Name: Cecembia rubra DSM 28057
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 131367

Type strain:

Species: Cecembia rubra

Culture col. no.: DSM 28057, CCTCC AB 2013287, YIM 78110

Strain history: <- W.-J. Li, YIM; YIM 78110

NCBI tax ID(s): 1485585 (species)

SI-ID 400038

DSM 28057

Section

Cecembia rubra DSM 28057 is a thermophilic bacterium that was isolated from hot spring sediment.

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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Cyclobacteriaceae*
	Genus	*Cecembia*
	Species	**Cecembia rubra**
	Full Scientific Name (LPSN)	Cecembia rubra Duan et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #69480]	Motility	no Confidence in %91.971

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22594]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #22594]

Culture medium growth

[Ref.: #22594]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22594]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22594]			growth	45 °C

[Ref.: #22594]

Temperature range

thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %99
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.821

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

[Ref.: #22594]	Sample type/isolated from	hot spring sediment
[Ref.: #22594]	Geographic location (country and/or sea, region)	Yunnan province, Tengchong, Hehua hot spring
[Ref.: #22594]	Country	China
[Ref.: #22594]	Country ISO 3 Code	CHN
[Ref.: #22594]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Aquatic	#Thermal spring
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ361469 (>99% sequence identity) for Cecembia rubra subclade from Microbeatlas

Aquatic Samples	45
Soil Samples	11
Animal Samples	31
Plant Samples	1
Total Samples	88

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

[Ref.: #22594]

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.: #22594]	Cecembia rubra strain YIM 78110 16S ribosomal RNA gene, partial sequence	KJ361469	1543	ENA	1485585 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Cecembia rubra DSM 28057	GCA_003014575	scaffold	GenBank	1485585 tax ID	*
[Ref.: #66792]	Cecembia rubra strain DSM 28057	1485585.3	wgs	PATRIC	1485585 tax ID	*
[Ref.: #66792]	Cecembia rubra DSM 28057	2728369475	draft	JGI IMG/M	1485585 tax ID	*

[Ref.: #22594]

GC-content

47.1 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: Cecembia rubra DSM 28057 NCBI: GCA_003014575.1
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Cecembia rubra DSM 28057 NCBI: GCA_003014575.1
[Ref.: #69480]	flagellated	no	97.403	no
[Ref.: #69480]	gram-positive	no	97.652	no
[Ref.: #69480]	anaerobic	no	96.453	no
[Ref.: #69480]	halophile	no	83.549	no
[Ref.: #69480]	spore-forming	no	94.982	no
[Ref.: #69480]	glucose-util	yes	88.886	no
[Ref.: #69480]	aerobic	yes	84.628	no
[Ref.: #69480]	thermophile	no	79.518	yes
[Ref.: #69480]	motile	no	93.881	no
[Ref.: #69480]	glucose-ferment	no	89.137	no

Availability in culture collections External links

[Ref.: #22594]

Culture collection no.

DSM 28057, CCTCC AB 2013287, YIM 78110

[Ref.: #89806]

SI-ID 400038

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cecembia rubra sp. nov., a thermophilic bacterium isolated from a hot spring sediment.	Duan YY, Ming H, Dong L, Yin YR, Meng XL, Zhou EM, Zhang JX, Nie GX, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.000227	2015	*

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 )

#22594

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28057

#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 )

#89806

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-ID400038.1 )

* These data were automatically processed and therefore are not curated

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