Strain identifier

BacDive ID: 13447

Type strain: Yes

Species: Saccharopolyspora hirsuta

Strain history: KCC A-0170 <-- J. Lacey A1143.

NCBI tax ID(s): 1837 (species)

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General

@ref: 11038

BacDive-ID: 13447

DSM-Number: 43463

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

description: Saccharopolyspora hirsuta DSM 43463 is a spore-forming, mesophilic bacterium that was isolated from sugar cane bagasse.

NCBI tax id

  • NCBI tax id: 1837
  • Matching level: species

strain history

@refhistory
11038<- M. Goodfellow, N 745
67770KCC A-0170 <-- J. Lacey A1143.

doi: 10.13145/bacdive13447.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Saccharopolyspora
  • species: Saccharopolyspora hirsuta
  • full scientific name: Saccharopolyspora hirsuta Lacey and Goodfellow 1975 (Approved Lists 1980)

@ref: 11038

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Saccharopolyspora

species: Saccharopolyspora hirsuta

full scientific name: Saccharopolyspora hirsuta Lacey and Goodfellow 1975

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19573Beige10-14 daysISP 2
1957310-14 daysISP 3
1957310-14 daysISP 4
1957310-14 daysISP 5
1957310-14 daysISP 6
1957310-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19573noISP 2
19573noISP 3
19573noISP 4
19573noISP 5
19573noISP 6
19573noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11038GYM 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
19573ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19573ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19573ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19573ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19573ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19573ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes

culture temp

@refgrowthtypetemperaturerange
19573positiveoptimum30mesophilic
11038positivegrowth28mesophilic
67770positivegrowth40thermophilic

Physiology and metabolism

spore formation

  • @ref: 19573
  • spore description: Formation of spores, spore surface smooth
  • type of spore: spore
  • spore formation: yes

compound production

@refcompound
11038KA-5685 (aminoglycoside antibiotic)
20216Antibiotic KA-5685 (aminoglycoside)
19573Destomycin
19573Nargenicin
19573Saccharocin
19573Sporaricin
19573Vanoxonin

halophily

  • @ref: 19573
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 2.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4), MK-9(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1957317234glucose+
1957322599arabinose-
1957317992sucrose+
1957318222xylose-
1957317268myo-inositol+
1957329864mannitol-
1957328757fructose+
1957326546rhamnose-
1957316634raffinose-
1957362968cellulose-
6836925115malate+assimilation
6836917128adipate+assimilation
6836927689decanoate-assimilation
6836924265gluconate+assimilation
6836917306maltose+assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose+assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin+hydrolysis
6836916199urea+hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6836935581indole-
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase-3.5.3.6
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
68382alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382acid phosphatase+3.1.3.2
68382alpha-galactosidase-3.2.1.22
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-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- FucosidaseControl
19573+-+--++++++-+-++++-
11038+++-+----+--+/--+++---
11038+++-+----++---+++---

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19573----+-+--++

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
11038----++++++/-+++++-++++/-
11038----+++++++++++-++++/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11038sugar cane bagasse
67770Sugar-cane bagasseTrinidad, West IndiesTrinidad and TobagoTTONorth America

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

taxonmaps

  • @ref: 69479
  • File name: preview.99_10629.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_5246;97_6339;98_7909;99_10629&stattab=map
  • Last taxonomy: Saccharopolyspora
  • 16S sequence: DQ381814
  • Sequence Identity:
  • Total samples: 2838
  • soil counts: 1276
  • aquatic counts: 198
  • animal counts: 987
  • plant counts: 377

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
110381Risk group (German classification)
195731Hazard group

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Saccharopolyspora hirsuta strain ATCC 27875 16S ribosomal RNA gene, complete sequenceDQ3818141422ena1837
20218S.hirsuta 16S ribosomal RNAM203881284ena1837
20218Saccharopolyspora hirsuta strain ATCC 27875 16S ribosomal RNA gene, partial sequenceU933411487ena1837
20218Saccharopolyspora hirsuta 16S rRNA (part.)X531961381ena1837

Genome sequences

  • @ref: 67770
  • description: Saccharopolyspora hirsuta VKM Ac-666
  • accession: GCA_008630535
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1837

GC content

  • @ref: 67770
  • GC-content: 76.9
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno92.174no
flagellatedno97.415no
gram-positiveyes88.218no
anaerobicno98.517no
aerobicyes87.057no
halophileno55.517no
spore-formingyes91.966yes
glucose-utilyes87.248yes
thermophileno97.298no
glucose-fermentno89.853no

External links

@ref: 11038

culture collection no.: DSM 43463, AS 4.1704, ATCC 27875, CBS 420.74, DSM 43402, IFO 13919, IMET 9709, IMRU 1558, JCM 3170, KCC A-0170, NBRC 13919, NCIB 11079, NRRL B-5792, CECT 3304, CGMCC 4.1317, CGMCC 4.1493, CGMCC 4.1704, IMSNU 20123, KACC 20037, KCTC 9481, NCIMB 11079, NRRL B-16205, RIA 1561, VKM Ac-666, VKM Ac-693

straininfo link

  • @ref: 82639
  • straininfo: 36337

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny457579A new broad-spectrum aminoglycoside antibiotic complex, sporaricin. II. Taxonomic studies on the sporaricin producing strain Saccharopolyspora hirsuta subsp. Kobensis nov. subsp.Iwasaki A, Itoh H, Mori TJ Antibiot (Tokyo)10.7164/antibiotics.32.1801979Actinomycetales/*classification/metabolism/ultrastructure, Aminoglycosides/pharmacology, Anti-Bacterial Agents/*biosynthesis/pharmacologyMetabolism
Phylogeny1770351Biological characterization of induced phages from Saccharopolyspora hirsuta 367 and comparison with phage JHJ-1.Gaudreau LR, Lavoie JM, Dery CVJ Gen Microbiol10.1099/00221287-137-10-23471991Bacteriophages/classification/genetics/*isolation & purification/physiology, DNA, Viral/genetics, Lysogeny, Mitomycin/pharmacology, *Saccharopolyspora, Viral Interference, Viral Plaque Assay, Virus Activation/drug effects, Virus ReplicationEnzymology
Phenotype2391492Saccharopolyspora hirsuta strain 367 releases JHJ-1, a bacteriophage capable of propagation on old mycelium.Haket J Jr, Desmarais D, Mehindate K, Dery CVJ Gen Microbiol10.1099/00221287-136-3-5731990Actinomyces/*growth & development/ultrastructure, Bacteriophages/genetics/*growth & development/ultrastructure, Base Composition, DNA, Viral/analysis, Host-Parasite Interactions, Lysogeny, Mutation, Phenotype, Restriction Mapping, Viral Plaque AssayPathogenicity
Phylogeny16400987[Isolation and comparative analysis of glycolipid fractions in bifidobacteria].Novik GI, Astapovich NI, Grzegorzewicz A, Gamian AMikrobiologiia2005Bifidobacterium/*chemistry, Chromatography, Thin Layer, Glycolipids/*analysis/isolation & purificationEnzymology
Phylogeny18450710Saccharopolyspora antimicrobica sp. nov., an actinomycete from soil.Yuan LJ, Zhang YQ, Guan Y, Wei YZ, Li QP, Yu LY, Li WJ, Zhang YQInt J Syst Evol Microbiol10.1099/ijs.0.65532-02008Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Saccharopolyspora/*classification/genetics/isolation & purification/physiology, Sequence Analysis, DNA, *Soil Microbiology, Species SpecificityGenetics
Metabolism31028438Microbiological synthesis of stereoisomeric 7(alpha/beta)-hydroxytestololactones and 7(alpha/beta)-hydroxytestolactones.Lobastova TG, Khomutov SM, Shutov AA, Donova MVAppl Microbiol Biotechnol10.1007/s00253-019-09828-62019Actinobacteria/metabolism, Fungi/*metabolism, Hydroxylation, Hydroxytestosterones/chemistry/*metabolism, Industrial Microbiology, Molecular Structure, Saccharopolyspora/metabolism, Stereoisomerism, Streptomyces/metabolism, Testolactone/*analogs & derivatives/chemistry/metabolismBiotechnology
Genetics31896645Draft Genome Sequence of the Moderately Thermophilic Actinobacterial Steroid-Transforming Saccharopolyspora hirsuta subsp. hirsuta Strain VKM Ac-666(T).Lobastova TG, Fokina VV, Bragin EY, Shtratnikova VY, Starodumova IP, Tarlachkov SV, Donova MVMicrobiol Resour Announc10.1128/MRA.01327-192020
Metabolism34946155Steroid Metabolism in Thermophilic Actinobacterium Saccharopolyspora hirsuta VKM Ac-666(T).Lobastova T, Fokina V, Tarlachkov S, Shutov A, Bragin E, Kazantsev A, Donova MMicroorganisms10.3390/microorganisms91225542021
Phylogeny35670849Saccharopolyspora soli sp. nov., isolated from Northern Cyprus soil.Veyisoglu A, Tatar D, Saygin H, Cetin D, Guven K, Sahin NArch Microbiol10.1007/s00203-022-02994-82022Bacterial Typing Techniques, Cyprus, DNA, Bacterial/genetics, Fatty Acids, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, *Saccharopolyspora/genetics, Sequence Analysis, DNA, Soil, Soil MicrobiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11038Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43463)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43463
19573Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43463.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
20216Curators of the HKIhttp://www.leibniz-hki.de/de/Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI)
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68368Automatically annotated from API 20E
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
82639Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36337.1StrainInfo: A central database for resolving microbial strain identifiers