Strain identifier

BacDive ID: 10431

Type strain: Yes

Species: Nautilia abyssi

Strain Designation: PH1209

Strain history: K. Alain PH1209.

NCBI tax ID(s): 498371 (species)

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General

@ref: 15569

BacDive-ID: 10431

DSM-Number: 21157

keywords: 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative, motile, rod-shaped

description: Nautilia abyssi PH1209 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from hydrothermal chimney sample.

NCBI tax id

  • NCBI tax id: 498371
  • Matching level: species

strain history

@refhistory
15569<- K. Alain, IUEM, Plouzané, France; PH1209 <- K. Alain {2003}
67770K. Alain PH1209.

doi: 10.13145/bacdive10431.20230509.8.1

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 abyssi
  • full scientific name: Nautilia abyssi Alain et al. 2009

@ref: 15569

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Nautiliales

family: Nautiliaceae

genus: Nautilia

species: Nautilia abyssi

full scientific name: Nautilia abyssi Alain et al. 2009

strain designation: PH1209

type strain: yes

Morphology

cell morphology

  • @ref: 29070
  • gram stain: negative
  • cell length: 1.6 µm
  • cell width: 0.4 µm
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

  • @ref: 15569
  • name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/829
  • composition: Name: DESULFUROBACTERIUM MEDIUM (DSMZ Medium 829) Composition: Sea Salt 29.8507 g/l Sulfur 9.95025 g/l MES [2-(N-morpholino) ethane sulfonic acid] 1.9403 g/l NH4Cl 0.995025 g/l Na2CO3 0.497512 g/l KH2PO4 0.348259 g/l Na2S2O4 0.0497512 g/l NaHCO3 0.0497512 g/l Succinic acid 0.00597015 g/l Isobutyric acid 0.00497512 g/l 2-Methylbutyric acid 0.00497512 g/l Valeric acid 0.00497512 g/l 3-Methylbutyric acid 0.00497512 g/l HCl 0.00248756 g/l Caproic acid 0.00199005 g/l FeCl2 x 4 H2O 0.00149254 g/l Sodium resazurin 0.000497512 g/l NaOH 0.000497512 g/l Pyridoxine hydrochloride 0.000298507 g/l Nicotinic acid 0.000199005 g/l Thiamine-HCl x 2 H2O 0.000199005 g/l CoCl2 x 6 H2O 0.000189055 g/l MnCl2 x 4 H2O 9.95025e-05 g/l Calcium pantothenate 9.95025e-05 g/l Vitamin B12 9.95025e-05 g/l p-Aminobenzoic acid 7.9602e-05 g/l ZnCl2 6.96517e-05 g/l Na2MoO4 x 2 H2O 3.58209e-05 g/l NiCl2 x 6 H2O 2.38806e-05 g/l D-(+)-biotin 1.99005e-05 g/l H3BO3 5.97015e-06 g/l Na2WO4 x 2 H2O 3.9801e-06 g/l Na2SeO3 x 5 H2O 2.98507e-06 g/l CuCl2 x 2 H2O 1.99005e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15569positivegrowth60thermophilic
29070positivegrowth33-65
29070positiveoptimum60thermophilic
67770positivegrowth60thermophilic

culture pH

@refabilitytypepH
29070positivegrowth5.0-8.0
29070positiveoptimum6.25

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
15569anaerobe
29070anaerobe

spore formation

  • @ref: 29070
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
29070NaClpositivegrowth2.0-4.0 %
29070NaClpositiveoptimum3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2907029987glutamate+carbon source
2907016199urea+carbon source

metabolite production

  • @ref: 29070
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationlatitudelongitude
15569hydrothermal chimney sampleEast Pacific Rise 13° N13-103.568
67770Active deep-sea hydrothermal chimney on the East Pacific Rise

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Hydrothermal vent
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_86245.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_250;96_2425;97_2953;98_3693;99_86245&stattab=map
  • Last taxonomy: Nautilia abyssi
  • 16S sequence: AM937002
  • Sequence Identity:
  • Total samples: 7
  • aquatic counts: 6
  • animal counts: 1

Safety information

risk assessment

  • @ref: 15569
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15569
  • description: Nautilia abyssi partial 16S rRNA gene, type strain PH1209T
  • accession: AM937002
  • length: 1369
  • database: ena
  • NCBI tax ID: 498371

GC content

@refGC-contentmethod
1556935high performance liquid chromatography (HPLC)
2907035

External links

@ref: 15569

culture collection no.: DSM 21157, JCM 15390

straininfo link

  • @ref: 79713
  • straininfo: 396607

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19502307Nautilia abyssi sp. nov., a thermophilic, chemolithoautotrophic, sulfur-reducing bacterium isolated from an East Pacific Rise hydrothermal vent.Alain K, Callac N, Guegan M, Lesongeur F, Crassous P, Cambon-Bonavita MA, Querellou J, Prieur DInt J Syst Evol Microbiol10.1099/ijs.0.005454-02009Animals, Bacterial Typing Techniques, Base Composition, *Chemoautotrophic Growth, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Epsilonproteobacteria/*classification/genetics/isolation & purification/physiology, *Hot Temperature, Molecular Sequence Data, Phenotype, Phylogeny, Polychaeta/*microbiology, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species Specificity, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification/physiologyEnzymology
Phylogeny19667392Nautilia nitratireducens sp. nov., a thermophilic, anaerobic, chemosynthetic, nitrate-ammonifying bacterium isolated from a deep-sea hydrothermal vent.Perez-Rodriguez I, Ricci J, Voordeckers JW, Starovoytov V, Vetriani CInt J Syst Evol Microbiol10.1099/ijs.0.013904-02009Ammonia/metabolism, Bacterial Typing Techniques, Base Composition, *Chemoautotrophic Growth, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Epsilonproteobacteria/*classification/genetics/*isolation & purification/physiology, Genes, rRNA, Genotype, *Hot Temperature, Molecular Sequence Data, Nitrates/*metabolism, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15569Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21157)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21157
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29070Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2550028776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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
79713Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID396607.1StrainInfo: A central database for resolving microbial strain identifiers