Strain identifier

BacDive ID: 13665

Type strain: Yes

Species: Jannaschia helgolandensis

Strain history: CIP <- 2003, NCIMB <- I. Wagner-Döbler, Germany: strain Hel10

NCBI tax ID(s): 188906 (species)

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General

@ref: 5582

BacDive-ID: 13665

DSM-Number: 14858

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Jannaschia helgolandensis DSM 14858 is a mesophilic, Gram-negative bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 188906
  • Matching level: species

strain history

@refhistory
5582<- I. Wagner-Döbler; Hel10
119858CIP <- 2003, NCIMB <- I. Wagner-Döbler, Germany: strain Hel10

doi: 10.13145/bacdive13665.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Jannaschia
  • species: Jannaschia helgolandensis
  • full scientific name: Jannaschia helgolandensis Wagner-Döbler et al. 2003

@ref: 5582

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Jannaschia

species: Jannaschia helgolandensis

full scientific name: Jannaschia helgolandensis Wagner-Döbler et al. 2003

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.984
119858negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5582BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
39977Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119858CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5582positivegrowth28mesophilic
39977positivegrowth30mesophilic
119858positivegrowth15-30
119858nogrowth5psychrophilic
119858nogrowth37mesophilic
119858nogrowth41thermophilic
119858nogrowth45thermophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
119858NaClnogrowth0 %
119858NaClnogrowth2 %
119858NaClnogrowth4 %
119858NaClnogrowth6 %
119858NaClnogrowth8 %
119858NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
11985816947citrate-carbon source
1198584853esculin-hydrolysis
119858606565hippurate-hydrolysis
11985817632nitrate-builds gas from
11985817632nitrate-reduction
11985816301nitrite-builds gas from
11985816301nitrite-reduction
11985815792malonate-assimilation

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11985835581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6836935581indole-
11985815688acetoin-
11985817234glucose+

enzymes

@refvalueactivityec
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
119858oxidase-
119858beta-galactosidase+3.2.1.23
119858alcohol dehydrogenase-1.1.1.1
119858gelatinase-
119858amylase-
119858caseinase-3.4.21.50
119858catalase+1.11.1.6
119858tween esterase+
119858gamma-glutamyltransferase+2.3.2.2
119858lecithinase-
119858lipase-
119858lysine decarboxylase-4.1.1.18
119858ornithine decarboxylase-4.1.1.17
119858phenylalanine ammonia-lyase+4.3.1.24
119858tryptophan deaminase-
119858urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382lipase (C 14)-
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382beta-glucuronidase-3.2.1.31
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
5582-+-+/--+/---------------
119858-+++-+----++++-+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
5582-----+-+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
5582seawaterNorth Sea, Helgoland, 54°08'N, 7°52'EGermanyDEUEurope54.13337.8667
119858Environment, SeawaterGermanyDEUEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_72244.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_971;97_1131;98_1348;99_72244&stattab=map
  • Last taxonomy: Jannaschia helgolandensis
  • 16S sequence: AJ438157
  • Sequence Identity:
  • Total samples: 589
  • soil counts: 20
  • aquatic counts: 517
  • animal counts: 52

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
55821Risk group (German classification)
1198581Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5582
  • description: Jannaschia helgolandensis partial 16S rRNA gene, strain Hel 10
  • accession: AJ438157
  • length: 1366
  • database: ena
  • NCBI tax ID: 188906

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Jannaschia helgolandensis DSM 14858GCA_900109285scaffoldncbi188906
66792Jannaschia helgolandensis strain DSM 14858188906.3wgspatric188906
66792Jannaschia helgolandensis DSM 148582622736446draftimg188906

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentno90.415yes
motileno56.965no
flagellatedno93.659no
gram-positiveno98.012no
anaerobicno98.169no
aerobicyes91.633no
halophileyes76.356no
spore-formingno96.041no
thermophileno98.716yes
glucose-utilyes73.808yes

External links

@ref: 5582

culture collection no.: DSM 14858, HEL Hel10, HEL 10, CIP 108047, NCIMB 13941

straininfo link

  • @ref: 82848
  • straininfo: 100699

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12807194Jannaschia helgolandensis gen. nov., sp. nov., a novel abundant member of the marine Roseobacter clade from the North Sea.Wagner-Dobler I, Rheims H, Felske A, Pukall R, Tindall BJInt J Syst Evol Microbiol10.1099/ijs.0.02377-02003Alphaproteobacteria/chemistry/*classification/genetics/physiology, Bacterial Typing Techniques, DNA, Ribosomal, Fatty Acids/analysis, Molecular Sequence Data, North Sea, Phylogeny, RNA, Ribosomal, 16S, Rhodobacter/classification, Seawater/*microbiology, Sequence Analysis, DNAGenetics
Phylogeny31066657Jannaschia formosa sp. nov., isolated from marine saltern sediment.Zhang R, Wang C, Wang XT, Mu DS, Du ZJInt J Syst Evol Microbiol10.1099/ijsem.0.0034242019Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/isolation & purification, *Salinity, Sequence Analysis, DNATranscriptome
Phylogeny33893528Alterinioella nitratireducens gen. nov., sp. nov., Isolated from Seawater in the West Pacific Ocean.Kong YH, Sun C, Guo LL, Xu L, Wu YH, Xu XWCurr Microbiol10.1007/s00284-021-02475-z2021Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Nucleic Acid Hybridization, Pacific Ocean, *Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae, Seawater, Sequence Analysis, DNA, *UbiquinoneTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5582Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14858)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14858
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
39977Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5626
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
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
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
82848Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100699.1StrainInfo: A central database for resolving microbial strain identifiers
119858Curators of the CIPCollection of Institut Pasteur (CIP 108047)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108047