Strain identifier

BacDive ID: 134189

Type strain: Yes

Species: Halococcus hamelinensis

Strain Designation: 100A6

Strain history: F. Goh 100A6.

NCBI tax ID(s): 1132509 (strain), 332168 (species)

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General

@ref: 31751

BacDive-ID: 134189

keywords: genome sequence, 16S sequence, Archaea, aerobe, mesophilic, Gram-negative, coccus-shaped

description: Halococcus hamelinensis 100A6 is an aerobe, mesophilic, Gram-negative archaeon that was isolated from stromatolites.

NCBI tax id

NCBI tax idMatching level
332168species
1132509strain

strain history

  • @ref: 67770
  • history: F. Goh 100A6.

doi: 10.13145/bacdive134189.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Halobacteriales
  • family: Halococcaceae
  • genus: Halococcus
  • species: Halococcus hamelinensis
  • full scientific name: Halococcus hamelinensis Goh et al. 2006

@ref: 31751

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halococcaceae

genus: Halococcus

species: Halococcus hamelinensis

strain designation: 100A6

type strain: yes

Morphology

cell morphology

  • @ref: 31751
  • gram stain: negative
  • cell width: 0.8-1.2 µm
  • cell shape: coccus-shaped
  • motility: no

pigmentation

  • @ref: 31751
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31751positivegrowth37mesophilic
31751positiveoptimum37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31751positivegrowth04-09alkaliphile
31751positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31751
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31751
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31751NaClpositivegrowth12.5-30 %
31751NaClpositiveoptimum15 %

observation

  • @ref: 31751
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3175117234glucose+carbon source
3175117754glycerol+carbon source
3175117306maltose+carbon source
3175117992sucrose+carbon source
3175127082trehalose+carbon source
3175118222xylose+carbon source

enzymes

  • @ref: 31751
  • value: catalase
  • activity: +
  • ec: 1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
31751stromatolites
67770Stromalites of Shark BayHamelin Pool, Western AustraliaAustraliaAUSAustralia and Oceania

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Geologic

taxonmaps

  • @ref: 69479
  • File name: preview.99_194011.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17985;96_69467;97_90229;98_126422;99_194011&stattab=map
  • Last taxonomy: Halococcus
  • 16S sequence: DQ017835
  • Sequence Identity:
  • Total samples: 2
  • aquatic counts: 2

Sequence information

16S sequences

  • @ref: 31751
  • description: Halococcus hamelinensis strain 100A6 16S ribosomal RNA gene, partial sequence
  • accession: DQ017835
  • length: 1312
  • database: nuccore
  • NCBI tax ID: 1132509

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halococcus hamelinensis 100A62502171174draftimg1132509
66792Halococcus hamelinensis 100A62529292733draftimg1132509
67770Halococcus hamelinensis 100A6GCA_000259215contigncbi1132509
67770Halococcus hamelinensis 100A6GCA_000336675contigncbi1132509
66792Halococcus hamelinensis 100A61132509.6wgspatric1132509
66792Halococcus hamelinensis 100A61132509.4wgspatric1132509

GC content

  • @ref: 31751
  • GC-content: 60.5

External links

@ref: 31751

culture collection no.: JCM 12892, ACM 5227, CIP 109336

straininfo link

  • @ref: 91784
  • straininfo: 297188

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16738110Halococcus hamelinensis sp. nov., a novel halophilic archaeon isolated from stromatolites in Shark Bay, Australia.Goh F, Leuko S, Allen MA, Bowman JP, Kamekura M, Neilan BA, Burns BPInt J Syst Evol Microbiol10.1099/ijs.0.64180-02006Australia, Halococcus/*classification/*isolation & purification/ultrastructure, Hot Temperature, Microscopy, Electron, Scanning, Molecular Sequence Data, Phylogeny, RNA, Archaeal/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyStress
Metabolism20437233Identification of polyhydroxyalkanoates in Halococcus and other haloarchaeal species.Legat A, Gruber C, Zangger K, Wanner G, Stan-Lotter HAppl Microbiol Biotechnol10.1007/s00253-010-2611-62010Australia, Geologic Sediments/microbiology, Halobacteriaceae/*chemistry/isolation & purification/metabolism/ultrastructure, Halococcus/*chemistry/isolation & purification/metabolism/ultrastructure, Hydroxybutyrates/*chemistry/metabolism, Magnetic Resonance Spectroscopy, Microscopy, Electron, Transmission, Polyesters/*chemistry/metabolismEnzymology
Phylogeny30311879Halococcus salsus sp. nov., a novel halophilic archaeon isolated from rock salt.Chen S, Sun S, Xu Y, Liu HCInt J Syst Evol Microbiol10.1099/ijsem.0.0030512018Base Composition, Bolivia, China, DNA, Archaeal/genetics, Halococcus/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Organophosphorus Compounds/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium ChlorideTranscriptome

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
31751Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172802528776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
91784Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID297188.1