Kangiella geojedonensis (KCTC 23420, CCUG 60526, YCS-5)

Name: Kangiella geojedonensis (KCTC 23420, CCUG 60526, YCS-5)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133675

Type strain

Strain Designation YCS-5

Culture col. no. KCTC 23420 CCUG 60526 YCS-5

NCBI tax ID(s) 914150

Special Collections CCUG KCTC Literature strains

History <- JH Yoon, KRIBB

Links

Kangiella geojedonensis YCS-5 is an aerobe, Gram-negative, rod-shaped prokaryote that was isolated from seawater.

Gram-negative rod-shaped aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 411908

KCTC 23420,CCUG 60526

@ref 20215

Last LPSN update 2026-02-09 11:32:00

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Kangiellaceae

Genus Kangiella

Species Kangiella geojedonensis

Full scientific name Kangiella geojedonensis Yoon et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30094	negative	0.8-6.5 µm	0.2-0.4 µm	rod-shaped
67771	negative
125439	negative				93.5
125438	negative				98.333

Colony morphology

62342

Incubation period1 day

Pigmentation

30094

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
30094	positive	growth	10-40
30094	positive	optimum	30	mesophilic
62342	positive	growth	30	mesophilic
67771	positive	growth	30	mesophilic

Culture pH

@ref	Ability	Type	PH
30094	positive	optimum	7-7.5

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30094	aerobe
62342	aerobe
67771	aerobe
125439	obligate aerobe	97.4

Spore formation

@ref	Spore formation	Confidence
30094
125439		95.4
125438		92.378

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30094	NaCl	positive	growth	0.5-16 %
30094	NaCl	positive	optimum	2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30094	53424 ChEBI	tween 20	+	carbon source
30094	53423 ChEBI	tween 40	+	carbon source
30094	53425 ChEBI	tween 60	+	carbon source
30094	53426 ChEBI	tween 80	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30094	acid phosphatase	+	3.1.3.2
30094	alkaline phosphatase	+	3.1.3.1
30094	catalase	+	1.11.1.6
30094	cytochrome oxidase	+	1.9.3.1
30094	gelatinase	+

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	teichoic acid biosynthesis	100	1 of 1
66794	adipate degradation	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	octane oxidation	100	3 of 3
66794	formaldehyde oxidation	100	3 of 3
66794	biotin biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ubiquinone biosynthesis	100	7 of 7
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	vitamin B6 metabolism	81.82	9 of 11
66794	threonine metabolism	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	vitamin B1 metabolism	76.92	10 of 13
66794	leucine metabolism	76.92	10 of 13
66794	phenylalanine metabolism	76.92	10 of 13
66794	histidine metabolism	75.86	22 of 29
66794	acetate fermentation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	photosynthesis	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	glutathione metabolism	71.43	10 of 14
66794	heme metabolism	71.43	10 of 14
66794	citric acid cycle	71.43	10 of 14
66794	tryptophan metabolism	68.42	26 of 38
66794	lipid metabolism	67.74	21 of 31
66794	serine metabolism	66.67	6 of 9
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	lysine metabolism	66.67	28 of 42
66794	acetoin degradation	66.67	2 of 3
66794	alanine metabolism	65.52	19 of 29
66794	glutamate and glutamine metabolism	64.29	18 of 28
66794	purine metabolism	63.83	60 of 94
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	D-cycloserine biosynthesis	60	3 of 5
66794	glycolysis	58.82	10 of 17
66794	non-pathway related	57.89	22 of 38
66794	methionine metabolism	57.69	15 of 26
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	tyrosine metabolism	57.14	8 of 14
66794	propanol degradation	57.14	4 of 7
66794	proline metabolism	54.55	6 of 11
66794	pyrimidine metabolism	53.33	24 of 45
66794	polyamine pathway	52.17	12 of 23
66794	ethanol fermentation	50	1 of 2
66794	Entner Doudoroff pathway	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	cysteine metabolism	50	9 of 18
66794	sulfate reduction	46.15	6 of 13
66794	pentose phosphate pathway	45.45	5 of 11
66794	reductive acetyl coenzyme A pathway	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	factor 420 biosynthesis	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	urea cycle	38.46	5 of 13
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	ketogluconate metabolism	37.5	3 of 8
66794	oxidative phosphorylation	35.16	32 of 91
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	methane metabolism	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	allantoin degradation	33.33	3 of 9
66794	d-mannose degradation	33.33	3 of 9
66794	enterobactin biosynthesis	33.33	1 of 3
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	glycine metabolism	30	3 of 10
66794	phenol degradation	30	6 of 20
66794	degradation of hexoses	27.78	5 of 18
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	catecholamine biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	toluene degradation	25	1 of 4
66794	glycogen biosynthesis	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	vitamin E metabolism	25	1 of 4
66794	androgen and estrogen metabolism	25	4 of 16
66794	butanoate fermentation	25	1 of 4
66794	ascorbate metabolism	22.73	5 of 22
66794	nitrate assimilation	22.22	2 of 9
66794	arachidonic acid metabolism	22.22	4 of 18

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
30094	seawater
62342	Seawater	2009	Geojedo	Republic of Korea	KOR	Asia
67771	From seawater		Geoje-do	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence HQ340606 (>99% sequence identity) for Kangiella geojedonensis from Microbeatlas

Aquatic Samples	250
Soil Samples	4
Animal Samples	13
Plant Samples	2
Total Samples	269

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM98176v1 assembly for Kangiella geojedonensis YCS-5	complete	GCA_000981765	914150.17	2630968673	914150	91.73

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30094	Kangiella geojedonensis strain YCS-5 16S ribosomal RNA gene, partial sequence	HQ340606	1461		914150

GC content

30094

GC-content (mol%)47

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Kangiella geojedonensis strain YCS-5
PATRIC: 914150.17

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.40	no
125439	motility	BacteriaNetⓘ	yes	57.80	no
125439	gram_stain	BacteriaNetⓘ	negative	93.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kangiella geojedonensis YCS-5
NCBI: GCA_000981765.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	yes
125438	anaerobic	anaerobicⓘ	no	94.86	no
125438	aerobic	aerobicⓘ	yes	66.96	yes
125438	spore-forming	spore-formingⓘ	no	92.38	yes
125438	thermophilic	thermophileⓘ	no	94.15	no
125438	flagellated	motile2+ⓘ	no	61.34	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comparative Genomics Reveals Evidence of Genome Reduction and High Extracellular Protein Degradation Potential in Kangiella.	Wang J, Lu Y, Nawaz MZ, Xu J.	Front Microbiol	10.3389/fmicb.2018.01224	2018
Metabolism	The N-Acetylmuramic Acid 6-Phosphate Phosphatase MupP Completes the Pseudomonas Peptidoglycan Recycling Pathway Leading to Intrinsic Fosfomycin Resistance.	Borisova M, Gisin J, Mayer C.	mBio	10.1128/mbio.00092-17	2017
Genetics	Opportunistic bacteria with reduced genomes are effective competitors for organic nitrogen compounds in coastal dinoflagellate blooms.	Han Y, Jiao N, Zhang Y, Zhang F, He C, Liang X, Cai R, Shi Q, Tang K.	Microbiome	10.1186/s40168-021-01022-z	2021
Genetics	Complete genome of Kangiella geojedonensis KCTC 23420(T), putative evidence for recent genome reduction in marine environments.	Choe H, Kim S, Oh J, Nasir A, Kim BK, Kim KM	Mar Genomics	10.1016/j.margen.2015.05.015	2015
Phylogeny	Kangiella geojedonensis sp. nov., isolated from seawater.	Yoon JH, Kang SJ, Lee SY, Lee JS, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.029314-0	2011
Phylogeny	Kangiella sediminilitoris sp. nov., isolated from a tidal flat sediment.	Lee SY, Park S, Oh TK, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.040691-0	2012

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 )
#26451	IJSEM 511 2012 ( DOI 10.1099/ijs.0.029314-0 , PubMed 21478391 )
#30094	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 #26451
#62342	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 60526
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Kangiella geojedonensis (KCTC 23420, CCUG 60526, YCS-5)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000981765

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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