Strain identifier

BacDive ID: 5605

Type strain: Yes

Species: Maribacter orientalis

Strain history: CIP <- 2004, CCUG <- 2003, KMM

NCBI tax ID(s): 228957 (species)

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General

@ref: 6461

BacDive-ID: 5605

DSM-Number: 16471

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

description: Maribacter orientalis DSM 16471 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water sample.

NCBI tax id

  • NCBI tax id: 228957
  • Matching level: species

strain history

@refhistory
6461<- S. B. Kim, KCTC; KMM 3947 <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok
67771<- DSM <- S. B. Kim, KCTC; KMM 3947 <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok
121438CIP <- 2004, CCUG <- 2003, KMM

doi: 10.13145/bacdive5605.20230509.8.1

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 orientalis
  • full scientific name: Maribacter orientalis Nedashkovskaya et al. 2004

@ref: 6461

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Maribacter

species: Maribacter orientalis

full scientific name: Maribacter orientalis Nedashkovskaya et al. 2004

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30026negative6 µm0.6 µmrod-shapedno
69480negative99.899
121438negativerod-shapedno

colony morphology

@refincubation period
579482 days
121438

pigmentation

@refproductionname
30026yes
121438noFlexirubin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6461BACTO 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
33249Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
121438CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6461positivegrowth28mesophilic
30026positivegrowth4.0-32
30026positiveoptimum22psychrophilic
33249positivegrowth30mesophilic
57948positivegrowth30mesophilic
67771positivegrowth28mesophilic
121438positivegrowth15-30
121438nogrowth5psychrophilic
121438nogrowth37mesophilic
121438nogrowth41thermophilic
121438nogrowth45thermophilic

culture pH

@refabilitytypepHPH range
30026positivegrowth5.5-10alkaliphile
30026positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30026aerobe
57948aerobe
67771aerobe

spore formation

@refspore formationconfidence
30026no
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
30026NaClpositivegrowth1.0-5.0 %
30026NaClpositiveoptimum3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3002622599arabinose+carbon source
3002617057cellobiose+carbon source
3002628260galactose+carbon source
3002617234glucose+carbon source
3002617716lactose+carbon source
3002617306maltose+carbon source
3002637684mannose+carbon source
3002628053melibiose+carbon source
3002617992sucrose+carbon source
3002653424tween 20+carbon source
3002653423tween 40+carbon source
3002618222xylose+carbon source
1214384853esculin+hydrolysis
121438606565hippurate+hydrolysis
12143817632nitrate-reduction
12143816301nitrite-reduction
12143815792malonate-assimilation

metabolite production

  • @ref: 121438
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 121438
  • Chebi-ID: 17234
  • metabolite: glucose
  • methylred-test: -

enzymes

@refvalueactivityec
30026alkaline phosphatase+3.1.3.1
30026catalase+1.11.1.6
30026gelatinase+
30026cytochrome oxidase+1.9.3.1
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
121438oxidase+
121438beta-galactosidase+3.2.1.23
121438alcohol dehydrogenase-1.1.1.1
121438gelatinase-
121438amylase+
121438caseinase-3.4.21.50
121438catalase+1.11.1.6
121438tween esterase+
121438gamma-glutamyltransferase+2.3.2.2
121438lecithinase-
121438lipase-
121438lysine decarboxylase-4.1.1.18
121438ornithine decarboxylase-4.1.1.17
121438phenylalanine ammonia-lyase-4.3.1.24
121438tryptophan deaminase-
121438urease-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
121438-+++-++-+-++++-++++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountrycontinentorigin.country
6461sea water sampleSea of Japan, Gulf of Peter the GreatInternational WatersAsia
57948SeawaterGulf of Peter the GreatAsia
67771From sea water sampleSea of Japan, Gulf of Peter the GreatRussiaAsiaRUS
121438Environment, Sea waterJapanAsiaJPN

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_107784.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_141;96_1222;97_1721;98_20442;99_107784&stattab=map
  • Last taxonomy: Maribacter
  • 16S sequence: AY271624
  • Sequence Identity:
  • Total samples: 47
  • soil counts: 1
  • aquatic counts: 46

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
64611Risk group (German classification)
1214381Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6461
  • description: Bacteroidetes bacterium KMM 3947 16S ribosomal RNA gene, partial sequence
  • accession: AY271624
  • length: 1439
  • database: ena
  • NCBI tax ID: 228957

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Maribacter orientalis DSM 16471GCA_900109345scaffoldncbi228957
66792Maribacter orientalis strain DSM 16471228957.5wgspatric228957
66792Maribacter orientalis DSM 164712622736438draftimg228957

GC content

@refGC-content
646139.0
3002639

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentno87.607no
motileno88.562no
flagellatedno95.557yes
gram-positiveno97.559yes
anaerobicno99.48yes
aerobicyes90.757yes
halophileno78.122no
spore-formingno96.865yes
thermophileno97.478yes
glucose-utilyes89.162yes

External links

@ref: 6461

culture collection no.: DSM 16471, CCUG 48008, KCTC 12967, KCTC 42563, KMM 3947, CIP 108494

straininfo link

  • @ref: 75087
  • straininfo: 99603

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15280264Maribacter gen. nov., a new member of the family Flavobacteriaceae, isolated from marine habitats, containing the species Maribacter sedimenticola sp. nov., Maribacter aquivivus sp. nov., Maribacter orientalis sp. nov. and Maribacter ulvicola sp. nov.Nedashkovskaya OI, Kim SB, Han SK, Lysenko AM, Rohde M, Rhee MS, Frolova GM, Falsen E, Mikhailov VV, Bae KSInt J Syst Evol Microbiol10.1099/ijs.0.02849-02004Aerobiosis, Catalase/metabolism, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Fatty Acids/analysis, Flavobacteriaceae/*classification/cytology/isolation & purification/physiology, Genes, rRNA, Genotype, Gentian Violet, Molecular Sequence Data, Oxidoreductases/metabolism, Phenazines, Phenotype, Phylogeny, Pigments, Biological/biosynthesis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ulva/*microbiologyGenetics
Phylogeny18523168Maribacter arcticus sp. nov., isolated from Arctic marine sediment.Cho KH, Hong SG, Cho HH, Lee YK, Chun J, Lee HKInt J Syst Evol Microbiol10.1099/ijs.0.65549-02008Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification/physiology, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Norway, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny25090958Maribacter caenipelagi sp. nov., a member of the Flavobacteriaceae isolated from a tidal flat sediment of the Yellow Sea in Korea.Jung YT, Lee JS, Yoon JHAntonie Van Leeuwenhoek10.1007/s10482-014-0243-z2014Bacterial Typing Techniques, Base Composition, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/*isolation & purification/physiology, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Korea, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Vitamin K 2/analysisGenetics
Phylogeny25833155Maribacter spongiicola sp. nov. and Maribacter vaceletii sp. nov., isolated from marine sponges, and emended description of the genus Maribacter.Jackson SA, Kennedy J, Morrissey JP, O'Gara F, Dobson ADWInt J Syst Evol Microbiol10.1099/ijs.0.0002242015Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Ireland, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny26828017Maribacter lutimaris sp. nov., isolated from marine sediment.Kim KH, Jin HM, Jeong HI, Jeon COInt J Syst Evol Microbiol10.1099/ijsem.0.0009422016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny29087269Maribacter cobaltidurans sp. nov., a heavy-metal-tolerant bacterium isolated from deep-sea sediment.Fang C, Wu YH, Xamxidin M, Wang CS, Xu XWInt J Syst Evol Microbiol10.1099/ijsem.0.0024582017Atlantic Ocean, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, *Metals, Heavy, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny29147808Maribacter marinus sp. nov. isolated from a deep-sea seamount.Wang DY, Sun YW, Liu J, Zhang DCAntonie Van Leeuwenhoek10.1007/s10482-017-0985-52017Bacterial Typing Techniques/*methods, Base Composition/genetics, DNA, Bacterial/genetics, Flavobacteriaceae/genetics, Phylogeny, RNA, Ribosomal, 16S/*genetics, Seawater/microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
6461Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16471)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16471
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
30026Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2639028776041
33249Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6122
57948Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48008)https://www.ccug.se/strain?id=48008
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
75087Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID99603.1StrainInfo: A central database for resolving microbial strain identifiers
121438Curators of the CIPCollection of Institut Pasteur (CIP 108494)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108494