Strain identifier

BacDive ID: 18100

Type strain: Yes

Species: Archaeoglobus sulfaticallidus

Strain Designation: PM70-1

Strain history: B. O. Steinsbu PM70-1.

NCBI tax ID(s): 1316941 (species)

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General

@ref: 8021

BacDive-ID: 18100

DSM-Number: 19444

keywords: genome sequence, 16S sequence, Archaea, anaerobe, thermophilic

description: Archaeoglobus sulfaticallidus PM70-1 is an anaerobe, thermophilic archaeon that was isolated from black rust formed on the steel surface of a seafloor borehole observatory exposed to hot ridge flank crustal fluids .

NCBI tax id

  • NCBI tax id: 1316941
  • Matching level: species

strain history

@refhistory
8021<- B. O. Steinsbu, Univ. Bergen, Norway; PM70-1 <- B. O. Steinsbu {2005}
67770B. O. Steinsbu PM70-1.

doi: 10.13145/bacdive18100.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Archaeoglobi
  • order: Archaeoglobales
  • family: Archaeoglobaceae
  • genus: Archaeoglobus
  • species: Archaeoglobus sulfaticallidus
  • full scientific name: Archaeoglobus sulfaticallidus Steinsbu et al. 2010

@ref: 8021

domain: Archaea

phylum: Euryarchaeota

class: Archaeoglobi

order: Archaeoglobales

family: Archaeoglobaceae

genus: Archaeoglobus

species: Archaeoglobus sulfaticallidus

full scientific name: Archaeoglobus sulfaticallidus Steinsbu et al. 2010

strain designation: PM70-1

type strain: yes

Morphology

cell morphology

  • @ref: 22889
  • cell length: 2.2 µm
  • cell width: 0.4 µm

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8021ARCHAEOGLOBUS SULFATICALLIDUS MEDIUM (DSMZ Medium 1278)yeshttps://mediadive.dsmz.de/medium/1278Name: ARCHAEOGLOBUS SULFATICALLIDUS MEDIUM (DSMZ Medium 1278) Composition: HEPES 4.70821 g/l MgCl2 x 6 H2O 4.25321 g/l Na2SO4 3.95648 g/l Na-DL-lactate 1.97824 g/l Yeast extract 0.98912 g/l Na2S x 9 H2O 0.49456 g/l KCl 0.336301 g/l NH4Cl 0.24728 g/l KH2PO4 0.138477 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 CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 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 Pyridoxine hydrochloride 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 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
22889HYL mediumyesHEPES (Sigma, H3375), 9.52 g; NaCl, 20.0 g; Na 2 SO 4 , 4.0 g; MgCl 2 . 6H 2 O, 4.3 g; NH 4 Cl, 0.25 g; KCl, 0.34 g; CaCl 2 . 2H 2 O, 0.14 g; K 2 HPO 4 . 3H 2 O, 0.14 g; yeast extract (Merck), 1.0 g; sodium lactate [ 50 % (w/v) solution, Merck ] , 4.5 ml; resazurin, 0.001 g; Fe(NH 4 ) 2 (SO 4 ) 2 . 6H 2 O, 0.002 g and 1 ml trace element solution. The trace element solution, modified from Hartzell & Reed (2006), contained (l 21 ): Na 2 EDTA . 2H 2 O, 29 g (pH 8); MnSO 4 . H 2 O, 3.26 g; CoCl 2 . 6H 2 O, 1.8 g; ZnSO 4 . 7H 2 O, 1.0 g; NiSO 4 . 6H 2 O, 0.11 g; CuSO 4 . 5H 2 O, 0.1 g; H 3 BO 3 , 0.1 g; KAl(SO 4 ) 2 . 12H 2 O, 0.1 g; Na 2 MoO 4 . 2H 2 O, 0.1 g; Na 2 WO 4 . 2H 2 O, 0.1 g and Na 2 SeO 3 , 0.05 g. The pH was adjusted to 7.2 at room temperature. After autoclaving in a dispenser (Widdel & Bak, 1992), the medium was cooled down under N 2 gas and then 10 ml vitamin solution (Balch et al., 1979) and 4 ml 0.5 M Na 2 S . 9H 2 O were added from sterilized anaerobic stocks. The pH was readjusted to 7.2 and the medium was dispensed into 50 or 100 ml serum bottles or 27 ml Balch tubes (Bellco) under a gas phase of N 2 (100 kPa).

culture temp

@refgrowthtypetemperaturerange
8021positivegrowth75thermophilic
22889positivemaximum80hyperthermophilic
22889positiveminimum60thermophilic
22889positivegrowth75thermophilic
67770positivegrowth75thermophilic

culture pH

@refabilitytypepH
22889positivemaximum7.6
22889positiveminimum6.3

Physiology and metabolism

oxygen tolerance

  • @ref: 8021
  • oxygen tolerance: anaerobe

halophily

@refsaltgrowthtested relationconcentration
22889NaClpositivemaximum3.5 %(w/v)
22889NaClpositiveminimum0.5 %(w/v)
22889NaClpositiveoptimum2 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2288916189sulfate+electron acceptor
2288917359sulfite+electron acceptor
2288916094thiosulfate+electron acceptor
2288917632nitrate-electron acceptor
2288918248iron-electron acceptor
2288915740formate-electron donor
2288915361pyruvate+electron donor
2288924996lactate+electron donor
2288930089acetate-electron donor
22889yeast extract-electron donor

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
8021black rust formed on the steel surface of a seafloor borehole observatory (ODP CORK 1026B) exposed to hot ridge flank crustal fluids (64°C, water depth 2658 m)eastern flank of the Juan de Fuca RidgeCanadaCANNorth America
67770Black rust formed on the steel surface of a borehole observatory (ODP CORK 1026B) on the eastern flank of Juan de Fuca Ridgeeastern Pacific OceanPacific Ocean

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_187293.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17856;96_68914;97_89564;98_121855;99_187293&stattab=map
  • Last taxonomy: Archaeoglobus sulfaticallidus subclade
  • 16S sequence: FJ810190
  • Sequence Identity:
  • Total samples: 20
  • soil counts: 1
  • aquatic counts: 19

Safety information

risk assessment

  • @ref: 8021
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 8021
  • description: Archaeoglobus sulfaticallidus PM70-1 16S ribosomal RNA gene, partial sequence
  • accession: FJ810190
  • length: 1453
  • database: ena
  • NCBI tax ID: 387631

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Archaeoglobus sulfaticallidus PM70-1GCA_000385565completencbi387631
66792Archaeoglobus sulfaticallidus PM70-1, DSM 194442522125074completeimg387631
66792Archaeoglobus sulfaticallidus PM70-1387631.5completepatric387631

GC content

@refGC-contentmethod
802142thermal denaturation, midpoint method (Tm)
802143.2sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno88.078no
flagellatedno96.626no
gram-positiveno97.548no
anaerobicyes98.047yes
aerobicno95.834no
halophileno81.794no
spore-formingno93.821no
thermophileyes99.999yes
glucose-utilyes70.843no
glucose-fermentno79.373no

External links

@ref: 8021

culture collection no.: DSM 19444, JCM 14716

straininfo link

  • @ref: 87088
  • straininfo: 407160

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20061497Archaeoglobus sulfaticallidus sp. nov., a thermophilic and facultatively lithoautotrophic sulfate-reducer isolated from black rust exposed to hot ridge flank crustal fluids.Steinsbu BO, Thorseth IH, Nakagawa S, Inagaki F, Lever MA, Engelen B, Ovreas L, Pedersen RBInt J Syst Evol Microbiol10.1099/ijs.0.016105-02010Archaeoglobus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Archaeal/genetics, Hot Temperature, Molecular Sequence Data, Oxidation-Reduction, Pacific Ocean, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sulfates/metabolismStress
Genetics23833130Complete Genome Sequence of the Thermophilic and Facultatively Chemolithoautotrophic Sulfate Reducer Archaeoglobus sulfaticallidus Strain PM70-1T.Stokke R, Hocking WP, Steinsbu BO, Steen IHGenome Announc10.1128/genomeA.00406-132013

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8021Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19444)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19444
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
22889Bjørn O. Steinsbu, Ingunn H. Thorseth, Satoshi Nakagawa, Fumio Inagaki, Mark A. Lever, Bert Engelen, Lise Øvreås, Rolf B. Pedersen10.1099/ijs.0.016105-0Archaeoglobus sulfaticallidus sp. nov., a thermophilic and facultatively lithoautotrophic sulfate-reducer isolated from black rust exposed to hot ridge flank crustal fluidsIJSEM 60: 2745-2752 201020061497
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
87088Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407160.1StrainInfo: A central database for resolving microbial strain identifiers