Name: Wocania arenilitoris HMF6543
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 158549

Type strain:

Species: Wocania arenilitoris

Strain Designation: HMF6543

Culture col. no.: KCTC 52401, NBRC 112674, HME 6543

Strain history: <- Kiseoung Joh, Hankuk Univ. of Foreign Studies.

NCBI tax ID(s): 2044858 (species)

Special Collections

Section

When using BacDive for research please cite our paper

Wocania arenilitoris HMF6543 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from sand sample.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Wocania*
	Species	**Wocania arenilitoris**
	Full Scientific Name (LPSN)	Wocania arenilitoris (Kang et al. 2017) Liu et al. 2023

Synonym

Sabulilitoribacter arenilitoris

Information on morphological and physiological properties Morphology

[Ref.: #65242]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %97.339

[Ref.: #65242]	Cell length	1.8-2.1 µm

[Ref.: #65242]	Cell width	0.5-0.6 µm

[Ref.: #65242]	Cell shape	rod-shaped

[Ref.: #65242]	Motility	no
[Ref.: #125438]	Motility	no Confidence in %96.5

[Ref.: #65242]	Colony size	0.7 mm
[Ref.: #65242]	Colony color	orange
[Ref.: #65242]	Colony shape	circular
[Ref.: #65242]	Incubation period	3 days
[Ref.: #65242]	Cultivation medium used	marine agar 2216

[Ref.: #65242]	Pigment production	no
[Ref.: #65242]	Pigment name	flexirubin-type pigments

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65242]

Culture medium

Marine agar (MA)

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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

Nutrient agar (NA)

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Culture medium growth

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Culture medium

tryptic soy agar

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Culture medium growth

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Culture medium

blood agar

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

		Temperature
[Ref.: #65242]	growth	10-30 °C
[Ref.: #65242]	optimum	30 °C
[Ref.: #67771]	growth	25 °C

	pH	Kind of pH		pH
[Ref.: #65242]			optimum	7-8
[Ref.: #65242]			growth	6-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65242]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #125438]

Ability of spore formation

no Confidence in %90.5

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65242]		NaCl		growth	0.5-5	%
[Ref.: #65242]		NaCl		optimum	2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65242]	2-oxobutanoate ChEBI	+	carbon source
[Ref.: #65242]	2-oxoglutarate ChEBI	+	carbon source
[Ref.: #65242]	2-oxopentanoate ChEBI	+	carbon source
[Ref.: #65242]	4-hydroxy-L-proline ChEBI	+	carbon source
[Ref.: #65242]	adipate ChEBI	-	assimilation
[Ref.: #65242]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #65242]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #65242]	casein	-	hydrolysis
[Ref.: #65242]	cellulose ChEBI	-	hydrolysis
[Ref.: #65242]	D-glucose ChEBI	-	assimilation
[Ref.: #65242]	D-mannitol ChEBI	-	assimilation
[Ref.: #65242]	D-mannose ChEBI	-	assimilation
[Ref.: #65242]	decanoate ChEBI	-	assimilation
[Ref.: #65242]	dextrin ChEBI	-	hydrolysis
[Ref.: #65242]	dextrin ChEBI	+	carbon source
[Ref.: #65242]	dna ChEBI	-	hydrolysis
[Ref.: #65242]	esculin ChEBI	-	hydrolysis
[Ref.: #65242]	glucose ChEBI	-	fermentation
[Ref.: #65242]	L-arabinose ChEBI	-	assimilation
[Ref.: #65242]	L-threonine ChEBI	+	carbon source
[Ref.: #65242]	malate ChEBI	-	assimilation
[Ref.: #65242]	maltose ChEBI	-	assimilation
[Ref.: #65242]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #65242]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #65242]	nitrate ChEBI	+	reduction
[Ref.: #65242]	phenylacetate ChEBI	-	assimilation
[Ref.: #65242]	potassium gluconate ChEBI	-	assimilation
[Ref.: #65242]	sodium citrate ChEBI	-	assimilation
[Ref.: #65242]	starch ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #65242]	ampicillin ChEBI	yes	10	µg (disc)
[Ref.: #65242]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #65242]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #65242]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #65242]	kanamycin ChEBI				yes	30	µg (disc)
[Ref.: #65242]	penicillin g ChEBI	yes	10	Unit (disc)
[Ref.: #65242]	rifampicin ChEBI	yes	30	µg (disc)
[Ref.: #65242]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #65242]	tetracycline ChEBI				yes	30	µg (disc)
[Ref.: #65242]	vancomycin ChEBI	yes	30	µg (disc)

	Metabolite production	Metabolite	Production
[Ref.: #65242]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #65242]	acid phosphatase	+	3.1.3.2
[Ref.: #65242]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65242]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65242]	alpha-fucosidase	+	3.2.1.51
[Ref.: #65242]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65242]	alpha-glucosidase	-	3.2.1.20
[Ref.: #65242]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65242]	arginine dihydrolase	+	3.5.3.6
[Ref.: #65242]	beta-glucosidase	-	3.2.1.21
[Ref.: #65242]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65242]	catalase	+	1.11.1.6
[Ref.: #65242]	cystine arylamidase	+	3.4.11.3
[Ref.: #65242]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65242]	esterase (C 4)	+
[Ref.: #65242]	esterase Lipase (C 8)	+
[Ref.: #65242]	gelatinase	-
[Ref.: #65242]	leucine arylamidase	+	3.4.11.1
[Ref.: #65242]	lipase (C 14)	-
[Ref.: #65242]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #65242]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65242]	trypsin	+	3.4.21.4
[Ref.: #65242]	urease	+	3.5.1.5
[Ref.: #65242]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65242]

Fatty acid	Percentage
C15:1 iso G	25.4
C15:0 iso	19.6
C17:0 iso 3OH	13
C16:1ω7c and/or C16:1ω6c	8.9
C15:0 iso 3OH	7.9
C15:0 anteiso	4.7
C12:0 iso	2.9
C16:0	2.3
C16:0 iso 3OH	1.7
C15:1 anteiso A	1.6
C15:0 2OH	1.5
C17:0 2OH	1.3
C16:0 iso	1.3

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

[Ref.: #65242]	Sample type/isolated from	sand sample
[Ref.: #65242]	Geographic location (country and/or sea, region)	seashore sand of the South Sea located on Boseong in Jeollanam-do
[Ref.: #65242]	Country	Republic of Korea
[Ref.: #65242]	Country ISO 3 Code	KOR
[Ref.: #65242]	Continent	Asia
[Ref.: #65242]	Geographic location	34.6700°/127.0940°
[Ref.: #65242]	Enrichment culture	marine agar 2216
[Ref.: #65242]	Enrichment culture duration	7 days
[Ref.: #65242]	Enrichment culture temperature	30 ̊C
[Ref.: #65242]	Isolation/enrichment procedure	The sand sample (1 g) was suspended in 10 ml sterile 2 % (w/v) NaCl solution and vortexed for 1 min. The dispersed suspension was dilutedserially in 2 % (w/v) saline water, spread on marine agar (MA; BD) plates and incubated at 30°C for 7 days. Orange-coloured colonies were picked from the plates and purified by streaking three times on MA.

[Ref.: #67771]	Sample type/isolated from	From sand of seashore
[Ref.: #67771]	Geographic location (country and/or sea, region)	Boseong-gun, Jeollanam-do Province
[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

#Terrestrial

#Sandy

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KX343046 (>99% sequence identity) for Sabulilitoribacter arenilitoris subclade from Microbeatlas

Aquatic Samples	9
Soil Samples
Animal Samples	1
Plant Samples
Total Samples	10

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.: #65242]	Wocania arenilitoris strain HMF6543 16S ribosomal RNA gene, partial sequence	KX343046		GenBank ENA

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Wocania arenilitoris HMF6543	GCA_021728535	scaffold	GenBank ENA	2044858 tax ID	*

[Ref.: #65242]

GC-content

31.9 mol%

Thermal denaturation, fluorometry

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sabulilitoribacter arenilitoris HMF6543 NCBI: GCA_021728535.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	97.339	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	97.726	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	84.441	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	90.5	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	99.424	no
[Ref.: #125438]	motile2+	flagellatedⓘ	no	96.5	yes

Availability in culture collections External links

[Ref.: #65242]

Culture collection no.

KCTC 52401, NBRC 112674, HME 6543

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sabulilitoribacter arenilitoris sp. nov., isolated from seashore sand.	Kang H, Cha I, Kim H, Joh K	Int J Syst Evol Microbiol	10.1099/ijsem.0.002378	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 )

#65242

Heeyoung Kang, Inseong Cha, Haneul Kim, Kiseong Joh: Sabulilitoribacter arenilitoris sp. nov., isolated from seashore sand. IJSEM 67: 4796 - 4800 2017 ( DOI 10.1099/ijsem.0.002378 , PubMed 28984564 )

#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) .

#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 .

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

* These data were automatically processed and therefore are not curated

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Sabulilitoribacter arenilitoris HMF6543

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