Strain identifier

BacDive ID: 15515

Type strain: Yes

Species: Streptomyces rimosus

Strain Designation: F.D. 10326

Strain history: KCC S-0073 <-- T. Yamaguchi (IAM 0014) <-- MTHU <-- NRRL 2234 <-- Chas. Pfizer & Co.; FD 10326.

NCBI tax ID(s): 1265868 (strain), 1927 (species)

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General

@ref: 9414

BacDive-ID: 15515

DSM-Number: 40260

keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, antibiotic compound production

description: Streptomyces rimosus F.D. 10326 is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

NCBI tax idMatching level
1927species
1265868strain

strain history

@refhistory
9414<- E.B. Shirling, ISP <- J.B. Routien, Chas. Pfizer & Co., Inc., FD 10326
67770KCC S-0073 <-- T. Yamaguchi (IAM 0014) <-- MTHU <-- NRRL 2234 <-- Chas. Pfizer & Co.; FD 10326.

doi: 10.13145/bacdive15515.20230509.8.1

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 rimosus
  • full scientific name: Streptomyces rimosus Sobin et al. 1953 (Approved Lists 1980)

@ref: 9414

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Streptomycetaceae

genus: Streptomyces

species: Streptomyces rimosus subsp. rimosus

full scientific name: Streptomyces rimosus subsp. rimosus (Sobin et al. 1953) Coffey et al. 1959

strain designation: F.D. 10326

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no93.86
69480100positive

multimedia

@refmultimedia contentintellectual property rightscaption
9414https://www.dsmz.de/microorganisms/photos/DSM_40260-1.JPG© Leibniz-Institut DSMZ
9414https://www.dsmz.de/microorganisms/photos/DSM_40260.jpg© Leibniz-Institut DSMZMedium 65 28°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
9414GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: 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
9414STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252)yeshttps://mediadive.dsmz.de/medium/252Name: STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) Composition: Agar 14.985 g/l Starch 9.99001 g/l (NH4)2SO4 1.998 g/l CaCO3 1.998 g/l K2HPO4 0.999001 g/l MgSO4 x 7 H2O 0.999001 g/l NaCl 0.999001 g/l FeSO4 x 7 H2O 0.000999001 g/l MnCl2 x 4 H2O 0.000999001 g/l ZnSO4 x 7 H2O 0.000999001 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
9414positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

@refcompound
9414oxytetracycline
9414rimocidin

observation

  • @ref: 67770
  • observation: quinones: MK-9(H6), MK-9(H8)

metabolite production

@refChebi-IDmetaboliteproduction
6777027701oxytetracyclineyes
6777080106rimocidineyes

Isolation, sampling and environmental information

isolation

@refsample type
9414soil
67770Soil

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_719.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15;96_103;97_110;98_119;99_719&stattab=map
  • Last taxonomy: Streptomyces
  • 16S sequence: JN566021
  • Sequence Identity:
  • Total samples: 146
  • soil counts: 110
  • aquatic counts: 9
  • animal counts: 18
  • plant counts: 9

Safety information

risk assessment

  • @ref: 9414
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces rimosus subsp. rimosus strain CGMCC 4.1438 16S ribosomal RNA gene, partial sequenceJN5660211375ena132474
20218Streptomyces rimosus subsp. rimosus gene for 16S rRNAAB0458831485ena132474
20218Streptomyces rimosus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4667D44295121ena1927
20218Streptomyces rimosus subsp. rimosus gene for 16S rRNA, partial sequence, strain: NBRC 12907AB1842361469ena132474

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptomyces rimosus ATCC 10970GCA_008704655completencbi1927
66792Streptomyces rimosus strain ATCC 109701927.44completepatric1927
66792Streptomyces rimosus subsp. rimosus ATCC 109701265868.3wgspatric1265868
66792Streptomyces rimosus rimosus ATCC 109702541047971draftimg1265868
67770Streptomyces rimosus subsp. rimosus ATCC 10970GCA_000331185completencbi1265868
67770Streptomyces rimosus strain ATCC 10970 chromosome, complete genomeCP023688ncbi1927
67770Streptomyces rimosus subsp. rimosus NRRL B-2659GCA_000717145contigncbi132474
67770Streptomyces rimosus subsp. rimosus NRRL ISP-5260GCA_000717285contigncbi132474

GC content

  • @ref: 67770
  • GC-content: 71.88
  • method: genome sequence analysis

Genome-based predictions

predictions

  • trait: spore-forming
  • prediction: yes
  • confidence: 100
  • training_data: no

External links

@ref: 9414

culture collection no.: DSM 40260, ATCC 10970, ATCC 23955, CBS 437.51, CBS 938.68, CUB 205, DSM 41132, ETH 20240, IFO 12907, IMRU 3558, ISP 5260, JCM 4073, JCM 4667, NBRC 12907, NCIMB 8229, NRRL 2234, RIA 1185, RIA 606, BCRC 11612, CECT 3144, CGMCC 4.1438, HAMBI 1066, HUT 6064, HUT 6100, ICMP 1009, ICMP 655, ICMP 919, IFM 1065, IFO 3441, IFO 3725, IMET 40364, KCTC 1077, LMG 19352, LMG 5984, LMG 8596, NBIMCC 1700, NBRC 3441, NBRC 3725, NRRL B-2659, NRRL ISP-5260, VKM Ac-849, VTT E-072714

straininfo link

  • @ref: 84601
  • straininfo: 216657

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny541659Characterization and persistence of actinophage RP2 isolated from Streptomyces rimosus ATCC 10970.Hranueli D, Pigac J, Vesligaj MJ Gen Microbiol10.1099/00221287-114-2-2951979Adsorption, Bacteriophages/growth & development/*isolation & purification/ultrastructure, DNA, Viral/analysis, Lysogeny, Mutation, Oxytetracycline/biosynthesis, Species Specificity, Streptomyces/metabolism, Virus ReplicationEnzymology
Enzymology8254321The temperate phages RP2 and RP3 of Streptomyces rimosus.Rausch H, Vesligaj M, Pocta D, Biukovic G, Pigac J, Cullum J, Schmieger H, Hranueli DJ Gen Microbiol10.1099/00221287-139-10-25171993Attachment Sites, Microbiological, Bacteriophages/*genetics/growth & development/ultrastructure, DNA, Viral/genetics, Proviruses/genetics/isolation & purification, Restriction Mapping, Sequence Homology, Nucleic Acid, Streptomyces/*geneticsPhylogeny
Metabolism9058529Novel metabolites of warfarin produced by Beauveria bassiana and Streptomyces rimosus: a novel application of hplc-nmr.Cannell RJ, Rashid T, Ismail IM, Sidebottom PJ, Knaggs AR, Marshall PSXenobiotica10.1080/0049825972406591997Chromatography, High Pressure Liquid, Magnetic Resonance Spectroscopy, Mitosporic Fungi/*metabolism, Molecular Structure, Streptomyces/*metabolism, Warfarin/*metabolism
Enzymology11293273Screening and search for novel inhibitors of DD-peptidase 64-575.Rozbicka B, Kurzatkowski WActa Pol Pharm2000Anti-Bacterial Agents/*isolation & purification/pharmacology, Carboxypeptidases/*antagonists & inhibitors, Chromatography, High Pressure Liquid, Escherichia coli/drug effects, Lactams, Protease Inhibitors/*isolation & purification, Serine-Type D-Ala-D-Ala Carboxypeptidase, Staphylococcus aureus/drug effects, Streptomyces/*metabolismPhylogeny
Phylogeny16341608Streptomyces daliensis sp. nov. from soil.Xu P, Li WJ, Tang SK, Gao HY, Xu LH, Jiang CLAntonie Van Leeuwenhoek10.1007/s10482-005-9010-52005Base Composition, China, DNA, Bacterial/chemistry/genetics, Genotype, Microscopy, Electron, Scanning, Phenotype, Phylogeny, *Soil Microbiology, Species Specificity, Streptomyces/classification/genetics/*isolation & purification/metabolismGenetics
Metabolism22920589Efficient bioconversion of quercetin into a novel glycoside by Streptomyces rimosus subsp. rimosus ATCC 10970.Ma B, Zeng J, Shao L, Zhan JJ Biosci Bioeng10.1016/j.jbiosc.2012.07.0202012Biotransformation, Glycosides/chemistry/*metabolism, Glycosylation, Quercetin/*analogs & derivatives/chemistry/*metabolism, Streptomyces rimosus/classification/*metabolismPhylogeny
Metabolism23240563Identification of phosphorylation sites in aminoglycoside phosphotransferase VIII from Streptomyces rimosus.Elizarov SM, Alekseeva MG, Novikov FN, Chilov GG, Maslov DA, Shtil AA, Danilenko VNBiochemistry (Mosc)10.1134/S00062979121100412012Bacterial Proteins/chemistry/genetics/*metabolism, Drug Resistance, Bacterial, Enzyme Activation, Kanamycin Kinase/chemistry/genetics/*metabolism, Mutagenesis, Site-Directed, Phosphorylation, Protein Structure, Tertiary, Recombinant Proteins/biosynthesis/chemistry/genetics, Streptomyces/*enzymologyEnzymology
Genetics23516198Draft Genome Sequence of the Oxytetracycline-Producing Bacterium Streptomyces rimosus ATCC 10970.Pethick FE, Macfadyen AC, Tang Z, Sangal V, Liu TT, Chu J, Kosec G, Petkovic H, Guo M, Kirby R, Hoskisson PA, Herron PR, Hunter ISGenome Announc10.1128/genomeA.00063-132013
Metabolism23916596Taxonomic study of a salt tolerant Streptomyces sp. strain C-2012 and the effect of salt and ectoine on lon expression level.Sadeghi A, Soltani BM, Jouzani GS, Karimi E, Nekouei MK, Sadeghizadeh MMicrobiol Res10.1016/j.micres.2013.06.0102013Amino Acids, Diamino/*metabolism, Bacterial Proteins/*genetics/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gene Expression Regulation, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, Protease La/*genetics/metabolism, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism, Soil Microbiology, Streptomyces/*classification/*enzymology/genetics/metabolismPhylogeny
Phylogeny25030519Streptomyces zagrosensis sp. nov., isolated from soil.Mohammadipanah F, Hamedi J, Sproer C, Rohde M, Montero-Calasanz MDC, Klenk HPInt J Syst Evol Microbiol10.1099/ijs.0.064527-02014Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Iran, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Streptomyces/*classification/genetics/isolation & purificationGenetics
Phylogeny31225792Reclassification of Streptomyces rimosus subsp. paromomycinus as Streptomyces paromomycinus sp. nov.Komaki H, Tamura TInt J Syst Evol Microbiol10.1099/ijsem.0.0035452019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptomyces/*classification, Streptomyces rimosus/classificationTranscriptome
Phylogeny31251922Identification, functional and structural characterization of novel aminoglycoside phosphotransferase APH(3'')-Id from Streptomyces rimosus subsp. rimosus ATCC 10970.Alekseeva MG, Boyko KM, Nikolaeva AY, Mavletova DA, Rudakova NN, Zakharevich NV, Korzhenevskiy DA, Ziganshin RH, Popov VO, Danilenko VNArch Biochem Biophys10.1016/j.abb.2019.06.0082019Amino Acid Sequence, Anti-Bacterial Agents/pharmacology, Bacterial Proteins/*chemistry/genetics/isolation & purification, Computational Biology, Escherichia coli/drug effects/genetics, Genes, Bacterial, Phosphorylation, Phosphotransferases (Alcohol Group Acceptor)/*chemistry/genetics/isolation & purification, Phylogeny, Protein Processing, Post-Translational, Protein Structure, Tertiary, Recombinant Proteins/chemistry/genetics/isolation & purification, Sequence Alignment, Streptomyces rimosus/*enzymology, Streptomycin/pharmacologyEnzymology
33679858Presence of the Weakly Pathogenic Fusarium poae in the Fusarium Head Blight Disease Complex Hampers Biocontrol and Chemical Control of the Virulent Fusarium graminearum Pathogen.Tan J, De Zutter N, De Saeger S, De Boevre M, Tran TM, van der Lee T, Waalwijk C, Willems A, Vandamme P, Ameye M, Audenaert KFront Plant Sci10.3389/fpls.2021.6418902021
Phylogeny34421874Streptomyces tardus sp. nov.: A Slow-Growing Actinobacterium Producing Candicidin, Isolated From Sediments of the Trondheim Fjord.Kralova S, Sandoval-Powers M, Fawwal DV, Degnes KF, Lewin AS, Klinkenberg G, Nguyen GS, Liles MR, Wentzel AFront Microbiol10.3389/fmicb.2021.7142332021
34779763Bilateral symmetry of linear streptomycete chromosomes.Algora-Gallardo L, Schniete JK, Mark DR, Hunter IS, Herron PRMicrob Genom10.1099/mgen.0.0006922021Bacteria/genetics, *Chromosomes, Bacterial/genetics, Plasmids/genetics, *Replicon/genetics
34827738Quantitative Morphological Analysis of Filamentous Microorganisms in Cocultures and Monocultures: Aspergillus terreus and Streptomyces rimosus Warfare in Bioreactors.Scigaczewska A, Boruta T, Bizukojc MBiomolecules10.3390/biom111117402021*Aspergillus, Bioreactors, *Streptomyces rimosus
Metabolism35377231Reference-Grade Genome and Large Linear Plasmid of Streptomyces rimosus: Pushing the Limits of Nanopore Sequencing.Slemc L, Jakse J, Filisetti A, Baranasic D, Rodriguez-Garcia A, Del Carratore F, Marino SM, Zucko J, Starcevic A, Sala M, Perez-Bonilla M, Sanchez-Hidalgo M, Gonzalez I, Reyes F, Genilloud O, Springthorpe V, Goranovic D, Kosec G, Thomas GH, Lucrezia D, Petkovic H, Tome MMicrobiol Spectr10.1128/spectrum.02434-212022Genome, Bacterial, High-Throughput Nucleotide Sequencing/methods, *Nanopore Sequencing, *Oxytetracycline/metabolism, Plasmids/genetics, *Streptomyces rimosus/genetics/metabolism, Transposases/genetics/metabolismGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
9414Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 40260)https://www.dsmz.de/collection/catalogue/details/culture/DSM-40260
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
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
84601Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID216657.1StrainInfo: A central database for resolving microbial strain identifiers