Strain identifier
BacDive ID: 16575
Type strain:
Species: Planobispora rosea
Strain Designation: Pb-1435
Strain history: KCC A-0166 <-- G. Beretta <-- J. E. Thiemann Pb1435.
NCBI tax ID(s): 35762 (species)
General
@ref: 10721
BacDive-ID: 16575
DSM-Number: 43051
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic
description: Planobispora rosea Pb-1435 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from soil.
NCBI tax id
- NCBI tax id: 35762
- Matching level: species
strain history
@ref | history |
---|---|
10721 | <- KCC <- G. Beretta, Pb-1435 |
67770 | KCC A-0166 <-- G. Beretta <-- J. E. Thiemann Pb1435. |
doi: 10.13145/bacdive16575.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Planobispora
- species: Planobispora rosea
- full scientific name: Planobispora rosea Thiemann 1970 (Approved Lists 1980)
@ref: 10721
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Planobispora
species: Planobispora rosea
full scientific name: Planobispora rosea Thiemann 1970
strain designation: Pb-1435
type strain: yes
Morphology
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19540 | red orange | 10-14 days | ISP 2 |
19540 | red orange | 10-14 days | ISP 3 |
19540 | red orange | 10-14 days | ISP 4 |
19540 | red orange | 10-14 days | ISP 5 |
19540 | yellow orange | 10-14 days | ISP 6 |
19540 | red orange | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | complex color | medium name |
---|---|---|---|---|
19540 | yes | Aerial Mycelium | White | ISP 2 |
19540 | yes | Aerial Mycelium | White | ISP 3 |
19540 | yes | Aerial Mycelium | White | ISP 4 |
19540 | yes | Aerial Mycelium | White | ISP 5 |
19540 | no | ISP 6 | ||
19540 | yes | Aerial Mycelium | White | ISP 7 |
multimedia
- @ref: 10721
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_43051.jpg
- caption: Medium 65 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
10721 | 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 |
10721 | ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) | yes | https://mediadive.dsmz.de/medium/84 | Name: ROLLED OATS MINERAL MEDIUM (DSMZ Medium 84) Composition: Agar 20.0 g/l Rolled oats 20.0 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l Distilled water |
19540 | 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 | |
19540 | 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: | |
19540 | 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 | |
19540 | 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 | |
19540 | 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 | |
19540 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
10721 | positive | growth | 28 | mesophilic |
19540 | positive | optimum | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
spore formation
- @ref: 19540
- spore description: Formation of spore chains: only spore pairs, spore surface: smooth
- type of spore: spore
- spore formation: yes
halophily
- @ref: 19540
- salt: NaCl
- growth: positive
- tested relation: maximum
- concentration: 2.5 %
observation
- @ref: 67770
- observation: quinones: MK-9(H4), MK-9(H2)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68368 | 5291 | gelatin | + | hydrolysis |
68368 | 27897 | tryptophan | - | energy source |
68368 | 16199 | urea | + | hydrolysis |
68368 | 16947 | citrate | + | assimilation |
68368 | 18257 | ornithine | + | degradation |
68368 | 25094 | lysine | + | degradation |
68368 | 29016 | arginine | + | hydrolysis |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68368 | 15688 | acetoin | no |
68368 | 35581 | indole | no |
68368 | 16136 | hydrogen sulfide | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68368 | 15688 | acetoin | - | |
68368 | 35581 | indole | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68368 | gelatinase | + | |
68368 | tryptophan deaminase | - | 4.1.99.1 |
68368 | urease | + | 3.5.1.5 |
68368 | ornithine decarboxylase | + | 4.1.1.17 |
68368 | lysine decarboxylase | + | 4.1.1.18 |
68368 | arginine dihydrolase | + | 3.5.3.6 |
68368 | beta-galactosidase | + | 3.2.1.23 |
API 20E
@ref | ONPG | ADH Arg | LDC Lys | ODC | CIT | H2S | URE | TDA Trp | IND | VP | GEL |
---|---|---|---|---|---|---|---|---|---|---|---|
19540 | + | + | + | + | + | - | + | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
10721 | soil | ||||
67770 | Soil | Falcon | Venezuela | VEN | Middle and South America |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
10721 | 1 | Risk group (German classification) |
19540 | 1 | Risk group (German classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Planobispora rosea strain ATCC23866 16S ribosomal RNA gene, partial sequence | AF051395 | 192 | ena | 35762 |
20218 | Planobispora rosea gene for 16S ribosomal RNA | AB028654 | 1443 | ena | 35762 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Planobispora rosea JCM 3166 | GCA_014648175 | contig | ncbi | 35762 |
66792 | Planobispora rosea NBRC 15558 | GCA_016863155 | contig | ncbi | 35762 |
66792 | Planobispora rosea strain JCM 3166 | 35762.10 | wgs | patric | 35762 |
66792 | Planobispora rosea strain NBRC 15558 | 35762.11 | wgs | patric | 35762 |
GC content
- @ref: 67770
- GC-content: 70
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
gram-positive | yes | 87.988 | no |
anaerobic | no | 98.927 | no |
halophile | no | 92.187 | no |
spore-forming | yes | 93.24 | no |
glucose-util | yes | 86.903 | no |
motile | yes | 64.454 | no |
flagellated | no | 88.327 | no |
aerobic | yes | 90.108 | no |
thermophile | no | 97.68 | yes |
glucose-ferment | no | 91.834 | no |
External links
@ref: 10721
culture collection no.: DSM 43051, ATCC 23866, JCM 3166, KCC A-0166, BCRC 13421, IFO 15558, IMSNU 21363, KCTC 9406, NBRC 15558, NRRL B-8121, VKM Ac-1318
straininfo link
- @ref: 85602
- straininfo: 319092
literature
- topic: Phylogeny
- Pubmed-ID: 24408527
- title: Planobispora takensis sp. nov., isolated from soil.
- authors: Ngaemthao W, Suriyachadkun C, Chunhametha S, Niemhom N, Thawai C, Sanglier JJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.057968-0
- year: 2014
- mesh: Actinomycetales/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Trees/microbiology, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
10721 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43051) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-43051 | |||
19540 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM43051.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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
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/ | ||||
68368 | Automatically annotated from API 20E | |||||
85602 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID319092.1 | StrainInfo: A central database for resolving microbial strain identifiers |