Strain identifier

BacDive ID: 5923

Type strain: Yes

Species: Halococcus saccharolyticus

Strain Designation: P-423, P423

Strain history: CIP <- 2003, DSMZ <- A. Ventosa, Cadiz, Spain: strain P423

NCBI tax ID(s): 1227455 (strain), 62319 (species)

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General

@ref: 1997

BacDive-ID: 5923

DSM-Number: 5350

keywords: genome sequence, 16S sequence, Archaea, mesophilic, ovoid-shaped

description: Halococcus saccharolyticus P-423 is a mesophilic, ovoid-shaped archaeon that was isolated from salt.

NCBI tax id

NCBI tax idMatching level
62319species
1227455strain

strain history

@refhistory
1997<- A. Ventosa, P-423
67770ATCC 49257 <-- A. Ventosa P-423.
122336CIP <- 2003, DSMZ <- A. Ventosa, Cadiz, Spain: strain P423

doi: 10.13145/bacdive5923.20230509.8.1

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 saccharolyticus
  • full scientific name: Halococcus saccharolyticus Montero et al. 1990

@ref: 1997

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Halococcaceae

genus: Halococcus

species: Halococcus saccharolyticus

full scientific name: Halococcus saccharolyticus Montero et al. 1990

strain designation: P-423, P423

type strain: yes

Morphology

cell morphology

  • @ref: 122336
  • cell shape: ovoid-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1997HALOBACTERIA MEDIUM (DSMZ Medium 372)yeshttps://mediadive.dsmz.de/medium/372Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
39982MEDIUM 330 - for Natrinema pallidumyesDistilled water make up to (1000.000 ml);Sodium chloride (200.000 g);Potassium chloride (2.000 g);ManganeseII chloride tetrahydrate (0.360 mg);Magnesium sulphate heptahydrate (20.000 g);Agar (20.000 g);Yeast extract (5.000 g);Ferrous chloride tetrahydrate
122336CIP Medium 330yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=330

culture temp

@refgrowthtypetemperaturerange
1997positivegrowth37mesophilic
39982positivegrowth37mesophilic
67770positivegrowth37mesophilic
122336positivegrowth30-41
122336nogrowth5psychrophilic
122336nogrowth15psychrophilic
122336nogrowth25mesophilic
122336nogrowth45thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
122336NaClnogrowth0 %
122336NaClnogrowth2 %
122336NaClnogrowth4 %
122336NaClnogrowth6 %
122336NaClnogrowth8 %
122336NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12233616947citrate-carbon source
1223364853esculin-hydrolysis
122336606565hippurate-hydrolysis
12233617632nitrate-builds gas from
12233617632nitrate-reduction
12233616301nitrite-builds gas from
12233616301nitrite-reduction
12233615792malonate-assimilation

metabolite production

  • @ref: 122336
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12233615688acetoin-
12233617234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
122336oxidase-
122336beta-galactosidase-3.2.1.23
122336alcohol dehydrogenase-1.1.1.1
122336gelatinase-
122336catalase+1.11.1.6
122336gamma-glutamyltransferase+2.3.2.2
122336lysine decarboxylase-4.1.1.18
122336ornithine decarboxylase-4.1.1.17
122336phenylalanine ammonia-lyase-4.3.1.24
122336tryptophan deaminase-
122336urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122336-+++-------+--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
1997saltCadizSpainESPEurope
67770Ponds of saltern in San FernandoCáidzSpainESPEurope
122336SaltCadizSpainESPEurope

isolation source categories

  • Cat1: #Condition
  • Cat2: #Saline

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
19971Risk group (German classification)
1223361Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halococcus saccharolyticus gene for 16S rRNA, complete sequence, strain: JCM 8878AB6633701474ena62319
1997Halococcus saccharolyticus DNA for 16S rRNAAB0048761472ena62319

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halococcus saccharolyticus DSM 53502554235495draftimg1227455
67770Halococcus saccharolyticus DSM 5350GCA_000336915contigncbi1227455
66792Halococcus saccharolyticus DSM 53501227455.4wgspatric1227455

GC content

@refGC-contentmethod
6777064thermal denaturation, midpoint method (Tm)
6777059.5thermal denaturation, midpoint method (Tm)

External links

@ref: 1997

culture collection no.: DSM 5350, ATCC 49257, CCM 4147, CIP 108107, JCM 8878, CGMCC 1.6994, NCIMB 12837, VKM B-1770

straininfo link

  • @ref: 75404
  • straininfo: 42386

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
Phylogeny25721723Halococcus agarilyticus sp. nov., an agar-degrading haloarchaeon isolated from commercial salt.Minegishi H, Echigo A, Shimane Y, Kamekura M, Itoh T, Ohkuma M, Usami RInt J Syst Evol Microbiol10.1099/ijs.0.0001512015Agar, Base Composition, DNA, Archaeal/genetics, Genes, Archaeal, Glycolipids/chemistry, Halococcus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylglycerols/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium ChlorideGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1997Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5350)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5350
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
39982Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5693
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)
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/
68382Automatically annotated from API zym
75404Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID42386.1StrainInfo: A central database for resolving microbial strain identifiers
122336Curators of the CIPCollection of Institut Pasteur (CIP 108107)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108107