Name: Actibacter sediminis JC2129
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134305

Type strain:

Species: Actibacter sediminis

Strain Designation: JC2129

Culture col. no.: KCTC 12704, JCM 14002

Strain history: <- J Chun, Seoul Univ.

NCBI tax ID(s): 449463 (species)

Section

Actibacter sediminis JC2129 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

Gram-negative
rod-shaped
aerobe
16S sequence
Bacteria

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	*Actibacter*
	Species	**Actibacter sediminis**
	Full Scientific Name (LPSN)	Actibacter sediminis Kim et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32340]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #32340]	Cell length	2.8 µm

[Ref.: #32340]	Cell width	0.8 µm

[Ref.: #32340]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #32340]	Motility	no
[Ref.: #67771]	Motility	no

[Ref.: #32340]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #32340]	growth	05-45 °C
[Ref.: #32340]	optimum	37 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	37 °C

[Ref.: #32340]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32340]			optimum	6
[Ref.: #32340]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32340]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #32340]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32340]		NaCl		growth	01-10	%
[Ref.: #32340]		NaCl		optimum	2	%

[Ref.: #67770]	Observation	quinones: MK-6, MK-7
[Ref.: #67771]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32340]	acetate ChEBI	+	carbon source
[Ref.: #32340]	citrate ChEBI	+	carbon source
[Ref.: #32340]	esculin ChEBI	+	hydrolysis
[Ref.: #32340]	glutamate ChEBI	+	carbon source
[Ref.: #32340]	pyruvate ChEBI	+	carbon source
[Ref.: #32340]	sucrose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #32340]	acid phosphatase	+	3.1.3.2
[Ref.: #32340]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32340]	catalase	+	1.11.1.6
[Ref.: #32340]	cytochrome oxidase	+	1.9.3.1
[Ref.: #32340]	gelatinase	+

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

[Ref.: #32340]	Sample type/isolated from	marine sediment

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment of Dongmak on Ganghwa Island
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From sediment of getbol(a Korean word for tidal flat)
[Ref.: #67771]	Geographic location (country and/or sea, region)	Dongmak, Ganghwa Island
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF670651 (>99% sequence identity) for Actibacter from Microbeatlas

Aquatic Samples	4687
Soil Samples	60
Animal Samples	75
Plant Samples	32
Total Samples	4854

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.: #32340]	Actibacter sediminis strain JC2129 16S ribosomal RNA gene, partial sequence	EF670651	1374	GenBank	449463 tax ID

[Ref.: #32340]	GC-content	43-45 mol%
[Ref.: #67770]	GC-content	43-45 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	43.0-45.0 mol%

Availability in culture collections External links

[Ref.: #32340]

Culture collection no.

KCTC 12704, JCM 14002

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actibacter sediminis gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from tidal flat sediment.	Kim JH, Kim KY, Hahm YT, Kim BS, Chun J, Cha CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65346-0	2008	*

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 )

#32340

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 #28572 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 .

#28572

IJSEM 139 2008 ( DOI 10.1099/ijs.0.65346-0 , PubMed 18175699 )

* These data were automatically processed and therefore are not curated

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