Strain identifier

BacDive ID: 16473

Type strain: Yes

Species: Streptomyces marinus

Strain Designation: Sp080513GE-26

Strain history: <- T. Tamura, NBRC; NBRC 105047 <- S. T. Khan; Sp080513GE-26

NCBI tax ID(s): 582854 (species)

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General

@ref: 16405

BacDive-ID: 16473

DSM-Number: 41968

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, rod-shaped

description: Streptomyces marinus Sp080513GE-26 is an aerobe, spore-forming, mesophilic bacterium that was isolated from marine sponge Haliclona sp..

NCBI tax id

  • NCBI tax id: 582854
  • Matching level: species

strain history

  • @ref: 16405
  • history: <- T. Tamura, NBRC; NBRC 105047 <- S. T. Khan; Sp080513GE-26

doi: 10.13145/bacdive16473.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Kitasatosporales
  • family: Streptomycetaceae
  • genus: Streptomyces
  • species: Streptomyces marinus
  • full scientific name: Streptomyces marinus Khan et al. 2010

@ref: 16405

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces marinus

full scientific name: Streptomyces marinus Khan et al. 2010

strain designation: Sp080513GE-26

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
29742positiverod-shapedno
69480no95.008
69480positive100

pigmentation

  • @ref: 29742
  • production: yes

multimedia

@refmultimedia contentintellectual property rightscaption
16405https://www.dsmz.de/microorganisms/photos/DSM_41968-1.jpg© Leibniz-Institut DSMZ
16405https://www.dsmz.de/microorganisms/photos/DSM_41968.jpg© Leibniz-Institut DSMZMedium 65 28°C

Culture and growth conditions

culture medium

  • @ref: 16405
  • name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/65
  • composition: Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16405positivegrowth28mesophilic
19833positiveoptimum28mesophilic
29742positivegrowth15-37
29742positiveoptimum25-28mesophilic

culture pH

@refabilitytypepHPH range
29742positivegrowth06-09alkaliphile
29742positiveoptimum06-09

Physiology and metabolism

oxygen tolerance

  • @ref: 29742
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29742yes
69481yes100
69480yes99.721

halophily

@refsaltgrowthtested relationconcentration
29742NaClpositivegrowth01-10 %
29742NaClpositiveoptimum02-07 %

observation

  • @ref: 29742
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2974222599arabinose+carbon source
2974228757fructose+carbon source
2974229864mannitol+carbon source
2974217992sucrose+carbon source
2974218222xylose+carbon source

enzymes

@refvalueactivityec
29742acid phosphatase+3.1.3.2
29742alkaline phosphatase+3.1.3.1
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase-3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19833----------+----+---

Isolation, sampling and environmental information

isolation

  • @ref: 16405
  • sample type: marine sponge Haliclona sp.
  • host species: Haliclona
  • geographic location: Chiba prefecture, pacific coastline of Tateyama City
  • country: Japan
  • origin.country: JPN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Host#Invertebrates (Other)#Porifera (Sponges)

Safety information

risk assessment

  • @ref: 16405
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16405
  • description: Streptomyces marinus gene for 16S rRNA, partial sequence
  • accession: AB473554
  • length: 1473
  • database: ena
  • NCBI tax ID: 582854

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces haliclonae strain DSM 41968582855.3wgspatric582855
66792Streptomyces marinus DSM 419682870579115draftimg582855

GC content

@refGC-contentmethod
1640572thermal denaturation, midpoint method (Tm)
2974272

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes92.206no
anaerobicno99.088yes
halophileno82.697no
spore-formingyes93.177no
glucose-utilyes90.301no
thermophileno96.341no
flagellatedno98.161yes
aerobicyes93.554no
motileno94.774no
glucose-fermentno91.074no

External links

@ref: 16405

culture collection no.: DSM 41968, NBRC 105047

straininfo link

  • @ref: 85509
  • straininfo: 396905

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20061489Streptomyces tateyamensis sp. nov., Streptomyces marinus sp. nov. and Streptomyces haliclonae sp. nov., isolated from the marine sponge Haliclona sp.Khan ST, Tamura T, Takagi M, Shin-Ya KInt J Syst Evol Microbiol10.1099/ijs.0.019869-02010Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Haliclona/*microbiology, Japan, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny21571936Streptomyces panacagri sp. nov., isolated from soil of a ginseng field.Cui Y, Baek SH, Wang L, Lee HG, Cui C, Lee ST, Im WTInt J Syst Evol Microbiol10.1099/ijs.0.029942-02011Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genotype, Molecular Sequence Data, Nucleic Acid Hybridization, Panax/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny24243969Streptomyces karpasiensis sp. nov., isolated from soil.Veyisoglu A, Tatar D, Cetin D, Guven K, Sahin NInt J Syst Evol Microbiol10.1099/ijs.0.056275-02013Bacterial Typing Techniques, Cell Wall/chemistry, Cyprus, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purification, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny24803237Streptomyces calidiresistens sp. nov., isolated from a hot spring sediment.Duan YY, Ming H, Dong L, Yin YR, Zhang Y, Zhou EM, Liu L, Nie GX, Li WJAntonie Van Leeuwenhoek10.1007/s10482-014-0180-x2014Bacterial Typing Techniques, Base Composition, China, Cluster Analysis, Cytosol/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Hot Springs/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification/genetics/*isolation & purification, Vitamin K 2/analysisGenetics
Phylogeny26755354Streptomyces daqingensis sp. nov., isolated from saline-alkaline soil.Pan T, He H, Li C, Zhao J, Zhang Y, Li J, Wang X, Liu C, Zhang J, Xiang WInt J Syst Evol Microbiol10.1099/ijsem.0.0008872016
Phylogeny27553490Streptomyces ovatisporus sp. nov., isolated from deep marine sediment.Veyisoglu A, Cetin D, Inan Bektas K, Guven K, Sahin NInt J Syst Evol Microbiol10.1099/ijsem.0.0014422016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Streptomyces/*classification/genetics/isolation & purification, Turkey, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny33661469Genome mining and description of Streptomyces albidus sp. nov., an endophytic actinobacterium with antibacterial potential.Kaewkla O, Franco CMMAntonie Van Leeuwenhoek10.1007/s10482-021-01539-12021Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid, Fatty Acids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Streptomyces/geneticsTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16405Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 41968)https://www.dsmz.de/collection/catalogue/details/culture/DSM-41968
19833Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM41968.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
29742Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2612428776041
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)
68382Automatically annotated from API zym
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
85509Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID396905.1StrainInfo: A central database for resolving microbial strain identifiers