Strain identifier
BacDive ID: 17061
Type strain:
Species: Thermotoga neapolitana
Strain Designation: NS-E
Strain history: <- K.O. Stetter <- H.W. Jannasch, NS-E
NCBI tax ID(s): 309803 (strain), 2337 (species)
General
@ref: 1545
BacDive-ID: 17061
DSM-Number: 4359
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, hyperthermophilic, Gram-negative
description: Thermotoga neapolitana NS-E is an anaerobe, hyperthermophilic, Gram-negative bacterium that was isolated from submarine hot spring.
NCBI tax id
NCBI tax id | Matching level |
---|---|
309803 | strain |
2337 | species |
strain history
- @ref: 1545
- history: <- K.O. Stetter <- H.W. Jannasch, NS-E
doi: 10.13145/bacdive17061.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/thermotogota
- domain: Bacteria
- phylum: Thermotogota
- class: Thermotogae
- order: Thermotogales
- family: Thermotogaceae
- genus: Thermotoga
- species: Thermotoga neapolitana
- full scientific name: Thermotoga neapolitana Jannasch et al. 1989
@ref: 1545
domain: Bacteria
phylum: Thermotogae
class: Thermotogae
order: Thermotogales
family: Thermotogaceae
genus: Thermotoga
species: Thermotoga neapolitana
full scientific name: Thermotoga neapolitana Jannasch et al. 1989
strain designation: NS-E
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.811
Culture and growth conditions
culture medium
- @ref: 1545
- name: THERMOTOGA TF(C) MEDIUM (DSMZ Medium 613)
- growth: yes
- link: https://mediadive.dsmz.de/medium/613
- composition: Name: THERMOTOGA TF(C) MEDIUM (DSMZ Medium 613; with strain-specific modifications) Composition: Yeast extract 1.97824 g/l Trypticase peptone 1.97824 g/l K2HPO4 1.58259 g/l MgCl2 x 6 H2O 1.38477 g/l Na2HPO4 x H2O 0.98912 g/l Starch 0.49456 g/l NH4Cl 0.49456 g/l Na2S x 9 H2O 0.296736 g/l L-Cysteine HCl x H2O 0.296736 g/l CaCl2 x 2 H2O 0.0593472 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l ZnSO4 x 7 H2O 0.00178042 g/l CoSO4 x 7 H2O 0.00178042 g/l FeSO4 x 7 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Biotin 1.97824e-05 g/l Folic acid 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
1545 | positive | growth | 85 | hyperthermophilic | |
69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
1545 | anaerobe | |
69480 | anaerobe | 100 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.715 |
Isolation, sampling and environmental information
isolation
- @ref: 1545
- sample type: submarine hot spring
- geographic location: Bay of Naples
- country: Italy
- origin.country: ITA
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Thermal spring |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_1632.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_177;96_929;97_1081;98_1290;99_1632&stattab=map
- Last taxonomy: Thermotoga
- 16S sequence: AB039768
- Sequence Identity:
- Total samples: 777
- soil counts: 93
- aquatic counts: 246
- animal counts: 428
- plant counts: 10
Safety information
risk assessment
- @ref: 1545
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Thermotoga neapolitana gene for 16S rRNA
- accession: AB039768
- length: 1482
- database: ena
- NCBI tax ID: 309803
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Thermotoga neapolitana DSM 4359 | GCA_000018945 | complete | ncbi | 309803 |
66792 | Thermotoga neapolitana DSM 4359 | 309803.4 | complete | patric | 309803 |
66792 | Thermotoga neapolitana DSM 4359 | 643348584 | complete | img | 309803 |
GC content
- @ref: 1545
- GC-content: 46
- method: sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 85.885 | no |
flagellated | no | 89.114 | no |
gram-positive | no | 93.689 | no |
anaerobic | yes | 99.481 | yes |
aerobic | no | 98.207 | yes |
halophile | no | 92.408 | no |
spore-forming | no | 91.277 | no |
thermophile | yes | 100 | yes |
glucose-util | yes | 88.949 | no |
glucose-ferment | yes | 54.185 | no |
External links
@ref: 1545
culture collection no.: DSM 4359, ATCC 49049, NBRC 107923
straininfo link
- @ref: 86061
- straininfo: 42266
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 8085828 | Growth requirements of hyperthermophilic sulfur-dependent heterotrophic archaea isolated from a shallow submarine geothermal system with reference to their essential amino acids. | Hoaki T, Nishijima M, Kato M, Adachi K, Mizobuchi S, Hanzawa N, Maruyama T | Appl Environ Microbiol | 10.1128/aem.60.8.2898-2904.1994 | 1994 | Amino Acids, Essential/*metabolism, Anaerobiosis, Archaea/genetics/*growth & development/physiology/ultrastructure, Base Composition, Base Sequence, Culture Media, DNA, Ribosomal/analysis, Hot Temperature, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Seawater, Sequence Analysis, DNA, *Soil Microbiology | Cultivation |
Genetics | 16547022 | Chromosome evolution in the Thermotogales: large-scale inversions and strain diversification of CRISPR sequences. | DeBoy RT, Mongodin EF, Emerson JB, Nelson KE | J Bacteriol | 10.1128/JB.188.7.2364-2374.2006 | 2006 | Base Sequence, Chromosome Inversion/*genetics, Chromosomes, Bacterial/*genetics, DNA, Bacterial/*genetics, DNA, Intergenic/genetics, *Evolution, Molecular, Molecular Sequence Data, Open Reading Frames, Repetitive Sequences, Nucleic Acid/*genetics, Thermotoga maritima/classification/*genetics, Thermotoga neapolitana/classification/*genetics | Phylogeny |
Enzymology | 19125220 | Purification and biochemical characterization of a native invertase from the hydrogen-producing Thermotoga neapolitana (DSM 4359). | Dipasquale L, Gambacorta A, Siciliano RA, Mazzeo MF, Lama L | Extremophiles | 10.1007/s00792-008-0222-2 | 2009 | Hydrogen-Ion Concentration, Hydrolysis, Inulin/chemistry, Ions, Kinetics, Metals/chemistry, Models, Chemical, Polymers/chemistry, Substrate Specificity, Temperature, Thermotoga neapolitana/*enzymology, beta-Fructofuranosidase/*chemistry | |
Enzymology | 21795792 | Expression, crystallization and preliminary X-ray diffraction studies of thermostable beta-1,3-xylanase from Thermotoga neapolitana strain DSM 4359. | Okazaki F, Ogino C, Kondo A, Mikami B, Kurebayashi Y, Tsuruta H | Acta Crystallogr Sect F Struct Biol Cryst Commun | 10.1107/S1744309111017222 | 2011 | Crystallization, Crystallography, X-Ray, Enzyme Stability, Gene Expression, Thermotoga neapolitana/*enzymology, Xylan Endo-1,3-beta-Xylosidase/*chemistry | |
Enzymology | 22914897 | Cloning and biochemical characterization of a glucosidase from a marine bacterium Aeromonas sp. HC11e-3. | Huang X, Zhao Y, Dai Y, Wu G, Shao Z, Zeng Q, Liu Z | World J Microbiol Biotechnol | 10.1007/s11274-012-1145-8 | 2012 | Aeromonas/*enzymology/genetics/isolation & purification, Amino Acid Sequence, Cations, Divalent/metabolism, Chromatography, Affinity, Cloning, Molecular, Enzyme Activators/metabolism, Enzyme Inhibitors/metabolism, Enzyme Stability, Escherichia coli/genetics, Gene Expression, Glucosidases/chemistry/*genetics/isolation & purification/*metabolism, Hydrogen-Ion Concentration, Metals/metabolism, Models, Molecular, Molecular Sequence Data, Protein Conformation, Recombinant Proteins/chemistry/genetics/isolation & purification/metabolism, Seawater/microbiology, Sequence Homology, Amino Acid, Temperature, Thermotoga neapolitana/enzymology/genetics | Metabolism |
Enzymology | 23149756 | Biochemical characterization of a thermostable beta-1,3-xylanase from the hyperthermophilic eubacterium, Thermotoga neapolitana strain DSM 4359. | Okazaki F, Nakashima N, Ogino C, Tamaru Y, Kondo A | Appl Microbiol Biotechnol | 10.1007/s00253-012-4555-5 | 2012 | Amino Acid Sequence, Base Sequence, Biocatalysis, DNA Primers, Enzyme Stability, Hydrolysis, Kinetics, Mutagenesis, Site-Directed, Sequence Homology, Amino Acid, Substrate Specificity, Thermotoga neapolitana/*enzymology, Xylan Endo-1,3-beta-Xylosidase/chemistry/*metabolism | Metabolism |
Metabolism | 25467925 | Introducing capnophilic lactic fermentation in a combined dark-photo fermentation process: a route to unparalleled H2 yields. | Dipasquale L, Adessi A, d'Ippolito G, Rossi F, Fontana A, De Philippis R | Appl Microbiol Biotechnol | 10.1007/s00253-014-6231-4 | 2014 | Culture Media, *Fermentation, Glucose/metabolism, Hydrogen/metabolism, Lactic Acid/*metabolism, Models, Molecular, Rhodopseudomonas/metabolism, Thermotoga neapolitana/metabolism | Biotechnology |
Metabolism | 30968346 | Enzymatic transformation of ginsenosides Re, Rg1, and Rf to ginsenosides Rg2 and aglycon PPT by using beta-glucosidase from Thermotoga neapolitana. | Bi YF, Wang XZ, Jiang S, Liu JS, Zheng MZ, Chen P | Biotechnol Lett | 10.1007/s10529-019-02665-7 | 2019 | Biotransformation, Ginsenosides/*metabolism, Hydrogen-Ion Concentration, Sapogenins/*metabolism, Temperature, Thermotoga neapolitana/*enzymology, beta-Glucosidase/*metabolism | Enzymology |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
1545 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4359) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-4359 | |||
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) | |||
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 | |||
86061 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42266.1 | StrainInfo: A central database for resolving microbial strain identifiers |