Sphingomonas limnosediminicola (KCTC 23331, JCM 17543, 03SUJ6)

Name: Sphingomonas limnosediminicola (KCTC 23331, JCM 17543, 03SUJ6)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140978

Type strain

Strain Designation 03SUJ6

Culture col. no. KCTC 23331 JCM 17543 03SUJ6

NCBI tax ID(s) 940133

Special Collections JCM KCTC Literature strains

History C. N. Seong 03SUJ6. <- CN Seong, Sunchon Natl. Univ.

Links

Sphingomonas limnosediminicola 03SUJ6 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from freshwater sediment of an artificial lake, Juam reservoir, Republic of Korea.

Gram-negative motile rod-shaped colony-forming aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 27507

KCTC 23331,JCM 17543

@ref 20215

Last LPSN update 2026-02-09 11:33:46

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Sphingomonadaceae

Genus Sphingomonas

Species Sphingomonas limnosediminicola

Full scientific name Sphingomonas limnosediminicola Lee et al. 2017

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement
43868	negative	0.6-1.0 µm	0.2-0.4 µm	rod-shaped		gliding
67771	negative

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
43868	1.5-2.0 mm	yellow	circular	5 days	R2A agar

Pigmentation

@ref	Production	Name
43868		flexirubin type pigments
43868		carotenoid pigment

Culture and growth conditions

Culture medium

@ref	Name	Growth
43868	Nutrient agar (NA)
43868	Plate count agar
43868	Reasoner's 2A agar (R2A)
43868	LB (Luria-Bertani) MEDIUM
43868	Marine agar (MA)
43868	Tryptic soy agar

Culture temp

@ref	Growth	Type	Temperature (°C)
43868	positive	growth	15-37
43868	positive	optimum	25-30
67770	positive	growth	25
67771	positive	growth	25

Culture pH

@ref	Ability	Type	PH
43868	positive	optimum	7
43868	positive	growth	6.0-8.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
43868	aerobe
67771	aerobe

Spore formation

43868

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43868	NaCl	positive	optimum	0 %(w/v)

Observation

43868

Observationquinone Q-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43868	30916 ChEBI	2-oxoglutarate	+	assimilation
43868	16724 ChEBI	4-hydroxybutyrate	+/-	assimilation
43868	17128 ChEBI	adipate	-	assimilation
43868	17925 ChEBI	alpha-D-glucose	+/-	assimilation
43868	22599 ChEBI	arabinose	-	assimilation
43868	29016 ChEBI	arginine	-	hydrolysis
43868	73706 ChEBI	bromosuccinate	+/-	assimilation
43868	85146 ChEBI	carboxymethylcellulose	-	hydrolysis
43868		casein	-	hydrolysis
43868	17029 ChEBI	chitin	-	hydrolysis
43868	16383 ChEBI	cis-aconitate	+/-	assimilation
43868	16947 ChEBI	citrate	-	carbon source
43868	33801 ChEBI	D-saccharate	+/-	assimilation
43868	27689 ChEBI	decanoate	-	assimilation
43868	16991 ChEBI	dna	-	hydrolysis
43868	4853 ChEBI	esculin	+	hydrolysis
43868	28757 ChEBI	fructose	-	builds acid from
43868	28260 ChEBI	galactose	-	builds acid from
43868	5291 ChEBI	gelatin	-	hydrolysis
43868	17234 ChEBI	glucose	-	assimilation
43868	17234 ChEBI	glucose	-	builds acid from
43868	17234 ChEBI	glucose	-	fermentation
43868	29042 ChEBI	glucose 1-phosphate	+/-	assimilation
43868	28087 ChEBI	glycogen	+/-	assimilation
43868	73784 ChEBI	glycyl-l-glutamate	+	assimilation
43868		L-alanine 4-nitroanilide	+/-	assimilation
43868	73786 ChEBI	L-alanylglycine	+/-	assimilation
43868	29985 ChEBI	L-glutamate	+/-	assimilation
43868	17203 ChEBI	L-proline	+	assimilation
43868	17716 ChEBI	lactose	-	builds acid from
43868	25115 ChEBI	malate	-	assimilation
43868	17306 ChEBI	maltose	-	builds acid from
43868		maltose hydrate	-	assimilation
43868	29864 ChEBI	mannitol	-	assimilation
43868	29864 ChEBI	mannitol	-	builds acid from
43868	37684 ChEBI	mannose	-	assimilation
43868	37684 ChEBI	mannose	-	builds acid from
43868	506227 ChEBI	N-acetylglucosamine	-	assimilation
43868	17632 ChEBI	nitrate	-	reduction
43868	18401 ChEBI	phenylacetate	-	assimilation
43868	32032 ChEBI	potassium gluconate	-	assimilation
43868	26490 ChEBI	quinate	+/-	assimilation
43868	26546 ChEBI	rhamnose	-	builds acid from
43868	28017 ChEBI	starch	-	hydrolysis
43868	30031 ChEBI	succinate	+/-	assimilation
43868	17992 ChEBI	sucrose	-	builds acid from
43868	27082 ChEBI	trehalose	-	builds acid from
43868	27082 ChEBI	trehalose	+/-	assimilation
43868	32528 ChEBI	turanose	+/-	assimilation
43868	53424 ChEBI	tween 20	-	hydrolysis
43868	53426 ChEBI	tween 80	-	hydrolysis
43868	16199 ChEBI	urea	-	hydrolysis
43868	15318 ChEBI	xanthine	-	hydrolysis
43868	18222 ChEBI	xylose	-	builds acid from

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43868	2637	amikacin	30 µg (disc)
43868	28971	ampicillin		10 µg (disc)
43868	17698	chloramphenicol	30 µg (disc)
43868	48923	erythromycin	15 µg (disc)
43868	17833	gentamicin		10 µg (disc)
43868	100147	nalidixic acid		30 µg (disc)
43868	17334	penicillin		10 Unit (disc)
43868	17076	streptomycin		10 µg (disc)
43868	27902	tetracycline	30 µg (disc)
43868	28001	vancomycin	30 µg (disc)

Metabolite production

@ref	Chebi-ID	Metabolite
43868	15688 ChEBI	acetoin
43868	16136 ChEBI	hydrogen sulfide
43868	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
43868	15688 ChEBI	acetoin	-
43868	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
43868	acid phosphatase	+/-	3.1.3.2
43868	alkaline phosphatase	+/-	3.1.3.1
43868	alpha-chymotrypsin	-	3.4.21.1
43868	alpha-fucosidase	-	3.2.1.51
43868	alpha-galactosidase	-	3.2.1.22
43868	alpha-glucosidase	-	3.2.1.20
43868	alpha-mannosidase	-	3.2.1.24
43868	beta-galactosidase	-	3.2.1.23
43868	beta-glucosidase	-	3.2.1.21
43868	beta-glucuronidase	-	3.2.1.31
43868	catalase	+	1.11.1.6
43868	cystine arylamidase	-	3.4.11.3
43868	cytochrome oxidase	+	1.9.3.1
43868	esterase (C 4)	+/-
43868	esterase Lipase (C 8)	+
43868	leucine arylamidase	+	3.4.11.1
43868	lipase (C 14)	-
43868	N-acetyl-beta-glucosaminidase	-	3.2.1.52
43868	naphthol-AS-BI-phosphohydrolase	+/-
43868	trypsin	-	3.4.21.4
43868	urease	-	3.5.1.5
43868	valine arylamidase	+/-

Fatty acid profile

Metadata FA analysis

@ref

43868

Fatty acid	Percentage
C18:1ω7c / C18:1ω6c	38.4
C16:0	26.9
C18:0	8.1
C17:1ω6c	7.3
C18:1 2OH	5.4
C18:1ω9c	3.1
C16:1ω7c / C16:1ω6c	2.9
C14:0	2.6
C14:0 2OH	1.6
11-methyl C18:1ω7c	1.3
C17:0	1.2
C16:1ω5c	1.2

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude	Enrichment culture	Enrichment culture duration	Enrichment culture temperature
43868	freshwater sediment of an artificial lake, Juam reservoir, Republic of Korea	Juam reservoir	Republic of Korea	KOR	Asia	35	127.167 35/127.167	R2A agar	7 days	25
67770	Freshwater sediment of Juam reservoir		Republic of Korea	KOR	Asia
67771	From fresh water	Woopo	Republic of Korea	KOR	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	NCBI tax ID	Score
124043	ASM3953796v1 assembly for Sphingomonas limnosediminicola JCM 17543	contig	GCA_039537965	940133	77.51

16S sequences

@ref	Description	Accession	Database
43868	Sphingomonas limnosediminicola strain 03SUJ6 16S ribosomal RNA gene, partial sequence	HQ436498

GC content

@ref	GC-content (mol%)	Method
43868	65	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sphingomonas limnosediminicola sp. nov. and Sphingomonas palustris sp. nov., isolated from freshwater environments.	Lee JH, Kim DI, Choe HN, Lee SD, Seong CN	Int J Syst Evol Microbiol	10.1099/ijsem.0.002029	2017

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 )
#43868	Ji Hee Lee, Dae In Kim, Han Na Choe, Soon Dong Lee, Chi Nam Seong: Sphingomonas limnosediminicola sp. nov. and Sphingomonas palustris sp. nov., isolated from freshwater environments. IJSEM 67: 2834 - 2841 2017 ( DOI 10.1099/ijsem.0.002029 , PubMed 28820093 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Sphingomonas limnosediminicola (KCTC 23331, JCM 17543, 03SUJ6)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_039537965

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

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