Strain identifier
BacDive ID: 14381
Type strain: 
Species: Spiroplasma eriocheiris
Strain Designation: CRAB, TDA-040725-5
Strain history: <- W. Wang, College of Life Sciences; TDA-040725-5
NCBI tax ID(s): 743698 (strain), 315358 (species)
version 9.1 (current version)
General
@ref: 15988
BacDive-ID: 14381
DSM-Number: 21848
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, animal pathogen
description: Spiroplasma eriocheiris CRAB is a microaerophile animal pathogen that was isolated from haemolymph a Chinese mitten crab, Eriocheir sinensis , with tremor disease.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 315358 | species |
| 743698 | strain |
strain history
- @ref: 15988
- history: <- W. Wang, College of Life Sciences; TDA-040725-5
doi: 10.13145/bacdive14381.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/mycoplasmatota
- domain: Bacteria
- phylum: Mycoplasmatota
- class: Mollicutes
- order: Mycoplasmatales
- family: Spiroplasmataceae
- genus: Spiroplasma
- species: Spiroplasma eriocheiris
- full scientific name: Spiroplasma eriocheiris Wang et al. 2011
@ref: 15988
domain: Bacteria
phylum: Tenericutes
class: Mollicutes
order: Entomoplasmatales
family: Spiroplasmataceae
genus: Spiroplasma
species: Spiroplasma eriocheiris
full scientific name: Spiroplasma eriocheiris Wang et al. 2011
strain designation: CRAB, TDA-040725-5
type strain: yes
Morphology
cell morphology
- @ref: 69480
- motility: no
- confidence: 93.35
colony morphology
- @ref: 15988
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 15988
- name: SP4 MEDIUM (DSMZ Medium 1076)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1076
- composition: Name: SP4 MEDIUM (DSMZ Medium 1076) Composition: Tryptone 9.70874 g/l Peptone 5.14563 g/l PPLO broth 3.39806 g/l Yeast extract 1.0 g/l L-Glutamine 0.0496876 g/l Phenol red 0.01 g/l CMRL 1066 Fetal bovine serum Distilled water
culture temp
- @ref: 15988
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
oxygen tolerance
- @ref: 15988
- oxygen tolerance: microaerophile
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69480 | no | 93.27 |
| 69481 | no | 100 |
Isolation, sampling and environmental information
isolation
- @ref: 15988
- sample type: haemolymph a Chinese mitten crab, Eriocheir sinensis , with tremor disease
- host species: Eriocheir sinensis
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Arthropoda | #Crustacea |
| #Host Body Product | #Fluids |
taxonmaps
- @ref: 69479
- File name: preview.99_307.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15899;96_212;97_231;98_260;99_307&stattab=map
- Last taxonomy: Spiroplasma
- 16S sequence: DQ917753
- Sequence Identity:
- Total samples: 198
- soil counts: 34
- aquatic counts: 45
- animal counts: 110
- plant counts: 9
Safety information
risk assessment
- @ref: 15988
- pathogenicity animal: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15988
- description: Spiroplasma eriocheiris CCTCC M 207170 strain CRAB 16S ribosomal RNA gene, partial sequence; and 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, complete sequence
- accession: DQ917753
- length: 4726
- database: nuccore
- NCBI tax ID: 743698
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Spiroplasma eriocheiris DSM 21848 | GCA_001029265 | complete | ncbi | 315358 |
| 66792 | Spiroplasma eriocheiris CCTCC M 207170 strain CCTCC M 207170 | 743698.4 | complete | patric | 743698 |
| 66792 | Spiroplasma eriocheiris CCTCC M 207170 strain DSM 21848 | 743698.3 | complete | patric | 743698 |
| 66792 | Spiroplasma eriocheiris TDA-040725-5 | 2630968436 | draft | img | 315358 |
GC content
- @ref: 15988
- GC-content: 29.7±1
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 70.711 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 77.452 | yes |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 93.27 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 97.057 | yes |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 96.366 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 93.35 | no |
External links
@ref: 15988
culture collection no.: DSM 21848, CCTCC M 207170
straininfo link
- @ref: 83524
- straininfo: 402124
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 20418415 | Spiroplasma eriocheiris sp. nov., associated with mortality in the Chinese mitten crab, Eriocheir sinensis. | Wang W, Gu W, Gasparich GE, Bi K, Ou J, Meng Q, Liang T, Feng Q, Zhang J, Zhang Y | Int J Syst Evol Microbiol | 10.1099/ijs.0.020529-0 | 2010 | Animals, Antibodies, Bacterial/immunology, Bacterial Typing Techniques, Base Composition, Brachyura/*microbiology, China, Cluster Analysis, Cross Reactions, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Hemolymph/microbiology, Locomotion, Microscopy, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spiroplasma/*classification/genetics/*isolation & purification/physiology | Genetics |
| Enzymology | 27926815 | Identification of lysophospholipase protein from Spiroplasma eriocheiris and verification of its function. | Zhu H, Liu P, Du J, Wang J, Jing Y, Zhang J, Gu W, Wang W, Meng Q | Microbiology (Reading) | 10.1099/mic.0.000407 | 2017 | Amino Acid Sequence, Animals, Antibodies, Neutralizing/*immunology, Brachyura/*microbiology, Cell Line, Cloning, Molecular, Escherichia coli/genetics/metabolism, Lysophospholipase/*genetics/*immunology, Mice, Sequence Alignment, Spiroplasma/enzymology/genetics/*pathogenicity | Metabolism |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 15988 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21848) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21848 | |||
| 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 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 83524 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402124.1 | StrainInfo: A central database for resolving microbial strain identifiers |