Strain identifier

BacDive ID: 7993

Type strain: Yes

Species: Micromonospora inyonensis

Strain Designation: INA

Strain history: CIP <- 2005, DSMZ <- IMET <- M.A. Sveshnikova: strain INA

NCBI tax ID(s): 47866 (species)

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General

@ref: 12449

BacDive-ID: 7993

DSM-Number: 46123

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

description: Micromonospora inyonensis INA is a spore-forming, mesophilic bacterium that produces antibiotic compounds and was isolated from soil.

NCBI tax id

  • NCBI tax id: 47866
  • Matching level: species

strain history

@refhistory
12449<- IMET <- M.A. Sveshnikova, INA (Micromonospora inyoensis)
67770KCC A-0188 <-- NRRL 3292 <-- Schering Corp..
120302CIP <- 2005, DSMZ <- IMET <- M.A. Sveshnikova: strain INA

doi: 10.13145/bacdive7993.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Micromonospora
  • species: Micromonospora inyonensis
  • full scientific name: Micromonospora inyonensis Kroppenstedt et al. 2005

@ref: 12449

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora inyonensis

full scientific name: Micromonospora inyonensis Kroppenstedt et al. 2005

strain designation: INA

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.588
69480100positive
120302nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
20191Yellow olive (6014)10-14 daysISP 2
20191Red green (6013)10-14 daysISP 3
20191Copper brown (8004)10-14 daysISP 4
20191Colorless10-14 daysISP 5
20191Broom yellow (1032)10-14 daysISP 6
20191Dahlia yellow (1033)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
20191noISP 2
20191noISP 3
20191noISP 4
20191noISP 5
20191noISP 6
20191noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12449N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium554.pdf
12449GYM+S MEDIUM (DSMZ Medium 214)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium214.pdf
20191ISP 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
20191ISP 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:
20191ISP 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
20191ISP 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
20191ISP 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
20191ISP 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
120302CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57

culture temp

@refgrowthtypetemperaturerange
12449positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

compound production

  • @ref: 12449
  • compound: sisomycin

observation

  • @ref: 67770
  • observation: quinones: MK-10(H4), MK-10(H6), MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2019117234glucose+/-
2019122599arabinose+/-
2019117992sucrose+/-
2019118222xylose+/-
2019117268myo-inositol+/-
2019129864mannitol+/-
2019128757fructose+/-
2019126546rhamnose+/-
2019116634raffinose+/-
2019162968cellulose+/-
12030217632nitrate-reduction
12030216301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
677709169sisomycinyes
12030235581indoleno

enzymes

@refvalueactivityec
120302oxidase-
120302alcohol dehydrogenase-1.1.1.1
120302catalase+1.11.1.6
120302lysine decarboxylase-4.1.1.18
120302ornithine decarboxylase-4.1.1.17
120302urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
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- FucosidaseControl
20191+++-+++++++---+++--
120302+++-+--+------+-----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
12449soilUSAUSANorth America
67770SoilUSAUSANorth AmericaInyo National Forest, CA
120302Environment, SoilUnited States of AmericaUSANorth America

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
124491Risk group (German classification)
201911German classification
1203021Risk group (French classification)

Sequence information

16S sequences

  • @ref: 12449
  • description: Micromonospora inyonensis 16S rRNA gene, type strain DSM 46123
  • accession: X92629
  • length: 1468
  • database: ena
  • NCBI tax ID: 47866

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Micromonospora inyonensis strain DSM 4612347866.4wgspatric47866
66792Micromonospora inyonensis DSM 461232636415978draftimg47866
67770Micromonospora inyonensis DSM 46123GCA_900091415contigncbi47866

GC content

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

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes91.667no
anaerobicno98.981no
halophileno94.661no
spore-formingyes95.588no
glucose-utilyes86.064no
aerobicyes94.664no
thermophileno98.478yes
motileno92.583no
flagellatedno96.732no
glucose-fermentno92.642no

External links

@ref: 12449

culture collection no.: DSM 46123, ATCC 27600, CIP 108951, IFO 13156, IMET 8306, JCM 3188, KCC A-0188, NBRC 13156, NRRL 3292, BCRC 13363, CECT 3295, HUT 6602, IMSNU 22033, KACC 20104, KCTC 1055, NCIMB 12731

straininfo link

  • @ref: 77423
  • straininfo: 39080

literature

  • topic: Phylogeny
  • Pubmed-ID: 15997706
  • title: Eight new species of the genus Micromonospora, Micromonospora citrea sp. nov., Micromonospora echinaurantiaca sp. nov., Micromonospora echinofusca sp. nov. Micromonospora fulviviridis sp. nov., Micromonospora inyonensis sp. nov., Micromonospora peucetia sp. nov., Micromonospora sagamiensis sp. nov., and Micromonospora viridifaciens sp. nov.
  • authors: Kroppenstedt RM, Mayilraj S, Wink JM, Kallow W, Schumann P, Secondini C, Stackebrandt E
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2004.12.011
  • year: 2005
  • mesh: Carbohydrates/analysis, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Isomerism, Micromonospora/*classification/cytology/genetics/physiology, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Ribotyping, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Vitamin K 2/analysis

Reference

@idauthorscataloguedoi/urltitle
12449Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46123)https://www.dsmz.de/collection/catalogue/details/culture/DSM-46123
20191Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM46123.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
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/
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
77423Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID39080.1StrainInfo: A central database for resolving microbial strain identifiers
120302Curators of the CIPCollection of Institut Pasteur (CIP 108951)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108951