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BacDive ID 7976
Type strain
Culture col. no. DSM 43821 ATCC 27007 CBS 326.71 IFO 13324 IMET 8213 IMRU 3343 JCM 3156 NBRC 13324 NRRL B-16094 VKM Ac-937 NRRL B-2101 NCIMB 12661 MTCC 331 KCTC 9369 IFM 1279 CECT 3297 11 more
NCBI tax ID(s) 47872
Links
For citation purpose refer to the digital object identifier (doi) of the current version.

Archive

version 10 (current version):
version 10 (current version)

General

@ref: 11293

BacDive-ID: 7976

DSM-Number: 43821

keywords: genome sequence, 16S sequence, mesophilic

description: Micromonospora purpureochromogenes DSM 43821 is a mesophilic prokaryote that builds an aerial mycelium and was isolated from adobe soil.

NCBI tax id

  • NCBI tax id: 47872
  • Matching level: species

strain history

@refhistory
11293<- NRRL <- ATCC <- G. Luedemann <- IMRU
67770KCC A-0156 <-- IMRU 3343.

doi: 10.13145/bacdive7976.20251217.10

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: kingdom/bacillati
  • keyword: phylum/actinomycetota
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Micromonospora
  • species: Micromonospora purpureochromogenes
  • full scientific name: Micromonospora purpureochromogenes corrig. (Waksman and Curtis 1916) Luedemann 1971 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Micromonospora brunnea
    20215Actinomyces purpeochromogenus

@ref: 11293

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora purpureochromogenes

full scientific name: Micromonospora purpureochromogenes (Waksman and Curtis 1916) Luedemann 1971 emend. Carro et al. 2018

type strain: yes

Morphology

cell morphology

@refgram stainconfidence
125438positive90.088
125439positive99.6

colony morphology

@refcolony colorincubation periodmedium used
19598Orange brown10-14 daysISP 2
19598Red brown10-14 daysISP 3
19598Brown10-14 daysISP 4
19598Brown10-14 daysISP 5
19598Orange10-14 daysISP 6
19598Red brown10-14 daysISP 7

multicellular morphology

@refforms multicellular complexmedium namecomplex namecomplex color
19598noISP 2
19598noISP 3
19598noISP 4
19598yesISP 5Aerial MyceliumWhite
19598noISP 6
19598noISP 7

multimedia

  • @ref: 11293
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43821.jpg
  • caption: Medium 553 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11293GPHF-MEDIUM (DSMZ Medium 553)yeshttps://mediadive.dsmz.de/medium/553Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
19598ISP 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
19598ISP 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:
19598ISP 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
19598ISP 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
19598ISP 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
19598ISP 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
11293N-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

culture temp

@refgrowthtypetemperature
19598positiveoptimum28
11293positivegrowth28
67770positivegrowth28

culture pH

  • @ref: 19598
  • ability: positive
  • type: minimum
  • pH: 3.5
  • PH range: acidophile

Physiology and metabolism

tolerance

  • @ref: 19598
  • compound: Lysozyme
  • percentage: 0

oxygen tolerance

@refoxygen toleranceconfidence
125438aerobe91.085
125439obligate aerobe99.5

halophily

  • @ref: 19598
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1959822599arabinose-
1959817992sucrose+
1959818222xylose-
1959817268myo-inositol-
1959829864mannitol-
1959828757fructose+
1959826546rhamnose-
1959816634raffinose+
1959862968cellulose-
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

enzymes

@refvalueactivityec
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase+3.2.1.52
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
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
68382alkaline phosphatase+3.1.3.1
68368ornithine decarboxylase-4.1.1.17
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
19598+++-+--++++++++-+--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19598---------++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11293adobe soilCaliforniaUSAUSANorth America
67770Adobe soilCAUSAUSANorth America

isolation source categories

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

Interaction and safety

risk assessment

@refbiosafety levelbiosafety level comment
112931Risk group (German classification)
195981Risk group (German classification)

Sequence information

Genome sequences

  • @ref: 66792
  • description: IMG-taxon 2627854289 annotated assembly for Micromonospora purpureochromogenes DSM 43821
  • assembly level: chromosome
  • INSDC accession: GCA_900091515
  • BV-BRC accession: 47872.5
  • IMG accession: 2627854289
  • NCBI tax ID: 47872
  • score: 86.41

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
11293M.purpureochromogenes 16S rRNA geneX926111472nuccore47872
124043Micromonospora purpureochromogenes NCIMB 12661 16S-23S ribosomal RNA intergenic spacer.AY371890370nuccore47872

GC content

@refGC-contentmethod
6777073high performance liquid chromatography (HPLC)
6777072.98genome sequence analysis

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes90.088no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no96.759no
125438spore-formingspore-formingAbility to form endo- or exosporesyes89.236no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes91.085no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno94.5no
125438motile2+flagellatedAbility to perform flagellated movementno89.5no
125439BacteriaNetspore_formationAbility to form endo- or exosporesyes77
125439BacteriaNetmotilityAbility to perform movementno83.3
125439BacteriaNetgram_stainReaction to gram-stainingpositive99.6
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe99.5

Literature

@ref: 11293

culture collection no.: DSM 43821, ATCC 27007, CBS 326.71, IFO 13324, IMET 8213, IMRU 3343, JCM 3156, NBRC 13324, NRRL B-16094, CECT 3297, IFM 1279, KCTC 9369, MTCC 331, NCIMB 12661, NRRL B-2101, VKM Ac-937

straininfo link

  • @ref: 126262
  • straininfo: 311084

literature

Pubmed-IDtitleauthorsjournalDOIyearmeshtopictopic2
3198498Studies on the biosynthesis of the antibiotic crisamicin A and carbon-13 magnetic resonance assignments.Nelson RA, Pope JA, Pandey RC, McDaniel LE, Schaffner CP, Beveridge RL, Hoops PH, Jordan F.J Antibiot (Tokyo)10.7164/antibiotics.41.16591988biosynthesis
3356603Crisamicin C, a new isochromanequinone antibiotic. Isolation, structure determination, and biosynthesis.Russell WL, Pandey RC, Schaffner CP, Fales HM.J Antibiot (Tokyo)10.7164/antibiotics.41.1491988isolation & purification, isolation & purificationEnzymologyPhylogeny
3700237Isolation and structure determination of crisamicin A, a new antibiotic from Micromonospora purpureochromogenes subsp. halotolerans.Ling D, Shield LS, Rinehart KL.J Antibiot (Tokyo)10.7164/antibiotics.39.3451986isolation & purificationEnzymologyPhylogeny
3754547Crisamicin A, a new antibiotic from Micromonospora. I. Taxonomy of the producing strain, fermentation, isolation, physico-chemical characterization and antimicrobial properties.Nelson RA, Pope JA, Luedemann GM, McDaniel LE, Schaffner CP.J Antibiot (Tokyo)10.7164/antibiotics.39.3351986isolation & purificationEnzymologyPhylogeny
10826795Intrageneric relationships among Micromonospora species deduced from gyrB-based phylogeny and DNA relatedness.Kasai H, Tamura T, Harayama S.Int J Syst Evol Microbiol10.1099/00207713-50-1-1272000classification, genetics, geneticsPhylogeny
18048727Micromonospora 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 E.Int J Syst Evol Microbiol10.1099/ijs.0.65192-02007classification, isolation & purification, microbiology, microbiologyPhylogenyEnzymology
20562246Micromonospora humi sp. nov., isolated from peat swamp forest soil.Songsumanus A, Tanasupawat S, Thawai C, Suwanborirux K, Kudo TInt J Syst Evol Microbiol10.1099/ijs.0.024281-02010DNA, Bacterial/genetics, Micromonospora/*classification/genetics/*isolation & purification, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Thailand, Trees/microbiologyPhylogenyGenetics
25957972Two new species of the genus Micromonospora: Micromonospora palomenae sp. nov. and Micromonospora harpali sp. nov. isolated from the insects.Fang B, Liu C, Guan X, Song J, Zhao J, Liu H, Li C, Ning W, Wang X, Xiang WAntonie Van Leeuwenhoek10.1007/s10482-015-0472-92015Animals, Bacterial Typing Techniques, China, Cluster Analysis, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Insecta/*microbiology, Micromonospora/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPhylogenyGenetics
27220280Micromonospora sediminis sp. nov., isolated from mangrove sediment.Phongsopitanun W, Kudo T, Ohkuma M, Pittayakhajonwut P, Suwanborirux K, Tanasupawat SInt J Syst Evol Microbiol10.1099/ijsem.0.0011752016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Micromonospora/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/chemistry, *WetlandsPhylogenyTranscriptome
29148367Micromonospora phytophila sp. nov. and Micromonospora luteiviridis sp. nov., isolated as natural inhabitants of plant nodules.Carro L, Veyisoglu A, Riesco R, Sproer C, Klenk HP, Sahin N, Trujillo MEInt J Syst Evol Microbiol10.1099/ijsem.0.0024902017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Micromonospora/*classification/genetics/isolation & purification, Peas/*microbiology, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, SpainPhylogenyTranscriptome
29323202Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.Carro L, Nouioui I, Sangal V, Meier-Kolthoff JP, Trujillo ME, Montero-Calasanz MDC, Sahin N, Smith DL, Kim KE, Peluso P, Deshpande S, Woyke T, Shapiro N, Kyrpides NC, Klenk HP, Goker M, Goodfellow M.Sci Rep10.1038/s41598-017-17392-02018genetics, methods, Phylogeny, Genome, BacterialPhylogenyGenetics
31572349Screening and Transcriptional Analysis of Polyketide Synthases and Non-ribosomal Peptide Synthetases in Bacterial Strains From Krubera-Voronja Cave.Bukelskis D, Dabkeviciene D, Lukoseviciute L, Bucelis A, Kriauciunas I, Lebedeva J, Kuisiene N.Front Microbiol10.3389/fmicb.2019.021492019Transcriptional, Rt-qpcr, Polyketide Synthase, Non-ribosomal Peptide Synthetase
31921071Comparative Genomic Analysis of Soil Dwelling Bacteria Utilizing a Combinational Codon Usage and Molecular Phylogenetic Approach Accentuating on Key Housekeeping Genes.Saha J, Saha BK, Pal Sarkar M, Roy V, Mandal P, Pal A.Front Microbiol10.3389/fmicb.2019.028962019Soil bacteria, rpoB gene, molecular phylogenetics, Housekeeping Genes, Codon Usage Bias (Cub), Atpd Gene, Infb Gene, Trpb Gene
34925263Alone Yet Not Alone: Frankia Lives Under the Same Roof With Other Bacteria in Actinorhizal Nodules.Ghodhbane-Gtari F, D'Angelo T, Gueddou A, Ghazouani S, Gtari M, Tisa LS.Front Microbiol10.3389/fmicb.2021.7497602021Endophyte, Microbiome, Symbiont, Actinorhizal Symbiosis, Plant-growth-promoting Bacteria
34943659In Silico Analysis of PKS and NRPS Gene Clusters in Arisostatin- and Kosinostatin-Producers and Description of Micromonospora okii sp. nov.Komaki H, Ichikawa N, Hosoyama A, Hamada M, Igarashi Y.Antibiotics (Basel)10.3390/antibiotics101214472021Micromonospora, Classification, Secondary metabolite, Polyketide, Kosinostatin, Arisostatin, QuinolidomicinPhylogeny
35055716In Vitro Antitumor Activity of Endophytic and Rhizosphere Gram-Positive Bacteria from Ibervillea sonorae (S. Watson) Greene against L5178Y-R Lymphoma Cells.Romero-Arguelles R, Romo-Saenz CI, Moran-Santibanez K, Tamez-Guerra P, Quintanilla-Licea R, Orozco-Flores AA, Ramirez-Villalobos JM, Tamez-Guerra R, Rodriguez-Padilla C, Gomez-Flores R.Int J Environ Res Public Health10.3390/ijerph190208942022Bacillus, Micromonospora, Cucurbitaceae, Antitumor, Rhizosphere, Endophytic bacteria, Gram-positive, Ibervillea Sonorae, Cucurbitaceae, Rhizosphere
35953936Screening of Microbial Fermentation Products for Anti-M. tuberculosis Activity.Reheman A, Lu D, Wang Y, Chen X, Cao G, Wan C.Animals (Basel)10.3390/ani121519472022Soil microbial, fermentation products, M. Tuberculosis, Anti-m.tb, Tuberculosis Activity
40394500D-optimal design model and biosynthetic pathway for gentamicin production by Micromonospora purpureochromogenes NRRL B-16094.Suliman M, Bishr AS, Tohamy STK, Alshahrani MY, Aboshanab KM.BMC Microbiol10.1186/s12866-025-04001-82025Kanamycin, gentamicin, Fortimicin, D-optimal Design Micromonospora Purpureochromogenes Nrrl B-16094, Micromonospora, Gentamicins, Anti-Bacterial Agents, Biosynthetic Pathways
40985724Testing the Luedemann hypothesis: the discovery of novel antimicrobials from slow-growing microbes from nutrient-limited environments.Lin B, Woo S, Philbrick A, Bacsa J, Laskey E, Mehra N, Gondil VS, Mei JA, Jones G, Pavelka MS, Dziejman M, Shutter DA, Melander C, Perritt AM, Jakober R, Shen Y, Chang W-C, Quave CL, Dunman PM, Luedemann G.mSphere10.1128/msphere.00367-252025Antimicrobial, Acinetobacter baumannii, Natural product, Bacteria, Anti-Infective Agents, Anti-Bacterial Agents, Soil Microbiology

Reference

@idauthorscataloguedoi/urltitle
11293Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43821)https://www.dsmz.de/collection/catalogue/details/culture/DSM-43821
19598Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM43821.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/
68368Automatically annotated from API 20E
68382Automatically annotated from API zym
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1
126262A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer10.1093/database/baaf059StrainInfo—the central database for linked microbial strain identifiers

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