Strain identifier
BacDive ID: 24454
Type strain: 
Species: Saccharopolyspora dendranthemae
Strain history: <- S Qin, Xuzhou Normal Univ., China
NCBI tax ID(s): 1181886 (species)
version 8.1 (current version)
General
@ref: 20797
BacDive-ID: 24454
DSM-Number: 46699
keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive
description: Saccharopolyspora dendranthemae DSM 46699 is an aerobe, spore-forming, mesophilic bacterium that was isolated from surface-sterilized stems of a coastal salt marsh plant Dendranthema indicum .
NCBI tax id
- NCBI tax id: 1181886
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20797 | <- KCTC; KCTC 19889 <- S. Qin; KLBMP 1305 |
| 67771 | <- S Qin, Xuzhou Normal Univ., China |
doi: 10.13145/bacdive24454.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Pseudonocardiales
- family: Pseudonocardiaceae
- genus: Saccharopolyspora
- species: Saccharopolyspora dendranthemae
- full scientific name: Saccharopolyspora dendranthemae Zhang et al. 2014
@ref: 20797
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Pseudonocardiaceae
genus: Saccharopolyspora
species: Saccharopolyspora dendranthemae
full scientific name: Saccharopolyspora dendranthemae Zhang et al. 2014
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 67771 | positive | ||
| 69480 | no | 93.951 | |
| 69480 | positive | 100 |
multimedia
- @ref: 20797
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46699.jpg
- caption: Medium 553 28°C
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 20797
- name: GPHF-MEDIUM (DSMZ Medium 553)
- growth: yes
- link: https://mediadive.dsmz.de/medium/553
- composition: 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
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 20797 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 95 |
| 69480 | yes | 100 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 20797 | surface-sterilized stems of a coastal salt marsh plant Dendranthema indicum (Linn) | Jiangsu Province, Nantong | China | CHN | Asia |
| 67771 | From plant | Jiangsu | China | CHN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Stem (Branch) |
| #Host Body-Site | #Plant | #Sterilized plant part |
taxonmaps
- @ref: 69479
- File name: preview.99_47007.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1393;97_7142;98_8820;99_47007&stattab=map
- Last taxonomy: Saccharopolyspora
- 16S sequence: JQ819260
- Sequence Identity:
- Total samples: 319
- soil counts: 97
- aquatic counts: 16
- animal counts: 186
- plant counts: 20
Safety information
risk assessment
- @ref: 20797
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20797
- description: Saccharopolyspora dendranthemae strain KLBMP 1305 16S ribosomal RNA gene, partial sequence
- accession: JQ819260
- length: 1445
- database: ena
- NCBI tax ID: 1181886
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Saccharopolyspora dendranthemae DSM 46699 | GCA_007829955 | contig | ncbi | 1181886 |
| 66792 | Saccharopolyspora dendranthemae strain DSM 46699 | 1181886.3 | wgs | patric | 1181886 |
| 66792 | Saccharopolyspora dendranthemae DSM 46699 | 2818991479 | draft | img | 1181886 |
GC content
- @ref: 20797
- GC-content: 68.7
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 95 | no |
| motile | no | 90.87 | no |
| gram-positive | yes | 90.275 | yes |
| anaerobic | no | 98.757 | no |
| aerobic | yes | 92.573 | yes |
| halophile | yes | 50.783 | no |
| spore-forming | yes | 92.091 | no |
| flagellated | no | 97.335 | no |
| thermophile | no | 97.767 | yes |
| glucose-util | yes | 88.255 | no |
| glucose-ferment | no | 92.34 | no |
External links
@ref: 20797
culture collection no.: DSM 46699, KCTC 19889, NBRC 108675, KLBMP 1305
straininfo link
- @ref: 88329
- straininfo: 402781
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23559043 | Saccharopolyspora dendranthemae sp. nov. a halotolerant endophytic actinomycete isolated from a coastal salt marsh plant in Jiangsu, China. | Zhang YJ, Zhang WD, Qin S, Bian GK, Xing K, Li YF, Cao CL, Jiang JH | Antonie Van Leeuwenhoek | 10.1007/s10482-013-9917-1 | 2013 | Bacterial Typing Techniques, Base Composition, Base Sequence, China, Chrysanthemum/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/metabolism, Endophytes/classification/genetics/*isolation & purification/*physiology, Energy Metabolism, Fatty Acids, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Saccharopolyspora/classification/genetics/*isolation & purification/*physiology, *Salt Tolerance, Sequence Analysis, DNA, Sodium Chloride, Vitamin K 2/analysis, *Wetlands | Metabolism |
| Phylogeny | 27604103 | Saccharopolyspora griseoalba sp. nov., a novel actinomycete isolated from the Dead Sea. | Jiang Y, Wei X, Chen X, Jiang Y, Xue Q, Lai H, Jiang C | Antonie Van Leeuwenhoek | 10.1007/s10482-016-0763-9 | 2016 | Geologic Sediments/microbiology, Molecular Typing, Oceans and Seas, Phylogeny, RNA, Bacterial, RNA, Ribosomal, 16S, Saccharopolyspora/classification/genetics/*isolation & purification/ultrastructure, Soil Microbiology, *Water Microbiology | Enzymology |
| Phylogeny | 28632117 | Saccharopolyspora spongiae sp. nov., a novel actinomycete isolated from the marine sponge Scopalina ruetzleri (Wiedenmayer, 1977). | Souza DT, Silva FSPD, Silva LJD, Crevelin EJ, Moraes LAB, Zucchi TD, Melo IS | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001912 | 2017 | Animals, Bacterial Typing Techniques, Base Composition, Brazil, DNA, Bacterial/genetics, Nucleic Acid Hybridization, *Phylogeny, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Saccharopolyspora/*classification/genetics/isolation & purification, Sequence Analysis, DNA | Transcriptome |
| Phylogeny | 30789325 | Saccharopolyspora rhizosphaerae sp. nov., an actinomycete isolated from rhizosphere soil in Thailand. | Intra B, Euanorasetr J, Take A, Inahashi Y, Mori M, Panbangred W, Matsumoto A | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003307 | 2019 | Bacterial Typing Techniques, Base Composition, Colocasia/*microbiology, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Saccharopolyspora/*classification/isolation & purification, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |
| 20797 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-46699 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46699) | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 88329 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID402781.1 |