Strain identifier

BacDive ID: 5609

Type strain: Yes

Species: Maribacter polysiphoniae

Strain history: <- KCTC <- O. N. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok, Russia

NCBI tax ID(s): 429344 (species)

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General

@ref: 17252

BacDive-ID: 5609

DSM-Number: 23514

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Maribacter polysiphoniae DSM 23514 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from red alga Polysiphonia japonica .

NCBI tax id

  • NCBI tax id: 429344
  • Matching level: species

strain history

  • @ref: 17252
  • history: <- KCTC <- O. N. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok, Russia

doi: 10.13145/bacdive5609.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Maribacter
  • species: Maribacter polysiphoniae
  • full scientific name: Maribacter polysiphoniae Nedashkovskaya et al. 2007

@ref: 17252

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Maribacter

species: Maribacter polysiphoniae

full scientific name: Maribacter polysiphoniae Nedashkovskaya et al. 2007

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
32242negative5.6 µm0.5 µmrod-shapedyesgliding
69480negative99.868

pigmentation

  • @ref: 32242
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17252
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
17252positivegrowth28mesophilic
32242positivegrowth04-41
32242positiveoptimum31mesophilic

culture pH

@refabilitytypepHPH range
32242positivegrowth5.5-10.0alkaliphile
32242positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 32242
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
32242NaClpositivegrowth01-08 %
32242NaClpositiveoptimum1.75 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3224222599arabinose+carbon source
3224217057cellobiose+carbon source
3224228757fructose+carbon source
3224228260galactose+carbon source
3224217234glucose+carbon source
3224217716lactose+carbon source
3224217306maltose+carbon source
3224229864mannitol+carbon source
3224237684mannose+carbon source
3224228053melibiose+carbon source
32242506227N-acetylglucosamine+carbon source
3224216634raffinose+carbon source
3224217992sucrose+carbon source
3224253424tween 20+carbon source
3224253423tween 40+carbon source
3224253426tween 80+carbon source
3224218222xylose+carbon source
322424853esculin+hydrolysis

enzymes

@refvalueactivityec
32242alkaline phosphatase+3.1.3.1
32242catalase+1.11.1.6
32242gelatinase+
32242cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 17252
  • sample type: red alga Polysiphonia japonica
  • host species: Polysiphonia japonica
  • geographic location: Sea of Japan, Gulf of Peter the Great, Troitsa Bay
  • country: Russia
  • origin.country: RUS
  • continent: Asia

isolation source categories

  • Cat1: #Host
  • Cat2: #Algae
  • Cat3: #Red algae

taxonmaps

  • @ref: 69479
  • File name: preview.99_45689.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_141;96_3141;97_3849;98_33101;99_45689&stattab=map
  • Last taxonomy: Maribacter polysiphoniae subclade
  • 16S sequence: AM497875
  • Sequence Identity:
  • Total samples: 326
  • soil counts: 6
  • aquatic counts: 303
  • animal counts: 16
  • plant counts: 1

Safety information

risk assessment

  • @ref: 17252
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17252
  • description: Maribacter polysiphoniae 16S rRNA gene, strain LMG 23671T
  • accession: AM497875
  • length: 1481
  • database: ena
  • NCBI tax ID: 429344

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Maribacter polysiphoniae DSM 23514GCA_003148665scaffoldncbi429344
66792Maribacter polysiphoniae KCTC 22021GCA_014673435contigncbi429344
66792Maribacter polysiphoniae strain DSM 23514429344.6wgspatric429344
66792Maribacter polysiphoniae strain KCTC 22021429344.11wgspatric429344
66792Maribacter polysiphoniae DSM 235142595698208draftimg429344

GC content

@refGC-contentmethod
1725241.1thermal denaturation, midpoint method (Tm)
3224241.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno94.981yes
gram-positiveno97.575no
anaerobicno98.67yes
halophileno79.33no
spore-formingno96.429no
glucose-utilyes87.106no
aerobicyes80.849yes
thermophileno98.171no
motileno90.958no
glucose-fermentno87.52no

External links

@ref: 17252

culture collection no.: DSM 23514, KCTC 22021, KMM 6151, LMG 23671

straininfo link

  • @ref: 75091
  • straininfo: 264726

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18048735Maribacter polysiphoniae sp. nov., isolated from a red alga.Nedashkovskaya OI, Vancanneyt M, De Vos P, Kim SB, Lee MS, Mikhailov VVInt J Syst Evol Microbiol10.1099/ijs.0.65181-02007Aerobiosis/physiology, Bacterial Typing Techniques, Catalase/analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Flavobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Genes, rRNA, Locomotion/physiology, Molecular Sequence Data, Oxidoreductases/analysis, Phylogeny, Pigments, Biological/metabolism, RNA, Ribosomal, 16S/genetics, Rhodophyta/*microbiology, Sequence Analysis, DNA, Sequence Homology, Nucleic AcidEnzymology
Phylogeny27542975Maribacter arenosus sp. nov., isolated from marine sediment.Thongphrom C, Kim JH, Kim WInt J Syst Evol Microbiol10.1099/ijsem.0.0014362016Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Glycolipids/analysis, Glycosides, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Triterpenes, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny29893666Maribacter maritimus sp. nov., isolated from seawater.Kang H, Cha I, Kim H, Joh KInt J Syst Evol Microbiol10.1099/ijsem.0.0028432018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Phosphatidylethanolamines, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny32379018Maribacter luteus sp. nov., a marine bacterium isolated from intertidal sand of the Yellow Sea.Liu A, Zhang YJ, Liu DK, Li XZInt J Syst Evol Microbiol10.1099/ijsem.0.0042062020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/classification, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sand/*microbiology, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
17252Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23514)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23514
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
32242Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2848328776041
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
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
75091Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID264726.1StrainInfo: A central database for resolving microbial strain identifiers