Strain identifier
BacDive ID: 10430
Type strain:
Species: Nautilia profundicola
Strain Designation: AmH
Strain history: <- B.J. Campbell; AmH
NCBI tax ID(s): 244787 (species)
General
@ref: 7806
BacDive-ID: 10430
DSM-Number: 18972
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative, motile, rod-shaped
description: Nautilia profundicola AmH is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from Alvinella pompejana.
NCBI tax id
- NCBI tax id: 244787
- Matching level: species
strain history
- @ref: 7806
- history: <- B.J. Campbell; AmH
doi: 10.13145/bacdive10430.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Epsilonproteobacteria
- order: Nautiliales
- family: Nautiliaceae
- genus: Nautilia
- species: Nautilia profundicola
- full scientific name: Nautilia profundicola Smith et al. 2008
@ref: 7806
domain: Bacteria
phylum: Proteobacteria
class: Epsilonproteobacteria
order: Nautiliales
family: Nautiliaceae
genus: Nautilia
species: Nautilia profundicola
full scientific name: Nautilia profundicola Smith et al. 2008
strain designation: AmH
type strain: yes
Morphology
cell morphology
- @ref: 32399
- gram stain: negative
- cell length: 0.4 µm
- cell width: 0.3 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 32399
- production: yes
Culture and growth conditions
culture medium
- @ref: 7806
- name: NAUTILIA PROFUNDICOLA MEDIUM (DSMZ Medium 1110)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1110
- composition: Name: NAUTILIA PROFUNDICOLA MEDIUM (DSMZ Medium 1110) Composition: NaCl 19.7628 g/l Sulfur 4.94071 g/l MgCl2 x 6 H2O 2.96443 g/l Na2CO3 1.48221 g/l KCl 0.494071 g/l Na2S x 9 H2O 0.494071 g/l NH4Cl 0.247036 g/l KH2PO4 0.197628 g/l CaCl2 x 2 H2O 0.148221 g/l HCl 0.00247036 g/l FeCl2 x 4 H2O 0.00148221 g/l NaOH 0.000494071 g/l Sodium resazurin 0.000494071 g/l CoCl2 x 6 H2O 0.000187747 g/l Pyridoxine hydrochloride 9.88142e-05 g/l MnCl2 x 4 H2O 9.88142e-05 g/l ZnCl2 6.917e-05 g/l p-Aminobenzoic acid 4.94071e-05 g/l (DL)-alpha-Lipoic acid 4.94071e-05 g/l Riboflavin 4.94071e-05 g/l Thiamine HCl 4.94071e-05 g/l Calcium D-(+)-pantothenate 4.94071e-05 g/l Nicotinic acid 4.94071e-05 g/l Na2MoO4 x 2 H2O 3.55731e-05 g/l NiCl2 x 6 H2O 2.37154e-05 g/l Biotin 1.97628e-05 g/l Folic acid 1.97628e-05 g/l H3BO3 5.92885e-06 g/l Na2WO4 x 2 H2O 3.95257e-06 g/l Na2SeO3 x 5 H2O 2.96443e-06 g/l CuCl2 x 2 H2O 1.97628e-06 g/l Vitamin B12 9.88142e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7806 | positive | growth | 40 | thermophilic |
32399 | positive | growth | 30-55 | |
32399 | positive | optimum | 40 | thermophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32399 | positive | growth | 06-09 | alkaliphile |
32399 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
7806 | anaerobe |
32399 | anaerobe |
spore formation
- @ref: 32399
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32399 | NaCl | positive | growth | 02-05 % |
32399 | NaCl | positive | optimum | 3 % |
observation
- @ref: 32399
- observation: aggregates in chains
metabolite utilization
- @ref: 32399
- Chebi-ID: 15740
- metabolite: formate
- utilization activity: +
- kind of utilization tested: carbon source
Isolation, sampling and environmental information
isolation
- @ref: 7806
- sample type: Alvinella pompejana
- host species: Alvinella pompejana
- geographic location: East Pacific Rise
isolation source categories
- Cat1: #Host
- Cat2: #Invertebrates (Other)
- Cat3: #Annelida
taxonmaps
- @ref: 69479
- File name: preview.99_4934.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_250;96_2425;97_2953;98_3693;99_4934&stattab=map
- Last taxonomy: Nautilia profundicola
- 16S sequence: AF357197
- Sequence Identity:
- Total samples: 369
- soil counts: 17
- aquatic counts: 268
- animal counts: 56
- plant counts: 28
Safety information
risk assessment
- @ref: 7806
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 7806
- description: Nautilia profundicola AmH 16S ribosomal RNA gene, partial sequence
- accession: AF357197
- length: 1498
- database: ena
- NCBI tax ID: 598659
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Nautilia profundicola AmH | GCA_000021725 | complete | ncbi | 598659 |
66792 | Nautilia profundicola AmH | 598659.3 | complete | patric | 598659 |
GC content
@ref | GC-content | method |
---|---|---|
7806 | 33.5 | high performance liquid chromatography (HPLC) |
32399 | 33.5 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | yes | 86.592 | no |
flagellated | no | 79.48 | no |
gram-positive | no | 99.271 | yes |
anaerobic | yes | 97.267 | yes |
aerobic | no | 98.706 | yes |
halophile | no | 68.004 | no |
spore-forming | no | 95.297 | yes |
thermophile | yes | 99.603 | yes |
glucose-util | no | 81.276 | no |
glucose-ferment | no | 88.113 | no |
External links
@ref: 7806
culture collection no.: DSM 18972, ATCC BAA 1463
straininfo link
- @ref: 79712
- straininfo: 398428
literature
- topic: Phylogeny
- Pubmed-ID: 18599701
- title: Nautilia profundicola sp. nov., a thermophilic, sulfur-reducing epsilonproteobacterium from deep-sea hydrothermal vents.
- authors: Smith JL, Campbell BJ, Hanson TE, Zhang CL, Cary SC
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.65435-0
- year: 2008
- mesh: Base Composition, DNA, Bacterial/chemistry, Epsilonproteobacteria/chemistry/*classification/genetics/*physiology, Fatty Acids/metabolism, Formates/metabolism, Molecular Sequence Data, Oceans and Seas, RNA, Ribosomal, 16S/genetics, Species Specificity, Sulfur/*metabolism, Temperature, *Water Microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
7806 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18972) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18972 | |||
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 | |||
32399 | 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 | 28623 | 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 | |||
79712 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID398428.1 | StrainInfo: A central database for resolving microbial strain identifiers |