Strain identifier
BacDive ID: 16509
Type strain:
Species: Herbidospora cretacea
Strain history: DSM 45214 <-- S.-K. Tang <-- J. Li YIM 65070.
NCBI tax ID(s): 28444 (species)
General
@ref: 15795
BacDive-ID: 16509
DSM-Number: 45214
keywords: 16S sequence, Bacteria, spore-forming, mesophilic
description: Herbidospora cretacea DSM 45214 is a spore-forming, mesophilic bacterium that builds an aerial mycelium and was isolated from surface sterilized plant sample of Osyris wightiana Wall. ex Wight.
NCBI tax id
- NCBI tax id: 28444
- Matching level: species
strain history
@ref | history |
---|---|
15795 | <- S.-K. Tang, YIM; YIM 65070 <- J. Li |
67770 | DSM 45214 <-- S.-K. Tang <-- J. Li YIM 65070. |
doi: 10.13145/bacdive16509.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Streptosporangiaceae
- genus: Herbidospora
- species: Herbidospora cretacea
- full scientific name: Herbidospora cretacea Kudo et al. 1993
synonyms
@ref synonym 20215 Herbidospora osyris 20215 Streptosporangium claviforme
@ref: 15795
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Streptosporangiaceae
genus: Herbidospora
species: Herbidospora cretacea
full scientific name: Herbidospora cretacea Kudo et al. 1993 emend. Nouioui et al. 2018
type strain: no
Morphology
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
20181 | Green brown (8000) | 10-14 days | ISP 2 |
20181 | Ivory (1014) | 10-14 days | ISP 3 |
20181 | Light ivory (1015) | 10-14 days | ISP 4 |
20181 | Light ivory (1015) | 10-14 days | ISP 5 |
20181 | Green brown (8000) | 10-14 days | ISP 6 |
20181 | Light ivory (1015) | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | complex name | complex color | medium name |
---|---|---|---|---|
20181 | yes | Aerial Mycelium | Green brown | ISP 2 |
20181 | no | ISP 3 | ||
20181 | no | ISP 4 | ||
20181 | no | ISP 5 | ||
20181 | no | ISP 6 | ||
20181 | no | ISP 7 |
pigmentation
- @ref: 29304
- production: no
multimedia
- @ref: 15795
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_45214.jpg
- caption: Medium 553 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
15795 | GPHF-MEDIUM (DSMZ Medium 553) | yes | https://mediadive.dsmz.de/medium/553 | Name: 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 |
20181 | 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 | |
20181 | 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: | |
20181 | 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 | |
20181 | 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 | |
20181 | 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 | |
20181 | 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 | |
15795 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf | |
15795 | STARCH - MINERAL SALT - AGAR (STMS) (DSMZ Medium 252) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium252.pdf |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15795 | positive | growth | 28 | mesophilic |
20181 | positive | optimum | 28 | mesophilic |
29304 | positive | growth | 10-37 | |
67770 | positive | growth | 28 | mesophilic |
culture pH
- @ref: 29304
- ability: positive
- type: growth
- pH: 06-08
Physiology and metabolism
spore formation
- @ref: 29304
- spore formation: yes
halophily
- @ref: 29304
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-3 %
observation
- @ref: 67770
- observation: quinones: MK-10(H4), MK-10(H2)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
20181 | 17234 | glucose | + | |
20181 | 22599 | arabinose | - | |
20181 | 17992 | sucrose | - | |
20181 | 18222 | xylose | - | |
20181 | 17268 | myo-inositol | - | |
20181 | 29864 | mannitol | - | |
20181 | 28757 | fructose | + | |
20181 | 26546 | rhamnose | - | |
20181 | 16634 | raffinose | - | |
20181 | 62968 | cellulose | - | |
29304 | 16449 | alanine | + | carbon source |
29304 | 17057 | cellobiose | + | carbon source |
29304 | 28757 | fructose | + | carbon source |
29304 | 28260 | galactose | + | carbon source |
29304 | 17754 | glycerol | + | carbon source |
29304 | 27570 | histidine | + | carbon source |
29304 | 25115 | malate | + | carbon source |
29304 | 17306 | maltose | + | carbon source |
29304 | 29864 | mannitol | + | carbon source |
29304 | 37684 | mannose | + | carbon source |
29304 | 28053 | melibiose | + | carbon source |
29304 | 28044 | phenylalanine | + | carbon source |
29304 | 26271 | proline | + | carbon source |
29304 | 16634 | raffinose | + | carbon source |
29304 | 33942 | ribose | + | carbon source |
29304 | 17814 | salicin | + | carbon source |
29304 | 17822 | serine | + | carbon source |
29304 | 26986 | threonine | + | carbon source |
29304 | 27082 | trehalose | + | carbon source |
29304 | 53424 | tween 20 | + | carbon source |
29304 | 53423 | tween 40 | + | carbon source |
29304 | 18222 | xylose | + | carbon source |
29304 | 4853 | esculin | + | hydrolysis |
enzymes
@ref | value | activity | ec |
---|---|---|---|
29304 | catalase | + | 1.11.1.6 |
29304 | urease | + | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
20181 | - | + | + | + | + | + | + | - | + | - | + | - | - | - | + | + | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent |
---|---|---|---|---|---|---|
15795 | surface sterilized plant sample of Osyris wightiana Wall. ex Wight | Osyris wightiana | Yunnan province | China | CHN | Asia |
67770 | Surface-sterilized tissue of Osyris wightiana Wall. ex Wight | Osyris wightiana | Yunnan Province, south-west China | China | CHN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Shrub (Scrub) |
#Host Body-Site | #Plant | #Sterilized plant part |
Safety information
risk assessment
- @ref: 15795
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15795
- description: Herbidospora cretacea strain YIM 65070 16S ribosomal RNA gene, partial sequence
- accession: FJ214356
- length: 1425
- database: ena
- NCBI tax ID: 28444
GC content
@ref | GC-content | method |
---|---|---|
15795 | 70.4 | |
67770 | 70.4 | high performance liquid chromatography (HPLC) |
External links
@ref: 15795
culture collection no.: DSM 45214, BCC 49353, CCTCC AA 208019, JCM 16900, NBRC 106571, TBRC 193, YIM 65070, BCRC 16898
straininfo link
- @ref: 85542
- straininfo: 364833
literature
- topic: Phylogeny
- Pubmed-ID: 19643877
- title: Herbidospora osyris sp. nov., isolated from surface-sterilized tissue of Osyris wightiana Wall. ex Wight.
- authors: Li J, Zhao GZ, Qin S, Zhu WY, Xu LH, Li WJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.010579-0
- year: 2009
- mesh: Actinomycetales/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Santalaceae/*microbiology
- topic2: Metabolism
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
15795 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45214) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45214 | |||
20181 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM45214.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 | |||
29304 | 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 | 25718 | 28776041 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68382 | Automatically annotated from API zym | |||||
85542 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID364833.1 | StrainInfo: A central database for resolving microbial strain identifiers |