Strain identifier
BacDive ID: 12606
Type strain:
Species: Promicromonospora umidemergens
Strain Designation: 09-Be-007
Strain history: CCM 7634 <-- P. Kämpfer 09-Be-007.
NCBI tax ID(s): 629679 (species)
General
@ref: 16126
BacDive-ID: 12606
DSM-Number: 22081
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Promicromonospora umidemergens 09-Be-007 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from wall colonized with moulds.
NCBI tax id
- NCBI tax id: 629679
- Matching level: species
strain history
@ref | history |
---|---|
16126 | <- P. Kämpfer, Univ. Giessen, Germany; 09-Be-007 <- C. Trautmann, Berlin, Germany |
67770 | CCM 7634 <-- P. Kämpfer 09-Be-007. |
doi: 10.13145/bacdive12606.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Promicromonosporaceae
- genus: Promicromonospora
- species: Promicromonospora umidemergens
- full scientific name: Promicromonospora umidemergens Martin et al. 2010
@ref: 16126
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Promicromonosporaceae
genus: Promicromonospora
species: Promicromonospora umidemergens
full scientific name: Promicromonospora umidemergens Martin et al. 2010 emend. Nouioui et al. 2018
strain designation: 09-Be-007
type strain: yes
Morphology
cell morphology
- @ref: 29492
- gram stain: positive
- motility: no
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19797 | Green beige | 10-14 days | ISP 2 |
19797 | Light ivory | 10-14 days | ISP 3 |
19797 | Ivory | 10-14 days | ISP 4 |
19797 | Green beige | 10-14 days | ISP 5 |
19797 | Green beige | 10-14 days | ISP 6 |
19797 | Green beige | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
19797 | no | ISP 2 |
19797 | no | ISP 3 |
19797 | no | ISP 4 |
19797 | no | ISP 5 |
19797 | no | ISP 6 |
19797 | no | ISP 7 |
pigmentation
- @ref: 29492
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16126 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: 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 |
19797 | ISP 2 | yes | Name: 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 | |
19797 | ISP 3 | yes | Name: 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: | |
19797 | ISP 4 | yes | Name: 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 | |
19797 | ISP 5 | yes | Name: 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 | |
19797 | ISP 6 | yes | Name: 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 | |
19797 | ISP 7 | yes | Name: 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 | |
16126 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
16126 | RICH MEDIUM (DSMZ Medium 736) | yes | https://mediadive.dsmz.de/medium/736 | Name: RICH MEDIUM (DSMZ Medium 736) Composition: Agar 20.0 g/l Bacto peptone 10.0 g/l Yeast extract 5.0 g/l Malt extract 5.0 g/l Casamino acids 5.0 g/l Glycerol 2.0 g/l Meat extract 2.0 g/l MgSO4 x 7 H2O 1.0 g/l Tween 80 0.05 g/l Distilled water |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16126 | positive | growth | 28 | mesophilic |
19797 | positive | optimum | 28 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 29492
- oxygen tolerance: aerobe
observation
- @ref: 67770
- observation: quinones: MK-9(H6), MK-9(H4)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19797 | 62968 | cellulose | - | |
19797 | 16634 | raffinose | - | |
19797 | 26546 | rhamnose | + | |
19797 | 28757 | fructose | + | |
19797 | 29864 | mannitol | + | |
19797 | 17268 | myo-inositol | - | |
19797 | 18222 | xylose | - | |
19797 | 17992 | sucrose | + | |
19797 | 22599 | arabinose | + | |
19797 | 17234 | glucose | + | |
29492 | 37054 | 3-hydroxybutyrate | + | carbon source |
29492 | 22599 | arabinose | + | carbon source |
29492 | 35391 | aspartate | + | carbon source |
29492 | 17057 | cellobiose | + | carbon source |
29492 | 28757 | fructose | + | carbon source |
29492 | 17234 | glucose | + | carbon source |
29492 | 27570 | histidine | + | carbon source |
29492 | 24996 | lactate | + | carbon source |
29492 | 25115 | malate | + | carbon source |
29492 | 17306 | maltose | + | carbon source |
29492 | 37684 | mannose | + | carbon source |
29492 | 506227 | N-acetylglucosamine | + | carbon source |
29492 | 26271 | proline | + | carbon source |
29492 | 17272 | propionate | + | carbon source |
29492 | 15361 | pyruvate | + | carbon source |
29492 | 26546 | rhamnose | + | carbon source |
29492 | 33942 | ribose | + | carbon source |
29492 | 17814 | salicin | + | carbon source |
29492 | 30911 | sorbitol | + | carbon source |
29492 | 17992 | sucrose | + | carbon source |
29492 | 27082 | trehalose | + | carbon source |
29492 | 18222 | xylose | + | carbon source |
29492 | 4853 | esculin | + | hydrolysis |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | + | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | + | 3.2.1.22 |
68382 | beta-galactosidase | + | 3.2.1.23 |
68382 | beta-glucuronidase | + | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68382 | alpha-mannosidase | + | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19797 | + | + | + | - | + | - | + | - | - | + | + | + | + | + | + | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
16126 | wall colonized with moulds | Berlin | Germany | DEU | Europe |
61320 | Indoor wall material moisture | Berlin/Giessen | Germany | DEU | Europe |
67770 | Wall of a house with rising damp and colonized with moulds | Germany | DEU | Europe |
isolation source categories
Cat1 | Cat2 |
---|---|
#Engineered | #Built environment |
#Host | #Fungi |
taxonmaps
- @ref: 69479
- File name: preview.99_18738.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_1939;97_2331;98_2876;99_18738&stattab=map
- Last taxonomy: Promicromonospora
- 16S sequence: FN293378
- Sequence Identity:
- Total samples: 1363
- soil counts: 806
- aquatic counts: 37
- animal counts: 117
- plant counts: 403
Safety information
risk assessment
- @ref: 16126
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16126
- description: Promicromonospora umidemergens partial 16S rRNA gene, type strain 09-Be-007T
- accession: FN293378
- length: 1327
- database: ena
- NCBI tax ID: 629679
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Promicromonospora umidemergens DSM 22081 | 2596583659 | draft | img | 629679 |
66792 | Promicromonospora umidemergens DSM 22081 | GCA_024171995 | scaffold | ncbi | 629679 |
GC content
- @ref: 67770
- GC-content: 70.8
- method: genome sequence analysis
External links
@ref: 16126
culture collection no.: DSM 22081, CCM 7634, CCUG 57424, JCM 17975
straininfo link
- @ref: 81820
- straininfo: 400725
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19654362 | Promicromonospora umidemergens sp. nov., isolated from moisture from indoor wall material. | Martin K, Schafer J, Kampfer P | Int J Syst Evol Microbiol | 10.1099/ijs.0.014142-0 | 2009 | Actinomycetales/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, *Household Articles, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
Phylogeny | 26746665 | Promicromonospora alba sp. nov., an actinomycete isolated from the cuticle of Camponotus japonicas Mayr. | Guo L, Liu C, Zhao J, Li C, Guo S, Fan J, Li J, Wang X, Xiang W | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000885 | 2016 | ||
Phylogeny | 28879846 | Promicromonospora soli sp. nov., a novel actinomycete isolated from soil. | Zheng W, Li D, Zhao J, Liu C, Zhao Y, Xiang W, Wang X | Int J Syst Evol Microbiol | 10.1099/ijsem.0.002207 | 2017 | Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
16126 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22081) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22081 | |||
19797 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM22081.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
29492 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25892 | 28776041 | |
61320 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 57424) | https://www.ccug.se/strain?id=57424 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68382 | Automatically annotated from API zym | |||||
69479 | João 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 | |||
81820 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400725.1 | StrainInfo: A central database for resolving microbial strain identifiers |