Cytophaga aurantiaca | Type strain | DSM 3654, ATCC 12208, JCM 8511, NCIMB 8628, IAM 14300, IFO 15937, IFO 16043, LMG 1337, NBRC 15937, NBRC 16043 | BacDiveID:3771

Strain identifier

BacDive ID: 3771

Type strain:

Species: Cytophaga aurantiaca

Culture col. no.: DSM 3654, ATCC 12208, JCM 8511, NCIMB 8628, IAM 14300, IFO 15937, IFO 16043, LMG 1337, NBRC 15937, NBRC 16043

Strain history: NCIMB 8628 <-- H. Bortels.

NCBI tax ID(s): 1121373 (strain), 29530 (species)

SI-ID 92752

LMG 1337, ATCC 12208, CECT 358, NCIB 8628, DSM 3654, IAM 14300, JCM 8511, IAM 12606, NCIMB 8628, IFO 16043, IFO 15937, NBRC 16043, NBRC 15937

Section

Cytophaga aurantiaca DSM 3654 is a Gram-negative bacterium that was isolated from 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	*Cytophagaceae*
	Genus	*Cytophaga*
	Species	**Cytophaga aurantiaca**
	Full Scientific Name (LPSN)	Cytophaga aurantiaca (ex Winogradsky 1929) Reichenbach 1989

Synonym

"Cytophaga aurantiaca"

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.989

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

CYTOPHAGA HUTCHINSONII MEDIUM (DSMZ Medium 160)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #1438]			growth	20-25 °C
[Ref.: #67770]			growth	25 °C

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.952

Observation

quinones: MK-7

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

[Ref.: #67770]	Sample type/isolated from	Soil
* marker position based on {}

Global distribution of 16S sequence AB681044 (>99% sequence identity) for Cytophaga aurantiaca subclade from Microbeatlas

Aquatic Samples	238
Soil Samples	252
Animal Samples	137
Plant Samples	81
Total Samples	708

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

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.: #1438]	Cytophaga aurantiaca strain NCIMB 8628 16S ribosomal RNA, partial sequence	NR_025829	1257	GenBank	29530 tax ID
[Ref.: #20218]	Cytophaga aurantiaca gene for 16S rRNA, partial sequence, strain: NBRC 16043	AB681044	1446	ENA	29530 tax ID	*
[Ref.: #20218]	Cytophaga aurantiaca gene for 16S ribosomal RNA, partial sequence	D12658	1257	ENA	29530 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Cytophaga aurantiaca DSM 3654	GCA_000379725	scaffold	GenBank	1121373 tax ID
[Ref.: #66792]	Cytophaga aurantiaca DSM 3654	1121373.3	wgs	PATRIC	1121373 tax ID	*
[Ref.: #66792]	Cytophaga aurantiaca DSM 3654	2515154146	draft	JGI IMG/M	1121373 tax ID	*

[Ref.: #1438]	GC-content	42.0 mol%
[Ref.: #1438]	GC-content	37.1 mol%	sequence analysis
[Ref.: #67770]	GC-content	42 mol%	Buoyant density centrifugation (BD)

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: Cytophaga aurantiaca DSM 3654 DSM 3654 NCBI: GCA_000379725.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Cytophaga aurantiaca DSM 3654 PATRIC: 1121373.3
[Ref.: #69480]	motile	no	93.023	no
[Ref.: #69480]	flagellated	no	95.873	no
[Ref.: #69480]	gram-positive	no	97.218	no
[Ref.: #69480]	anaerobic	no	99.184	no
[Ref.: #69480]	aerobic	yes	87.973	no
[Ref.: #69480]	halophile	no	94.443	no
[Ref.: #69480]	spore-forming	no	94.137	no
[Ref.: #69480]	glucose-util	yes	74.823	no
[Ref.: #69480]	thermophile	no	98.517	yes
[Ref.: #69480]	glucose-ferment	no	91.082	no

Availability in culture collections External links

Culture collection no.

DSM 3654, ATCC 12208, JCM 8511, NCIMB 8628, IAM 14300, IFO 15937, IFO 16043, LMG 1337, NBRC 15937, NBRC 16043

SI-ID 92752

*

References

#1438

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3654

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 )

#73283

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-ID92752.1 )

* These data were automatically processed and therefore are not curated

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