Name: Costertonia aggregata KCCM 42265
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134186

Type strain:

Species: Costertonia aggregata

Culture col. no.: KCCM 42265, JCM 13411, KOPRI 13342

Strain history: H. K. Lee and K. K. Kwon KOPRI 13342.

NCBI tax ID(s): 343403 (species)

Section

Costertonia aggregata KCCM 42265 is an aerobe, Gram-negative, motile bacterium that was isolated from biofilm.

Gram-negative
motile
rod-shaped
aerobe
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	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Costertonia*
	Species	**Costertonia aggregata**
	Full Scientific Name (LPSN)	Costertonia aggregata Kwon et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31743]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.984

[Ref.: #31743]	Cell length	0.50-0.57 µm

[Ref.: #31743]	Cell width	0.35-0.41 µm

[Ref.: #31743]	Cell shape	rod-shaped

[Ref.: #31743]	Motility	yes

[Ref.: #31743]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #31743]	growth	10-35 °C
[Ref.: #31743]	optimum	26-32 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #31743]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31743]			optimum	7.5-8
[Ref.: #31743]			growth	6.5-9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31743]

Oxygen tolerance

aerobe

[Ref.: #31743]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31743]		NaCl		growth	1.5-12	%
[Ref.: #31743]		NaCl		optimum	3	%

[Ref.: #31743]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31743]	alanine ChEBI	+	carbon source
[Ref.: #31743]	arabinose ChEBI	+	carbon source
[Ref.: #31743]	asparagine ChEBI	+	carbon source
[Ref.: #31743]	aspartate ChEBI	+	carbon source
[Ref.: #31743]	cellobiose ChEBI	+	carbon source
[Ref.: #31743]	dextrin ChEBI	+	carbon source
[Ref.: #31743]	fructose ChEBI	+	carbon source
[Ref.: #31743]	fucose ChEBI	+	carbon source
[Ref.: #31743]	galactose ChEBI	+	carbon source
[Ref.: #31743]	glucose ChEBI	+	carbon source
[Ref.: #31743]	glutamate ChEBI	+	carbon source
[Ref.: #31743]	glycogen ChEBI	+	carbon source
[Ref.: #31743]	histidine ChEBI	+	carbon source
[Ref.: #31743]	L-arabitol ChEBI	+	carbon source
[Ref.: #31743]	lactose ChEBI	+	carbon source
[Ref.: #31743]	leucine ChEBI	+	carbon source
[Ref.: #31743]	maltose ChEBI	+	carbon source
[Ref.: #31743]	mannitol ChEBI	+	carbon source
[Ref.: #31743]	mannose ChEBI	+	carbon source
[Ref.: #31743]	melibiose ChEBI	+	carbon source
[Ref.: #31743]	ornithine ChEBI	+	carbon source
[Ref.: #31743]	proline ChEBI	+	carbon source
[Ref.: #31743]	raffinose ChEBI	+	carbon source
[Ref.: #31743]	rhamnose ChEBI	+	carbon source
[Ref.: #31743]	ribitol ChEBI	+	carbon source
[Ref.: #31743]	serine ChEBI	+	carbon source
[Ref.: #31743]	sorbitol ChEBI	+	carbon source
[Ref.: #31743]	sucrose ChEBI	+	carbon source
[Ref.: #31743]	threonine ChEBI	+	carbon source
[Ref.: #31743]	trehalose ChEBI	+	carbon source
[Ref.: #31743]	xylitol ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31743]		cytochrome oxidase	+	1.9.3.1
[Ref.: #31743]		urease	+	3.5.1.5

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

[Ref.: #31743]	Sample type/isolated from	biofilm

[Ref.: #67770]	Sample type/isolated from	Mature marine biofilm formed on a rock-bed in Jungdongjin
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Biofilm

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ167246 (>99% sequence identity) for Costertonia aggregata subclade from Microbeatlas

Aquatic Samples	714
Soil Samples	26
Animal Samples	12
Plant Samples	2
Total Samples	754

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.: #31743]	Costertonia aggregata strain KOPRI 13342 16S ribosomal RNA gene, partial sequence	DQ167246	1482	GenBank	343403 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Costertonia aggregata KCCM 42265	GCA_013402795	complete	GenBank	343403 tax ID	*
[Ref.: #66792]	Costertonia aggregata strain KCCM 42265	343403.3	complete	PATRIC	343403 tax ID	*

[Ref.: #31743]	GC-content	35.8 mol%
[Ref.: #67770]	GC-content	35.8 mol%	thermal denaturation, midpoint method (Tm)

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: Costertonia aggregata KCCM 42265 NCBI: GCA_013402795.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Costertonia aggregata KCCM 42265 NCBI: GCA_013402795.1
[Ref.: #69480]	motile	no	80.071	yes
[Ref.: #69480]	flagellated	no	95.927	no
[Ref.: #69480]	gram-positive	no	98.232	no
[Ref.: #69480]	anaerobic	no	98.92	yes
[Ref.: #69480]	aerobic	yes	85.419	yes
[Ref.: #69480]	halophile	no	65.822	no
[Ref.: #69480]	spore-forming	no	95.58	yes
[Ref.: #69480]	glucose-util	yes	84.4	yes
[Ref.: #69480]	thermophile	no	97.657	yes
[Ref.: #69480]	glucose-ferment	no	90.768	no

Availability in culture collections External links

[Ref.: #31743]

Culture collection no.

KCCM 42265, JCM 13411, KOPRI 13342

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Costertonia aggregata gen. nov., sp. nov., a mesophilic marine bacterium of the family Flavobacteriaceae, isolated from a mature biofilm.	Kwon KK, Lee YK, Lee HK	Int J Syst Evol Microbiol	10.1099/ijs.0.64168-0	2006	*

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 )

#31743

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28018 (see below)

#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 )

#28018

IJSEM 1349 2006 ( DOI 10.1099/ijs.0.64168-0 , PubMed 16738113 )

* These data were automatically processed and therefore are not curated

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