Strain identifier

BacDive ID: 4200

Type strain: No

Species: Desulfurococcus amylolyticus

Strain Designation: 1221n

Strain history: DSM 18924 <-- I. V. Kublanov 1221n.

NCBI tax ID(s): 94694 (species)

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General

@ref: 7778

BacDive-ID: 4200

DSM-Number: 18924

keywords: genome sequence, 16S sequence, Archaea, anaerobe, chemoorganoheterotroph, hyperthermophilic, coccus-shaped

description: Desulfurococcus amylolyticus 1221n is an anaerobe, chemoorganoheterotroph, hyperthermophilic archaeon that was isolated from mixed water and sediment.

NCBI tax id

  • NCBI tax id: 94694
  • Matching level: species

strain history

@refhistory
7778<- I.V. Kublanov; 1221n
67770DSM 18924 <-- I. V. Kublanov 1221n.

doi: 10.13145/bacdive4200.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/thermoproteota
  • domain: Archaea
  • phylum: Thermoproteota
  • class: Thermoprotei
  • order: Desulfurococcales
  • family: Desulfurococcaceae
  • genus: Desulfurococcus
  • species: Desulfurococcus amylolyticus
  • full scientific name: Desulfurococcus amylolyticus Bonch-Osmolovskaya et al. 2001

  • synonyms

    @refsynonym
    20215Desulfurococcus fermentans
    20215Desulfurococcus kamchatkensis

@ref: 7778

domain: Archaea

phylum: Crenarchaeota

class: Thermoprotei

order: Desulfurococcales

family: Desulfurococcaceae

genus: Desulfurococcus

species: Desulfurococcus amylolyticus

full scientific name: Desulfurococcus amylolyticus Bonch-Osmolovskaya et al. 2001 emend. Perevalova et al. 2016

strain designation: 1221n

type strain: no

Morphology

cell morphology

  • @ref: 23226
  • cell length: 0.6-1.0 µm
  • cell shape: coccus-shaped
  • motility: no

Culture and growth conditions

culture medium

  • @ref: 7778
  • name: DESULFUROCOCCUS MEDIUM (DSMZ Medium 395)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/395
  • composition: Name: DESULFUROCOCCUS MEDIUM (DSMZ Medium 395) Composition: Sulfur 9.98004 g/l D-Glucose 2.49501 g/l MgCl2 x 6 H2O 0.698603 g/l Na2S x 9 H2O 0.499002 g/l NaCl 0.499002 g/l CaCl2 x 2 H2O 0.439122 g/l KCl 0.329341 g/l KH2PO4 0.329341 g/l NH4Cl 0.329341 g/l Yeast extract 0.199601 g/l HCl 0.00249501 g/l FeCl2 x 4 H2O 0.00149701 g/l Sodium resazurin 0.000499002 g/l CoCl2 x 6 H2O 0.000189621 g/l Pyridoxine hydrochloride 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l ZnCl2 6.98603e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Na2MoO4 x 2 H2O 3.59281e-05 g/l NiCl2 x 6 H2O 2.39521e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l H3BO3 5.98802e-06 g/l CuCl2 x 2 H2O 1.99601e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7778positivegrowth82hyperthermophilic
23226positivegrowth65-87hyperthermophilic
23226positiveoptimum85hyperthermophilic
67770positivegrowth82hyperthermophilic

culture pH

@refabilitytypepH
23226positivegrowth5.5-7.5
23226positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
7778anaerobe
23226obligate anaerobe

nutrition type

  • @ref: 23226
  • type: chemoorganoheterotroph

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2322630089acetate-carbon source
2322622599arabinose-carbon source
2322685146carboxymethylcellulose-carbon source
23226casamino acids-carbon source
23226casein-carbon source
23226casein hydrolysate-carbon source
2322617057cellobiose-carbon source
2322662968cellulose-carbon source
2322617029chitin-carbon source
2322616236ethanol-carbon source
2322628757fructose-carbon source
2322629806fumarate-carbon source
2322628260galactose-carbon source
2322617716lactose-carbon source
2322617306maltose-carbon source
2322617790methanol-carbon source
2322617309pectin-carbon source
2322615361pyruvate-carbon source
2322628017starch-carbon source
2322630031succinate-carbon source
2322637166xylan-carbon source
2322617632nitrate-growth
2322617359sulfite-growth
2322616094thiosulfate-growth
2322633403elemental sulfur+electron acceptor
2322652071dextran+energy source
2322623652dextrin+energy source
232265291gelatin+energy source
2322617234glucose+energy source
23226peptone+energy source
2322617992sucrose+energy source
23226tryptone+energy source
23226yeast extract+energy source
2322652071dextran+fermentation
2322623652dextrin+fermentation
232265291gelatin+fermentation
2322617234glucose+fermentation
23226peptone+fermentation
2322617992sucrose+fermentation
23226tryptone+fermentation
23226yeast extract+fermentation

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
7778mixed water and sedimentKamchatka, Uzon Caldera, Izvilistyi hot spring (54°50'0.6'' N, 160°00'57.1'' E)RussiaRUSAsia54.8335160.016
23226Izvilistyi spring of Central Field
67770Hot spring of UzonCaldera, Kamchatka PeninsulaRussiaRUS

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Spring
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_187108.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17883;96_68795;97_89437;98_121707;99_187108&stattab=map
  • Last taxonomy: Desulfurococcus amylolyticus subclade
  • 16S sequence: EU167539
  • Sequence Identity:
  • Total samples: 27
  • aquatic counts: 25
  • animal counts: 2

Safety information

risk assessment

  • @ref: 7778
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7778
  • description: Desulfurococcus kamchatkensis strain 1221n 16S ribosomal RNA gene, complete sequence
  • accession: EU167539
  • length: 1496
  • database: ena
  • NCBI tax ID: 490899

Genome sequences

  • @ref: 66792
  • description: Desulfurococcus amylolyticus 1221n
  • accession: GCA_000020905
  • assembly level: complete
  • database: ncbi
  • NCBI tax ID: 490899

GC content

@refGC-contentmethod
777844.4
2322644.4Thermal denaturation, fluorometry
6777044.4thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno64.398yes
flagellatedno90.96no
gram-positiveno94.65no
anaerobicyes99.064yes
aerobicno96.526yes
halophileno78.144no
spore-formingno98.086no
thermophileyes100no
glucose-utilyes77.73no
glucose-fermentno58.149yes

External links

@ref: 7778

culture collection no.: DSM 18924, JCM 16383, VKM B-2413

straininfo link

  • @ref: 73700
  • straininfo: 402929

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19542129Desulfurococcus kamchatkensis sp. nov., a novel hyperthermophilic protein-degrading archaeon isolated from a Kamchatka hot spring.Kublanov IV, Bidjieva SKh, Mardanov AV, Bonch-Osmolovskaya EAInt J Syst Evol Microbiol10.1099/ijs.0.006726-02009Anaerobiosis, Base Composition, DNA, Archaeal/analysis, Desulfurococcaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Genotype, Hot Springs/*microbiology, *Hot Temperature, Keratins/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Proteins/*metabolism, RNA, Ribosomal, 16S/genetics, Russia, Sequence Analysis, DNA, Species SpecificityGenetics
32195286Identified Hybrid tRNA Structure Genes in Archaeal Genome.Mandal UR, Das SS, Chattopadhyay B, Sahoo SIran J Biotechnol10.29252/ijb.22542019

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7778Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18924)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18924
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
23226I. V. Kublanov, S. Kh. Bidjieva, A. V. Mardanov, E. A. Bonch-Osmolovskaya10.1099/ijs.0.006726-0Desulfurococcus kamchatkensis sp. nov., a novel hyperthermophilic protein-degrading archaeon isolated from a Kamchatka hot springIJSEM 59: 1743-1747 200919542129
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
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
73700Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402929.1StrainInfo: A central database for resolving microbial strain identifiers