Strain identifier

BacDive ID: 7991

Type strain: Yes

Species: Micromonospora echinofusca

Strain Designation: 71-m68

Strain history: KCC A-0327 <-- X. Yan 71-m68.

NCBI tax ID(s): 47858 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 11264

BacDive-ID: 7991

DSM-Number: 43913

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

description: Micromonospora echinofusca 71-m68 is a mesophilic bacterium that was isolated from excrement of chukar.

NCBI tax id

  • NCBI tax id: 47858
  • Matching level: species

strain history

@refhistory
11264<- JCM (Micromonospora echinobrunnea) <- KCC <- X. Yan, 71-m68
67770KCC A-0327 <-- X. Yan 71-m68.

doi: 10.13145/bacdive7991.20230509.8.1

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 echinofusca
  • full scientific name: Micromonospora echinofusca Kroppenstedt et al. 2005

@ref: 11264

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora echinofusca

full scientific name: Micromonospora echinofusca Kroppenstedt et al. 2005

strain designation: 71-m68

type strain: yes

Morphology

colony morphology

@refcolony colorincubation periodmedium used
19979Deep orange (2011)10-14 daysISP 2
19979Pastel orange (2003)10-14 daysISP 3
19979Pure orange (2004)10-14 daysISP 4
19979Pastel orange (2003)10-14 daysISP 5
19979Pastel orange (2003)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
19979noISP 2
19979noISP 3
19979noISP 4
19979noISP 5
19979noISP 6
19979noISP 7

multimedia

  • @ref: 11264
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43913.jpg
  • caption: Medium 554 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11264N-Z-AMINE-MEDIUM (DSMZ Medium 554)yeshttps://mediadive.dsmz.de/medium/554Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
11264GYM 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
19979ISP 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
19979ISP 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:
19979ISP 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
19979ISP 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
19979ISP 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
11264positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activity
1997917234glucose+
1997922599arabinose-
1997917992sucrose+
1997918222xylose-
1997917268myo-inositol-
1997929864mannitol-
1997928757fructose+
1997926546rhamnose-
1997916634raffinose-
1997962968cellulose+

enzymes

@refvalueactivityec
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
19979+++----++++++-+++--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11264excrement of chukarBeijing, zoological gardenChinaCHNAsia
67770Excrement of chukarBeijing Zoological GardenChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Birds#Chicken
#Host Body Product#Gastrointestinal tract#Feces (Stool)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
112641Risk group (German classification)
199791German classification

Sequence information

16S sequences

  • @ref: 11264
  • description: Micromonospora echinofusca 16S rRNA gene, type strain DSM 43913
  • accession: X92625
  • length: 1472
  • database: ena
  • NCBI tax ID: 47858

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Micromonospora echinofusca DSM 43913GCA_900091445chromosomencbi47858
66792Micromonospora echinofusca strain DSM 4391347858.4completepatric47858
66792Micromonospora echinofusca DSM 439132623620567draftimg47858

GC content

  • @ref: 67770
  • GC-content: 73.31
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveyes93.608no
anaerobicno99.236no
halophileno92.449no
spore-formingyes95.211no
glucose-utilyes88.092yes
aerobicyes95.721no
thermophileno97.498no
motileno94.129no
flagellatedno98.09no
glucose-fermentno91.788no

External links

@ref: 11264

culture collection no.: DSM 43913, CIP 108946, IFO 14267, JCM 3327, KCC A-0327, NBRC 14267, BCRC 12630, CGMCC 4.1274, IMSNU 21291, KCTC 9548, NRRL B-16695

straininfo link

  • @ref: 77421
  • straininfo: 50452

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15997706Eight 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.Kroppenstedt RM, Mayilraj S, Wink JM, Kallow W, Schumann P, Secondini C, Stackebrandt ESyst Appl Microbiol10.1016/j.syapm.2004.12.0112005Carbohydrates/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
Phylogeny21398502Micromonospora yangpuensis sp. nov., isolated from a sponge.Zhang L, Xi L, Ruan J, Huang YInt J Syst Evol Microbiol10.1099/ijs.0.029439-02011Animals, Bacterial Typing Techniques, Base Composition, China, DNA Gyrase/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Lipids/analysis, Micromonospora/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Phenotype, Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11264Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43913)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43913
19979Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43913.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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
77421Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID50452.1StrainInfo: A central database for resolving microbial strain identifiers