Strain identifier

BacDive ID: 8005

Type strain: Yes

Species: Micromonospora lupini

Strain history: LMG 24055 <-- M. E. Trujillo strain Lupac 14N.

NCBI tax ID(s): 285679 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 12161

BacDive-ID: 8005

DSM-Number: 44874

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

description: Micromonospora lupini DSM 44874 is an aerobe, spore-forming, mesophilic bacterium that was isolated from root nodules of Lupinus angustifolius.

NCBI tax id

  • NCBI tax id: 285679
  • Matching level: species

strain history

@refhistory
12161<- M. E. Trujillo; Lupac 14N
67770LMG 24055 <-- M. E. Trujillo strain Lupac 14N.

doi: 10.13145/bacdive8005.20230509.8.1

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 lupini
  • full scientific name: Micromonospora lupini Trujillo et al. 2007

  • synonyms

    • @ref: 20215
    • synonym: Micromonospora lupini

@ref: 12161

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora lupini

full scientific name: Micromonospora lupini Trujillo et al. 2007

type strain: yes

Morphology

cell morphology

  • @ref: 32250
  • gram stain: positive

colony morphology

@refcolony colorincubation periodmedium used
20133Signal orange (2010)10-14 daysISP 2
20133Pastel orange (2003)10-14 daysISP 3
20133Signal orange (2010)10-14 daysISP 4
2013310-14 daysISP 5
20133Signal orange (2010)10-14 daysISP 6
20133Signal orange (2010)10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium name
20133noISP 2
20133noISP 3
20133noISP 4
20133noISP 6
20133noISP 7

pigmentation

  • @ref: 32250
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12161N-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
12161GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf
20133ISP 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
20133ISP 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:
20133ISP 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
20133ISP 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
20133ISP 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
20133ISP 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
12161positivegrowth28mesophilic
20133positiveoptimum28mesophilic
32250positivegrowth20-37
32250positiveoptimum28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 32250
  • oxygen tolerance: aerobe

spore formation

  • @ref: 32250
  • spore formation: yes

halophily

  • @ref: 32250
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 1 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2013317234glucose+
2013322599arabinose+
2013317992sucrose+
2013318222xylose-
2013317268myo-inositol-
2013329864mannitol-
2013328757fructose+
2013326546rhamnose-
2013316634raffinose-
2013362968cellulose-
3225016449alanine+carbon source
3225017057cellobiose+carbon source
3225028260galactose+carbon source
3225017306maltose+carbon source
3225029864mannitol+carbon source
3225037684mannose+carbon source
3225028053melibiose+carbon source
3225016634raffinose+carbon source
3225017992sucrose+carbon source
3225027082trehalose+carbon source
322504853esculin+hydrolysis

enzymes

@refvalueactivityec
32250acid phosphatase+3.1.3.2
32250alkaline phosphatase+3.1.3.1
32250alpha-galactosidase+3.2.1.22
32250catalase+1.11.1.6
32250gelatinase+
32250cytochrome oxidase+1.9.3.1
32250pyrazinamidase+3.5.1.B15
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
20133+++-++---++-+-+----

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
12161root nodules of Lupinus angustifoliusLupinus angustifoliusSalamancaSpainESPEurope
67770Surface-sterilized nitrogen-fixing nodule of Lupinus angustifoliusLupinus angustifoliusSalamancaSpainESPEurope

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Root nodule

taxonmaps

  • @ref: 69479
  • File name: preview.99_3471.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_94;96_404;97_1111;98_1509;99_3471&stattab=map
  • Last taxonomy: Micromonospora
  • 16S sequence: AJ783996
  • Sequence Identity:
  • Total samples: 1419
  • soil counts: 1017
  • aquatic counts: 161
  • animal counts: 219
  • plant counts: 22

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
121611Risk group (German classification)
201331German classification

Sequence information

16S sequences

  • @ref: 12161
  • description: Micromonospora lupini partial 16S rRNA gene, type strain Lupac 14NT
  • accession: AJ783996
  • length: 1457
  • database: ena
  • NCBI tax ID: 285679

GC content

@refGC-contentmethod
1216170.9
6777070.9thermal denaturation, midpoint method (Tm)

External links

@ref: 12161

culture collection no.: DSM 44874, LMG 24055, NRRL B-24771, Lupac 14N, JCM 16031, NBRC 106141

straininfo link

  • @ref: 77435
  • straininfo: 297448

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18048727Micromonospora lupini sp. nov. and Micromonospora saelicesensis sp. nov., isolated from root nodules of Lupinus angustifolius.Trujillo ME, Kroppenstedt RM, Fernandez-Molinero C, Schumann P, Martinez-Molina EInt J Syst Evol Microbiol10.1099/ijs.0.65192-02007Alanine/metabolism, Bacterial Typing Techniques, Carbohydrate Metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Lupinus/*microbiology, Micromonospora/chemistry/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Plant Roots/*microbiology, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Homology, Nucleic Acid, Spores, Bacterial/cytologyMetabolism
Phylogeny24803239Micromonospora violae sp. nov., isolated from a root of Viola philippica Car.Zhang Y, Liu H, Zhang X, Wang S, Liu C, Yu C, Wang X, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-014-0184-62014Bacterial Typing Techniques, Cell Wall/chemistry, China, Cluster Analysis, Cytosol/chemistry, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Glycine/analysis, Micromonospora/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Viola/*microbiology, Vitamin K 2/analysisGenetics
Phylogeny24849538Micromonospora zeae sp. nov., a novel endophytic actinomycete isolated from corn root (Zea mays L.).Shen Y, Zhang Y, Liu C, Wang X, Zhao J, Jia F, Yang L, Yang D, Xiang WJ Antibiot (Tokyo)10.1038/ja.2014.542014DNA, Bacterial/*genetics, Micromonospora/genetics/*isolation & purification, Nucleic Acid Hybridization, Phylogeny, Plant Roots, RNA, Ribosomal, 16S/*genetics, Zea mays/*microbiologyEnzymology
Phylogeny27902235Micromonospora parathelypteridis sp. nov., an endophytic actinomycete with antifungal activity isolated from the root of Parathelypteris beddomei (Bak.) Ching.Zhao S, Liu C, Zheng W, Ma Z, Cao T, Zhao J, Yan K, Xiang W, Wang XInt J Syst Evol Microbiol10.1099/ijsem.0.0016142017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Micromonospora/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptophyta/*microbiologyTranscriptome
Phylogeny31630299Micromonospora orduensis sp. nov., isolated from deep marine sediment.Veyisoglu A, Carro L, Cetin D, Igual JM, Klenk HP, Sahin NAntonie Van Leeuwenhoek10.1007/s10482-019-01349-62019*Aquatic Organisms, Bacterial Typing Techniques, Fatty Acids/metabolism, Genome, Bacterial, Genomics/methods, Geologic Sediments/*microbiology, Micromonospora/*classification/genetics/*isolation & purification, Phylogeny, Seawater/microbiology, Soil MicrobiologyGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
12161Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44874)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44874
20133Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44874.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
32250Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2849128776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
77435Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID297448.1StrainInfo: A central database for resolving microbial strain identifiers