Name: Symbiobacterium terraclitae KA13
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130834

Type strain:

Species: Symbiobacterium terraclitae

Strain Designation: KA13

Culture col. no.: DSM 27138, JCM 15997, KCTC 4569

Strain history: K. Ueda KA13.

NCBI tax ID(s): 557451 (species)

SI-ID 407189

DSM 27138

Section

Symbiobacterium terraclitae KA13 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from barnacle .

motile
spore-forming
anaerobe
thermophilic
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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Symbiobacteriaceae*
	Genus	*Symbiobacterium*
	Species	**Symbiobacterium terraclitae**
	Full Scientific Name (LPSN)	Symbiobacterium terraclitae Shiratori-Takano et al. 2014

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69480]	Motility	yes Confidence in %91.121

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21829]

Culture medium

NB-PYRUVATE AGAR (DSMZ Medium 1509)

[Ref.: #21829]

Culture medium growth

[Ref.: #21829]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21829]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21829]			growth	55 °C
[Ref.: #67770]			growth	55 °C

[Ref.: #21829]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %95.584

Information on physiology and metabolism Physiology and metabolism

[Ref.: #21829]

Oxygen tolerance

anaerobe

[Ref.: #69481]	Ability of spore formation	yes Confidence in %98
[Ref.: #69480]	Ability of spore formation	yes Confidence in %99.557

[Ref.: #67770]

Observation

quinones: MK-6

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

[Ref.: #21829]	Sample type/isolated from	barnacle (Terraclita japonica)
[Ref.: #21829]	Host species	Terraclita japonica
[Ref.: #21829]	Geographic location (country and/or sea, region)	Kanagawa prefecture, Pacific coastline of Enoshima
[Ref.: #21829]	Country	Japan
[Ref.: #21829]	Country ISO 3 Code	JPN
[Ref.: #21829]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Barnacle (Terraclita japonica) collected on the Pacific coastline in Enoshima
[Ref.: #67770]	Host species	Terraclita japonica
[Ref.: #67770]	Geographic location (country and/or sea, region)	Kanagawa
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host

#Arthropoda

#Crustacea

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB455239 (>99% sequence identity) for Symbiobacterium terraclitae subclade from Microbeatlas

Aquatic Samples	587
Soil Samples	3393
Animal Samples	528
Plant Samples	721
Total Samples	5229

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

[Ref.: #21829]

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.: #21829]	Symbiobacterium terraclitae gene for 16S rRNA, partial sequence	AB455239	1454	ENA	557451 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Symbiobacterium terraclitae DSM 27138	GCA_017874315	contig	GenBank	557451 tax ID	*
[Ref.: #66792]	Symbiobacterium terraclitae strain DSM 27138	557451.3	wgs	PATRIC	557451 tax ID	*
[Ref.: #66792]	Symbiobacterium terraclitae DSM 27138	2913498752	draft	JGI IMG/M	557451 tax ID	*

[Ref.: #21829]

GC-content

67.1 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Symbiobacterium terraclitae strain DSM 27138 PATRIC: 557451.3
[Ref.: #69481]	spore-forming	yes	98	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Symbiobacterium terraclitae strain DSM 27138 PATRIC: 557451.3
[Ref.: #69480]	gram-positive	no	66.3	no
[Ref.: #69480]	anaerobic	yes	65.351	yes
[Ref.: #69480]	halophile	no	90.993	no
[Ref.: #69480]	spore-forming	yes	90.03	no
[Ref.: #69480]	glucose-util	yes	90.567	no
[Ref.: #69480]	aerobic	no	85.095	yes
[Ref.: #69480]	thermophile	yes	97.781	no
[Ref.: #69480]	motile	yes	83.928	no
[Ref.: #69480]	flagellated	no	64.983	no
[Ref.: #69480]	glucose-ferment	no	86.092	no

Availability in culture collections External links

[Ref.: #21829]

Culture collection no.

DSM 27138, JCM 15997, KCTC 4569

[Ref.: #89321]

SI-ID 407189

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Symbiobacterium ostreiconchae sp. nov., Symbiobacterium turbinis sp. nov. and Symbiobacterium terraclitae sp. nov., isolated from shellfish, emended description of the genus Symbiobacterium and proposal of Symbiobacteriaceae fam. nov.	Shiratori-Takano H, Akita K, Yamada K, Itoh T, Sugihara T, Beppu T, Ueda K	Int J Syst Evol Microbiol	10.1099/ijs.0.063750-0	2014	*

References

#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 )

#21829

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27138

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

#89321

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-ID407189.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Symbiobacterium terraclitae in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Symbiobacterium terraclitae strain DSM 27138

Symbiobacterium terraclitae strain DSM 27138

Change proposal

Change proposal