, Galactose/metabolism, Glucosides/metabolism, Hot Temperature, Hydrogen-Ion Concentration, Kinetics, Lactose/metabolism, Substrate Specificity, beta-Galactosidase/*chemistry/genetics/metabolism | Metabolism |
| Metabolism | 28703279 | Lactulose production by a thermostable glycoside hydrolase from the hyperthermophilic archaeon Caldivirga maquilingensis IC-167. | Letsididi R, Hassanin HA, Koko MY, Zhang T, Jiang B, Mu W | J Sci Food Agric | 10.1002/jsfa.8539 | 2017 | Archaea/*enzymology, Archaeal Proteins/*chemistry/metabolism, Enzyme Stability, Fructose/chemistry/metabolism, Glycosides/*chemistry/metabolism, Hot Temperature, Hydrogen-Ion Concentration, Hydrolases/*chemistry/metabolism, Kinetics, Lactose/chemistry/metabolism, Lactulose/*chemistry/metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5066 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13496) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13496 | |||
| 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 | |
| 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 | |
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 86024 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49478.1 | StrainInfo: A central database for resolving microbial strain identifiers |