Name: Spiroplasma eriocheiris CRAB
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 14381

Type strain:

Species: Spiroplasma eriocheiris

Strain Designation: CRAB, TDA-040725-5

Culture col. no.: DSM 21848, CCTCC M 207170

Strain history: <- W. Wang, College of Life Sciences; TDA-040725-5

NCBI tax ID(s): 743698 (strain), 315358 (species)

SI-ID 402124

DSM 21848

Special Collections

DSMZ

Section

Spiroplasma eriocheiris CRAB is a microaerophile animal pathogen that was isolated from haemolymph a Chinese mitten crab, Eriocheir sinensis , with tremor disease.

animal pathogen
microaerophile
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Mycoplasmatota*
	Class	*Mollicutes*
	Order	*Mycoplasmatales*
	Family	*Spiroplasmataceae*
	Genus	*Spiroplasma*
	Species	**Spiroplasma eriocheiris**
	Full Scientific Name (LPSN)	Spiroplasma eriocheiris Wang et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Motility	no Confidence in %93.35

[Ref.: #15988]

Incubation period

3-7 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15988]

Culture medium

SP4 MEDIUM (DSMZ Medium 1076)

[Ref.: #15988]

Culture medium growth

[Ref.: #15988]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15988]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #15988]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15988]

Oxygen tolerance

microaerophile

[Ref.: #69480]	Ability of spore formation	no Confidence in %93.27
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	UDP-GlcNAc biosynthesis	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	vitamin B1 metabolism	61.54	8 of 13
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	Entner Doudoroff pathway	60	6 of 10
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	pyrimidine metabolism	53.33	24 of 45
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	purine metabolism	48.94	46 of 94
[Ref.: #66794]	phenylalanine metabolism	46.15	6 of 13
[Ref.: #66794]	NAD metabolism	44.44	8 of 18
[Ref.: #66794]	valine metabolism	44.44	4 of 9
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	degradation of sugar alcohols	43.75	7 of 16
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	methylglyoxal degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	non-pathway related	39.47	15 of 38
[Ref.: #66794]	gluconeogenesis	37.5	3 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	37.5	3 of 8
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	tetrahydrofolate metabolism	35.71	5 of 14
[Ref.: #66794]	methionine metabolism	34.62	9 of 26
[Ref.: #66794]	isoprenoid biosynthesis	34.62	9 of 26
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid metabolism	32.26	10 of 31
[Ref.: #66794]	degradation of pentoses	32.14	9 of 28
[Ref.: #66794]	degradation of sugar acids	32	8 of 25
[Ref.: #66794]	oxidative phosphorylation	30.77	28 of 91
[Ref.: #66794]	threonine metabolism	30	3 of 10
[Ref.: #66794]	tryptophan metabolism	28.95	11 of 38
[Ref.: #66794]	glutathione metabolism	28.57	4 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	28.57	8 of 28
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	flavin biosynthesis	26.67	4 of 15
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	isoleucine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	C4 and CAM-carbon fixation	25	2 of 8
[Ref.: #66794]	urea cycle	23.08	3 of 13
[Ref.: #66794]	leucine metabolism	23.08	3 of 13
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	lipid A biosynthesis	22.22	2 of 9
[Ref.: #66794]	cysteine metabolism	22.22	4 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	22.22	2 of 9
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	citric acid cycle	21.43	3 of 14
[Ref.: #66794]	tyrosine metabolism	21.43	3 of 14
[Ref.: #66794]	histidine metabolism	20.69	6 of 29
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #15988]	Sample type/isolated from	haemolymph a Chinese mitten crab, Eriocheir sinensis , with tremor disease
[Ref.: #15988]	Host species	Eriocheir sinensis
[Ref.: #15988]	Country	China
[Ref.: #15988]	Country ISO 3 Code	CHN
[Ref.: #15988]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Arthropoda	#Crustacea
#Host Body Product	#Fluids	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ917753 (>99% sequence identity) for Spiroplasma from Microbeatlas

Aquatic Samples	45
Soil Samples	34
Animal Samples	110
Plant Samples	9
Total Samples	198

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #15988]	Pathogenicity (animal)	yes
[Ref.: #15988]	Biosafety level	1	Risk group (German classification) According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #15988]	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	DQ917753	4726	GenBank ENA	743698 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Spiroplasma eriocheiris DSM 21848	GCA_001029265	complete	GenBank ENA	315358 tax ID	*
[Ref.: #66792]	Spiroplasma eriocheiris CCTCC M 207170 strain CCTCC M 207170	743698.4	complete	PATRIC	743698 tax ID	*
[Ref.: #66792]	Spiroplasma eriocheiris CCTCC M 207170 strain DSM 21848	743698.3	complete	PATRIC	743698 tax ID	*
[Ref.: #66792]	Spiroplasma eriocheiris TDA-040725-5	2630968436	draft	JGI IMG/M	315358 tax ID	*

[Ref.: #15988]

GC-content

29.7±1 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Spiroplasma eriocheiris CCTCC M 207170 strain DSM 21848 PATRIC: 743698.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Spiroplasma eriocheiris CCTCC M 207170 strain CCTCC M 207170 PATRIC: 743698.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	70.711	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	77.452	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.27	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	97.057	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	96.366	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	93.35	no

Availability in culture collections External links

[Ref.: #15988]

Culture collection no.

DSM 21848, CCTCC M 207170

[Ref.: #83524]

SI-ID 402124

Literature:

Topic	Title	Authors	Journal	DOI	Year
Enzymology	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	*
Phylogeny	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	*

References

#15988

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21848

#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. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 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.: MicrobeAtlas 1.0 beta .

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#83524

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 . ( DOI 10.60712/SI-ID402124.1 )

* These data were automatically processed and therefore are not curated

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Spiroplasma eriocheiris CCTCC M 207170 strain DSM 21848

Spiroplasma eriocheiris CCTCC M 207170 strain CCTCC M 207170

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