Name: Spirosoma spitsbergense RODSPM9
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3825

Type strain:

Species: Spirosoma spitsbergense

Strain Designation: RODSPM9, SPM-9

Culture col. no.: DSM 19989, NCIMB 14407

Strain history: <- K. Finster, Århus Univ., Denmark; SPM 9 <- R. A. Herbert

NCBI tax ID(s): 1123278 (strain), 431554 (species)

SI-ID 398184

DSM 19989

Special Collections

DSMZ

Section

Spirosoma spitsbergense RODSPM9 is a Gram-negative bacterium that was isolated from permafrost soil.

Gram-negative
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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Spirosomataceae*
	Genus	*Spirosoma*
	Species	**Spirosoma spitsbergense**
	Full Scientific Name (LPSN)	Spirosoma spitsbergense Finster et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %96.833

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8279]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #8279]

Culture medium growth

[Ref.: #8279]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8279]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #8279]			growth	20 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

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

[Ref.: #8279]	Sample type/isolated from	permafrost soil
[Ref.: #8279]	Geographic location (country and/or sea, region)	Spitsbergen, Adventdalen valley
[Ref.: #8279]	Country	Norway
[Ref.: #8279]	Country ISO 3 Code	NOR
[Ref.: #8279]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Permafrost
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF451725 (>99% sequence identity) for Spirosoma spitsbergense subclade from Microbeatlas

Aquatic Samples	361
Soil Samples	323
Animal Samples	274
Plant Samples	37
Total Samples	995

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

[Ref.: #8279]

Biosafety level

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.: #8279]	Spirosoma spitsbergense strain SPM-9 16S ribosomal RNA gene, partial sequence	EF451725	1296	GenBank ENA	431554 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Spirosoma spitsbergense DSM 19989	GCA_000374085	scaffold	GenBank ENA	1123278 tax ID	*
[Ref.: #66792]	Spirosoma spitsbergense DSM 19989	1123278.3	wgs	PATRIC	1123278 tax ID	*
[Ref.: #66792]	Spirosoma spitsbergense DSM 19989	2515154151	draft	JGI IMG/M	1123278 tax ID	*

[Ref.: #8279]	GC-content	49.1 mol%	high performance liquid chromatography (HPLC)
[Ref.: #8279]	GC-content	50.4 mol%	sequence analysis

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: Spirosoma spitsbergense DSM 19989 DSM 19989 NCBI: GCA_000374085.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Spirosoma spitsbergense DSM 19989 DSM 19989 NCBI: GCA_000374085.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.833	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.491	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.228	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	87.528	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.469	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	83	no

Availability in culture collections External links

[Ref.: #8279]

Culture collection no.

DSM 19989, NCIMB 14407

[Ref.: #73336]

SI-ID 398184

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Spirosoma koreense sp. nov., a species of the family Cytophagaceae isolated from beach soil.	Ten LN, Okiria J, Lee JJ, Lee SY, Kang IK, Lee DS, Jung HY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002440	2017	*
Phylogeny	Spirosoma areae sp. nov., Isolated from Soil.	Jang JH, Cha S, Lee D, Srinivasan S, Jheong W, Hwang HS, Kim MK, Seo T	Curr Microbiol	10.1007/s00284-017-1297-8	2017	*
Phylogeny	Spirosoma montaniterrae sp. nov., an ultraviolet and gamma radiation-resistant bacterium isolated from mountain soil.	Lee JJ, Kang MS, Joo ES, Kim MK, Im WT, Jung HY, Srinivasan S	J Microbiol	10.1007/s12275-015-5008-5	2015	*
Phylogeny	Spirosoma radiotolerans sp. nov., a gamma-radiation-resistant bacterium isolated from gamma ray-irradiated soil.	Lee JJ, Srinivasan S, Lim S, Joe M, Im S, Bae SI, Park KR, Han JH, Park SH, Joo BM, Park SJ, Kim MK	Curr Microbiol	10.1007/s00284-014-0584-x	2014	*
Phylogeny	Spirosoma spitsbergense sp. nov. and Spirosoma luteum sp. nov., isolated from a high Arctic permafrost soil, and emended description of the genus Spirosoma.	Finster KW, Herbert RA, Lomstein BA	Int J Syst Evol Microbiol	10.1099/ijs.0.002725-0	2009	*

References

#8279

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19989

#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) .

#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 )

#73336

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-ID398184.1 )

* These data were automatically processed and therefore are not curated

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Spirosoma spitsbergense DSM 19989 DSM 19989

Spirosoma spitsbergense DSM 19989 DSM 19989

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