Strain identifier

BacDive ID: 4192

Type strain: Yes

Species: Ignisphaera aggregans

Strain Designation: AQ1.S1, TG 866

Strain history: T. Niederberger AQ1.S1.

NCBI tax ID(s): 583356 (strain), 334771 (species)

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General

@ref: 6827

BacDive-ID: 4192

DSM-Number: 17230

keywords: genome sequence, 16S sequence, Archaea, anaerobe, heterotroph, spore-forming, hyperthermophilic, coccus-shaped, colony-forming

description: Ignisphaera aggregans AQ1.S1 is an anaerobe, heterotroph, spore-forming archaeon that forms irregular colonies and was isolated from hot spring.

NCBI tax id

NCBI tax idMatching level
334771species
583356strain

strain history

@refhistory
6827<- T. D. Niederberger, Thermophile Res. Unit, Univ. Waikato, Hamilton, New Zealand; AQ1.S1
67770T. Niederberger AQ1.S1.

doi: 10.13145/bacdive4192.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/thermoproteota
  • domain: Archaea
  • phylum: Thermoproteota
  • class: Thermoprotei
  • order: Desulfurococcales
  • family: Desulfurococcaceae
  • genus: Ignisphaera
  • species: Ignisphaera aggregans
  • full scientific name: Ignisphaera aggregans Niederberger et al. 2006

@ref: 6827

domain: Archaea

phylum: Crenarchaeota

class: Thermoprotei

order: Desulfurococcales

family: Desulfurococcaceae

genus: Ignisphaera

species: Ignisphaera aggregans

full scientific name: Ignisphaera aggregans Niederberger et al. 2006

strain designation: AQ1.S1, TG 866

type strain: yes

Morphology

cell morphology

@refcell lengthcell shapegram stainconfidence
232211.0-1.5 µmcoccus-shaped
69480negative99.97

colony morphology

  • @ref: 23221
  • colony shape: irregular

multimedia

  • @ref: 66793
  • multimedia content: EM_DSM_17230_1.jpg
  • caption: electron microscopic image
  • intellectual property rights: © HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 6827
  • name: IGNISPHAERA MEDIUM (DSMZ Medium 1043)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1043
  • composition: Name: IGNISPHAERA MEDIUM (DSMZ Medium 1043) Composition: Starch 1.97824 g/l Trypticase peptone 1.97824 g/l (NH4)2SO4 1.28586 g/l Na2S x 9 H2O 0.296736 g/l L-Cysteine HCl x H2O 0.296736 g/l KH2PO4 0.276954 g/l Yeast extract 0.098912 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 CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l Sodium resazurin 0.00049456 g/l FeCl3 x 6 H2O 0.00049456 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l CuSO4 x 5 H2O 9.8912e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Distilled water

culture temp

@refgrowthtypetemperaturerangeconfidence
6827positivegrowth92hyperthermophilic
23221positivegrowth85-98hyperthermophilic
23221positiveoptimum92-95hyperthermophilic
67770positivegrowth92hyperthermophilic
69480thermophilic99.999

culture pH

@refabilitytypepH
23221positivegrowth5.4-7.0
23221positiveoptimum6.4

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
6827anaerobe
23221obligate anaerobe
69480anaerobe99.999

nutrition type

  • @ref: 23221
  • type: heterotroph

spore formation

@refspore formationconfidence
69481yes100
69480no99.967

halophily

@refsaltgrowthtested relationconcentration
23221NaClpositivegrowth0-0.5 %
23221NaClpositiveoptimum0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23221495055beta-cyclodextrin+carbon source
2322128260galactose+carbon source
2322117020glucomannan+carbon source
2322117234glucose+carbon source
2322128087glycogen+carbon source
2322117716lactose+carbon source
2322117306maltose+carbon source
2322137684mannose+carbon source
23221peptone+carbon source
2322128017starch+carbon source
2322133403elemental sulfur+electron acceptor
2322117632nitrate+electron acceptor
2322116301nitrite+electron acceptor
2322117359sulfite+electron acceptor
2322147869thioglycolate+electron acceptor
2322116094thiosulfate+electron acceptor

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantis sensitive
2322128368novobiocinyesyes
2322117076streptomycinyesyes
2322117698chloramphenicolyesyes
2322148923erythromycinyesyes
2322128077rifampicinyesyes

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6827hot springRotorua, Kuirau ParkNew ZealandNZLAustralia and Oceania
23221nearneutral, boiling spring in Kuirau Park
67770Terrestrial, near-neutral hot spring in Kuirau ParkRotoruaNew ZealandNZLAustralia and Oceania

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_189526.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17937;96_69077;97_89751;98_122058;99_189526&stattab=map
  • Last taxonomy: Ignisphaera aggregans subclade
  • 16S sequence: DQ060321
  • Sequence Identity:
  • Total samples: 26
  • aquatic counts: 26

Safety information

risk assessment

  • @ref: 6827
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6827
  • description: Ignisphaera aggregans strain AQ1.S1 16S ribosomal RNA gene, partial sequence
  • accession: DQ060321
  • length: 1491
  • database: ena
  • NCBI tax ID: 583356

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Ignisphaera aggregans DSM 17230GCA_000145985completencbi583356
66792Ignisphaera aggregans AQ1.S1, DSM 17230648028035completeimg583356
66792Ignisphaera aggregans DSM 17230583356.9completepatric583356

GC content

@refGC-contentmethod
682752.9
2322152.9Thermal denaturation, fluorometry
6777052.9thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno82.501no
flagellatedno94.033no
gram-positiveno97.69no
anaerobicyes99.165yes
aerobicno97.893yes
halophileno85.959no
spore-formingno97.316no
thermophileyes100no
glucose-utilyes87.188yes
glucose-fermentno50no

External links

@ref: 6827

culture collection no.: DSM 17230, JCM 13409

straininfo link

  • @ref: 73692
  • straininfo: 290976

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16627639Ignisphaera aggregans gen. nov., sp. nov., a novel hyperthermophilic crenarchaeote isolated from hot springs in Rotorua and Tokaanu, New Zealand.Niederberger TD, Gotz DK, McDonald IR, Ronimus RS, Morgan HWInt J Syst Evol Microbiol10.1099/ijs.0.63899-02006Base Composition, Carbohydrate Metabolism, Cell Adhesion, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desulfurococcales/*classification/cytology/*isolation & purification/physiology, Genes, rRNA/genetics, Growth Inhibitors/pharmacology, Hot Springs/*microbiology, Hot Temperature, Hydrogen-Ion Concentration, Mannans/metabolism, Microscopy, Electron, Scanning, Microscopy, Phase-Contrast, Molecular Sequence Data, New Zealand, Peptones/metabolism, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/pharmacology, Sulfur/pharmacology, Water MicrobiologyMetabolism
Phylogeny17207984The microbial ecology of a high-temperature near-neutral spring situated in Rotorua, New Zealand.Niederberger TD, Ronimus RS, Morgan HWMicrobiol Res10.1016/j.micres.2006.09.0012007Adenosine Triphosphate/metabolism, Archaea/classification/genetics/*isolation & purification/metabolism, Biofilms/growth & development, *Ecology, Hot Springs/*microbiology, Molecular Sequence Data, New Zealand, Phylogeny, *Water MicrobiologyMetabolism
Genetics21304693Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1).Goker M, Held B, Lapidus A, Nolan M, Spring S, Yasawong M, Lucas S, Glavina Del Rio T, Tice H, Cheng JF, Goodwin L, Tapia R, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Brambilla E, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Detter JC, Han C, Rohde M, Sikorski J, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HPStand Genomic Sci10.4056/sigs.10729072010

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6827Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17230)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17230
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
23221Thomas D. Niederberger, Dorothee K. Götz, Ian R. McDonald, Ron S. Ronimus, Hugh W. Morgan10.1099/ijs.0.63899-0Ignisphaera aggregans gen. nov., sp. nov., a novel hyperthermophilic crenarchaeote isolated from hot springs in Rotorua and Tokaanu, New ZealandIJSEM 56: 965-971 200616627639
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
73692Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID290976.1StrainInfo: A central database for resolving microbial strain identifiers