Name: Flavobacterium sediminis KCTC 62132
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 159816

Type strain:

Species: Flavobacterium sediminis

Culture col. no.: KCTC 62132, JCM 32291, MEBiC 07310

Strain history: S. S. Bae; Natl. Mar. Biodivers. Inst. of Korea, South Korea; MEBiC07310.

NCBI tax ID(s): 2201181 (species)

Section

Flavobacterium sediminis KCTC 62132 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from a sediment sample collected from a tidal flat.

colony-forming
Gram-negative
rod-shaped
aerobe
mesophilic
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	*Flavobacterium*
	Species	**Flavobacterium sediminis**
	Full Scientific Name (LPSN)	Flavobacterium sediminis Bae et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66781]	Gram stain	negative

[Ref.: #66781]	Cell length	1-3 µm

[Ref.: #66781]	Cell width	0.3-0.7 µm

[Ref.: #66781]	Cell shape	rod-shaped

[Ref.: #66781]	Motility	no

[Ref.: #66781]	Colony color	yellow
[Ref.: #66781]	Colony shape	circular
[Ref.: #66781]	Incubation period	4 days
[Ref.: #66781]	Cultivation medium used	Marine agar (MA)

[Ref.: #66781]	Pigment production	no
[Ref.: #66781]	Pigment name	Flexirubintype pigments

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Marine agar (MA)

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Culture medium growth

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Culture medium

tryptic soy agar (TSA)

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Culture medium growth

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Culture medium

cetrimide agar,

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

Simmons' citrate agar

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Culture medium growth

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Culture medium

tyrosine agar

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Culture medium growth

		Temperature
[Ref.: #66781]	optimum	32 °C
[Ref.: #66781]	growth	17-43 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #66781]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #66781]			optimum	7
[Ref.: #66781]			growth	5-8

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66781]		NaCl		growth	0-3	%(w/v)
[Ref.: #66781]		NaCl		optimum	1	%(w/v)

[Ref.: #66781]	Observation	The major isoprenoid quinone is MK-6.
[Ref.: #66781]	Observation	The polar lipids are phosphatidylethanolamine, an unidentified aminophospholipid, an unidentified aminolipid, an unidentified phospholipid and six unidentified lipids.
[Ref.: #67770]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66781]	adipate ChEBI	-	assimilation
[Ref.: #66781]	alpha-D-glucose ChEBI	+	assimilation
[Ref.: #66781]	arabinose ChEBI	-	assimilation
[Ref.: #66781]	arabinose ChEBI	+	assimilation
[Ref.: #66781]	butyrate ChEBI	-	assimilation
[Ref.: #66781]	casein	-	hydrolysis
[Ref.: #66781]	crystalline cellulose	-	hydrolysis
[Ref.: #66781]	D-glucose 6-phosphate ChEBI	+	assimilation
[Ref.: #66781]	D-mannose ChEBI	+	assimilation
[Ref.: #66781]	dextrin ChEBI	+	assimilation
[Ref.: #66781]	esculin ChEBI	+	hydrolysis
[Ref.: #66781]	gelatin ChEBI	-	hydrolysis
[Ref.: #66781]	glucose ChEBI	-	assimilation
[Ref.: #66781]	glucose ChEBI	-	fermentation
[Ref.: #66781]	glucose 1-phosphate ChEBI	+	assimilation
[Ref.: #66781]	glycogen ChEBI	+	assimilation
[Ref.: #66781]	glycyl L-aspartic acid ChEBI	+	assimilation
[Ref.: #66781]	glycyl-L-glutamate ChEBI	+	assimilation
[Ref.: #66781]	inosine ChEBI	+	assimilation
[Ref.: #66781]	L-alaninamide ChEBI	+	assimilation
[Ref.: #66781]	L-alanylglycine ChEBI	+	assimilation
[Ref.: #66781]	L-asparagine ChEBI	+	assimilation
[Ref.: #66781]	L-aspartate ChEBI	+	assimilation
[Ref.: #66781]	L-glutamate ChEBI	+	assimilation
[Ref.: #66781]	L-ornithine ChEBI	+	assimilation
[Ref.: #66781]	L-serine ChEBI	+	assimilation
[Ref.: #66781]	L-threonine ChEBI	+	assimilation
[Ref.: #66781]	malate ChEBI	-	assimilation
[Ref.: #66781]	maltose ChEBI	+	assimilation
[Ref.: #66781]	mannitol ChEBI	-	assimilation
[Ref.: #66781]	mannose ChEBI	+	assimilation
[Ref.: #66781]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #66781]	phenylacetate ChEBI	-	assimilation
[Ref.: #66781]	potassium gluconate ChEBI	+	assimilation
[Ref.: #66781]	sodium citrate ChEBI	-	assimilation
[Ref.: #66781]	starch ChEBI	+	hydrolysis
[Ref.: #66781]	succinate ChEBI	+	assimilation
[Ref.: #66781]	thymidine ChEBI	+	assimilation
[Ref.: #66781]	tween 40 ChEBI	+	assimilation
[Ref.: #66781]	uridine ChEBI	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66781]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66781]	acid phosphatase	+	3.1.3.2
[Ref.: #66781]	alkaline phosphatase	+	3.1.3.1
[Ref.: #66781]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #66781]	alpha-glucosidase	+	3.2.1.20
[Ref.: #66781]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66781]	beta-galactosidase	-	3.2.1.23
[Ref.: #66781]	beta-glucuronidase	+	3.2.1.31
[Ref.: #66781]	catalase	+	1.11.1.6
[Ref.: #66781]	cystine arylamidase	+	3.4.11.3
[Ref.: #66781]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66781]	esterase (C 4)	+
[Ref.: #66781]	esterase Lipase (C 8)	+
[Ref.: #66781]	leucine arylamidase	+	3.4.11.1
[Ref.: #66781]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66781]	nitrate reductase	-	1.7.99.4
[Ref.: #66781]	trypsin	+	3.4.21.4
[Ref.: #66781]	urease	-	3.5.1.5
[Ref.: #66781]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66781]

Fatty acid	Percentage
C15:0 iso	25
C17:0 iso 3OH	18.6
C15:0 iso 3OH	8.4
C16:1 w5c	4.7
C16:0 3OH	2.3
C15:0 anteiso	1.8
C14:0 iso	1.5
C16:0 iso 3OH	1.4
C16:1 iso H	1.2
C18:1 w9c	1.1

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

[Ref.: #66781]	Sample type/isolated from	a sediment sample collected from a tidal flat
[Ref.: #66781]	Geographic location (country and/or sea, region)	Taean County
[Ref.: #66781]	Country	Republic of Korea
[Ref.: #66781]	Country ISO 3 Code	KOR
[Ref.: #66781]	Continent	Asia
[Ref.: #66781]	Geographic location	36.7333°/126.1830°
[Ref.: #66781]	Enrichment culture	marine agar
[Ref.: #66781]	Enrichment culture temperature	30 ̊C
[Ref.: #66781]	Isolation/enrichment procedure	using a standard dilution-plate method

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment collected in Taean County
[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	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Tidal flat

What are isolation sources categories?

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Global distribution of 16S sequence KY885161 (>99% sequence identity) for Flavobacterium sediminis subclade from Microbeatlas

Aquatic Samples	36
Soil Samples	18
Animal Samples	11
Plant Samples	2
Total Samples	67

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.: #66781]	Flavobacterium sp. strain MEBiC07310 16S ribosomal RNA gene, partial sequence	KY885161	1442	ENA	2201181 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Flavobacterium sediminis MEBiC07310	GCA_003148385	complete	GenBank	2201181 tax ID
[Ref.: #66792]	Flavobacterium sp. MEBiC07310	2201181.3	complete	PATRIC	2201181 tax ID	*

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GC-content

35.2 mol%

genome sequence analysis

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium sp. MEBiC07310 PATRIC: 2201181.3
[Ref.: #69480]	motile	no	89.218	yes
[Ref.: #69480]	gram-positive	no	98.927	no
[Ref.: #69480]	anaerobic	no	98.763	yes
[Ref.: #69480]	aerobic	yes	84.198	yes
[Ref.: #69480]	halophile	no	90.884	yes
[Ref.: #69480]	spore-forming	no	96.897	no
[Ref.: #69480]	glucose-util	yes	82.746	no
[Ref.: #69480]	flagellated	no	96.282	yes
[Ref.: #69480]	thermophile	no	98.333	no
[Ref.: #69480]	glucose-ferment	no	91.278	no

Availability in culture collections External links

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Culture collection no.

KCTC 62132, JCM 32291, MEBiC 07310

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium sediminis sp. nov., a starch-degrading bacterium isolated from tidal flat sediment.	Bae SS, Kim MR, Jung Y, Yang SH, Kwon KK, Baek K	Int J Syst Evol Microbiol	10.1099/ijsem.0.003081	2018	*

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 )

#66781

Seung Seob Bae, Mi Ree Kim, Yoonhee Jung, Sung-Hyun Yang, Kae Kyoung Kwon and Kyunghwa Baek: Flavobacterium sediminis sp. nov., a starch-degrading bacterium isolated from tidal flat sediment. IJSEM 68: 3886 - 3891 2018 ( DOI 10.1099/ijsem.0.003081 , PubMed 30355396 )

#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) .

* These data were automatically processed and therefore are not curated

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Flavobacterium sp. MEBiC07310

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