Amylibacter cionae (KCTC 52581, CGMCC 1.15880, H-12)

Name: Amylibacter cionae (KCTC 52581, CGMCC 1.15880, H-12)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 140730

Type strain

Strain Designation H-12

Culture col. no. KCTC 52581 CGMCC 1.15880 H-12 DSM 108668

NCBI tax ID(s) 2035344

Special Collections KCTC Literature strains

History <- J.-S. Lee, KCTC; KCTC 52581

Links

Amylibacter cionae H-12 is an aerobe, chemoautolithotroph, Gram-negative bacterium that forms circular colonies and was isolated from inner content of a sea squirt.

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

Name and taxonomic classification

SI-ID 400401

KCTC 52581,DSM 108668

@ref 20215

Last LPSN update 2026-02-09 11:33:41

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Amylibacter

Species Amylibacter cionae

Full scientific name Amylibacter cionae Wang et al. 2017

Synonyms (1)

Neptunicoccus cionae

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
43509	negative	1.5-2.2 µm	0.6-1.1 µm	rod-shaped
125438	negative				99.333
125439	negative				95.2

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
43509	light yellow	circular	4 days	MA agar

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
43509	Marine agar (MA)
125207	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
43509	positive	growth	10-35
43509	positive	optimum	25-30
125207	positive	growth	25

Culture pH

@ref	Ability	Type	PH	PH range
43509	positive	optimum	7-8
43509	positive	growth	6-9	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
43509	aerobe
125439	obligate aerobe	97

Nutrition type

43509

Typechemoautolithotroph

Spore formation

@ref	Spore formation	Confidence
125438		91.124
125439		94.8

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43509	NaCl	positive	growth	1-6 %(w/v)
43509	NaCl	positive	optimum	3-4 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43509	64552 ChEBI	2-hydroxybutyrate	+	carbon source
43509	64552 ChEBI	2-hydroxybutyrate	+	energy source
43509	16763 ChEBI	2-oxobutanoate	-	carbon source
43509	16763 ChEBI	2-oxobutanoate	-	energy source
43509	30916 ChEBI	2-oxoglutarate	+	carbon source
43509	30916 ChEBI	2-oxoglutarate	+	energy source
43509	37054 ChEBI	3-hydroxybutyrate	+	carbon source
43509	37054 ChEBI	3-hydroxybutyrate	+	energy source
43509	73918 ChEBI	3-O-methyl-D-glucose	-	carbon source
43509	73918 ChEBI	3-O-methyl-D-glucose	-	energy source
43509	18101 ChEBI	4-hydroxyphenylacetic acid	-	carbon source
43509	18101 ChEBI	4-hydroxyphenylacetic acid	-	energy source
43509	30089 ChEBI	acetate	-	carbon source
43509	30089 ChEBI	acetate	-	energy source
43509	13705 ChEBI	acetoacetate	-	carbon source
43509	13705 ChEBI	acetoacetate	-	energy source
43509	17128 ChEBI	adipate	-	assimilation
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
43509	17925 ChEBI	alpha-D-glucose	-	carbon source
43509	17925 ChEBI	alpha-D-glucose	-	energy source
43509	36219 ChEBI	alpha-lactose	-	carbon source
43509	36219 ChEBI	alpha-lactose	-	energy source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
43509	73706 ChEBI	bromosuccinate	-	carbon source
43509	73706 ChEBI	bromosuccinate	-	energy source
43509		casein	-	hydrolysis
43509	17057 ChEBI	cellobiose	-	carbon source
43509	17057 ChEBI	cellobiose	-	energy source
43509	16947 ChEBI	citrate	+	carbon source
43509	16947 ChEBI	citrate	+	energy source
43509	18333 ChEBI	D-arabitol	-	carbon source
43509	18333 ChEBI	D-arabitol	-	energy source
43509	29990 ChEBI	D-aspartate	-	carbon source
43509	29990 ChEBI	D-aspartate	-	energy source
43509	15824 ChEBI	D-fructose	-	carbon source
43509	15824 ChEBI	D-fructose	-	energy source
43509	78697 ChEBI	D-fructose 6-phosphate	+	carbon source
43509	78697 ChEBI	D-fructose 6-phosphate	+	energy source
43509	28847 ChEBI	D-fucose	-	carbon source
43509	28847 ChEBI	D-fucose	-	energy source
43509	12936 ChEBI	D-galactose	-	carbon source
43509	12936 ChEBI	D-galactose	-	energy source
43509	18024 ChEBI	D-galacturonic acid	-	carbon source
43509	18024 ChEBI	D-galacturonic acid	-	energy source
43509	8391 ChEBI	D-gluconate	-	carbon source
43509	8391 ChEBI	D-gluconate	-	energy source
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
43509	14314 ChEBI	D-glucose 6-phosphate	-	carbon source
43509	14314 ChEBI	D-glucose 6-phosphate	-	energy source
43509	15748 ChEBI	D-glucuronate	-	carbon source
43509	15748 ChEBI	D-glucuronate	-	energy source
43509	16899 ChEBI	D-mannitol	-	assimilation
43509	16899 ChEBI	D-mannitol	-	carbon source
43509	16899 ChEBI	D-mannitol	-	energy source
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
43509	16024 ChEBI	D-mannose	-	assimilation
43509	16024 ChEBI	D-mannose	-	carbon source
43509	16024 ChEBI	D-mannose	-	energy source
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
43509	33801 ChEBI	D-saccharate	-	carbon source
43509	33801 ChEBI	D-saccharate	-	energy source
43509	16523 ChEBI	D-serine	-	carbon source
43509	16523 ChEBI	D-serine	-	energy source
43509	17924 ChEBI	D-sorbitol	-	carbon source
43509	17924 ChEBI	D-sorbitol	-	energy source
43509	27689 ChEBI	decanoate	-	assimilation
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
43509	23652 ChEBI	dextrin	-	carbon source
43509	23652 ChEBI	dextrin	-	energy source
43509	16991 ChEBI	dna	-	hydrolysis
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
43509	15740 ChEBI	formate	-	carbon source
43509	15740 ChEBI	formate	-	energy source
43509	16537 ChEBI	galactarate	-	carbon source
43509	16537 ChEBI	galactarate	-	energy source
43509	16865 ChEBI	gamma-aminobutyric acid	-	carbon source
43509	16865 ChEBI	gamma-aminobutyric acid	-	energy source
43509	5291 ChEBI	gelatin	-	carbon source
43509	5291 ChEBI	gelatin	-	energy source
43509	5291 ChEBI	gelatin	+	hydrolysis
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
43509	28066 ChEBI	gentiobiose	-	carbon source
43509	28066 ChEBI	gentiobiose	-	energy source
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
43509	17234 ChEBI	glucose	-	assimilation
43509	17234 ChEBI	glucose	-	fermentation
43509	32323 ChEBI	glucuronamide	+	carbon source
43509	32323 ChEBI	glucuronamide	+	energy source
43509	17754 ChEBI	glycerol	-	carbon source
43509	17754 ChEBI	glycerol	-	energy source
43509	70744 ChEBI	glycine-proline	-	carbon source
43509	70744 ChEBI	glycine-proline	-	energy source
43509	17596 ChEBI	inosine	-	carbon source
43509	17596 ChEBI	inosine	-	energy source
43509	30849 ChEBI	L-arabinose	-	assimilation
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
43509	16467 ChEBI	L-arginine	-	carbon source
43509	16467 ChEBI	L-arginine	-	energy source
43509	29991 ChEBI	L-aspartate	-	carbon source
43509	29991 ChEBI	L-aspartate	-	energy source
43509	18287 ChEBI	L-fucose	-	carbon source
43509	18287 ChEBI	L-fucose	-	energy source
43509	17464 ChEBI	L-galactonic acid gamma-lactone	-	carbon source
43509	17464 ChEBI	L-galactonic acid gamma-lactone	-	energy source
43509	15971 ChEBI	L-histidine	+	carbon source
43509	15971 ChEBI	L-histidine	+	energy source
43509	18183 ChEBI	L-pyroglutamic acid	-	carbon source
43509	18183 ChEBI	L-pyroglutamic acid	-	energy source
43509	62345 ChEBI	L-rhamnose	-	carbon source
43509	62345 ChEBI	L-rhamnose	-	energy source
43509	17115 ChEBI	L-serine	-	carbon source
43509	17115 ChEBI	L-serine	-	energy source
43509	17895 ChEBI	L-tyrosine	-	hydrolysis
43509	24996 ChEBI	lactate	+	carbon source
43509	24996 ChEBI	lactate	+	energy source
43509	25115 ChEBI	malate	-	assimilation
43509	25115 ChEBI	malate	-	carbon source
43509	25115 ChEBI	malate	-	energy source
43509	25115 ChEBI	malate	+	carbon source
43509	25115 ChEBI	malate	+	energy source
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
43509	17306 ChEBI	maltose	-	assimilation
43509	17306 ChEBI	maltose	-	carbon source
43509	17306 ChEBI	maltose	-	energy source
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
43509	28053 ChEBI	melibiose	-	carbon source
43509	28053 ChEBI	melibiose	-	energy source
43509	74611 ChEBI	methyl (R)-lactate	-	carbon source
43509	74611 ChEBI	methyl (R)-lactate	-	energy source
43509	37657 ChEBI	methyl D-glucoside	-	carbon source
43509	37657 ChEBI	methyl D-glucoside	-	energy source
43509	51850 ChEBI	methyl pyruvate	-	carbon source
43509	51850 ChEBI	methyl pyruvate	-	energy source
43509	17268 ChEBI	myo-inositol	-	carbon source
43509	17268 ChEBI	myo-inositol	-	energy source
43509	63154 ChEBI	N-acetyl-beta-D-mannosamine	-	carbon source
43509	63154 ChEBI	N-acetyl-beta-D-mannosamine	-	energy source
43509	28037 ChEBI	N-acetylgalactosamine	-	carbon source
43509	28037 ChEBI	N-acetylgalactosamine	-	energy source
43509	506227 ChEBI	N-acetylglucosamine	-	assimilation
43509	506227 ChEBI	N-acetylglucosamine	-	carbon source
43509	506227 ChEBI	N-acetylglucosamine	-	energy source
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
43509	35418 ChEBI	n-acetylneuraminate	-	carbon source
43509	35418 ChEBI	n-acetylneuraminate	-	energy source
43509	17632 ChEBI	nitrate	-	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
43509	17309 ChEBI	pectin	-	carbon source
43509	17309 ChEBI	pectin	-	energy source
43509	18401 ChEBI	phenylacetate	-	assimilation
43509	32032 ChEBI	potassium gluconate	-	assimilation
43509	17272 ChEBI	propionate	-	carbon source
43509	17272 ChEBI	propionate	-	energy source
43509	26490 ChEBI	quinate	-	carbon source
43509	26490 ChEBI	quinate	-	energy source
43509	16634 ChEBI	raffinose	-	carbon source
43509	16634 ChEBI	raffinose	-	energy source
43509	17814 ChEBI	salicin	-	carbon source
43509	17814 ChEBI	salicin	-	energy source
43509	53258 ChEBI	sodium citrate	-	assimilation
43509	17164 ChEBI	stachyose	-	carbon source
43509	17164 ChEBI	stachyose	-	energy source
43509	28017 ChEBI	starch	-	hydrolysis
43509	17992 ChEBI	sucrose	-	carbon source
43509	17992 ChEBI	sucrose	-	energy source
43509	27082 ChEBI	trehalose	-	carbon source
43509	27082 ChEBI	trehalose	-	energy source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
43509	32528 ChEBI	turanose	-	carbon source
43509	32528 ChEBI	turanose	-	energy source
43509	53424 ChEBI	tween 20	+	hydrolysis
43509	53423 ChEBI	tween 40	-	carbon source
43509	53423 ChEBI	tween 40	-	energy source
43509	53426 ChEBI	tween 80	-	hydrolysis
43509	16199 ChEBI	urea	-	hydrolysis
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
43509	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	-	3.1.3.2	from API zym
43509	alkaline phosphatase	+/-	3.1.3.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
43509	alpha-chymotrypsin	-	3.4.21.1
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
43509	alpha-fucosidase	-	3.2.1.51
68382	alpha-fucosidase	-	3.2.1.51	from API zym
43509	alpha-galactosidase	-	3.2.1.22
68382	alpha-galactosidase	-	3.2.1.22	from API zym
43509	alpha-glucosidase	-	3.2.1.20
68382	alpha-glucosidase	-	3.2.1.20	from API zym
43509	alpha-mannosidase	-	3.2.1.24
68382	alpha-mannosidase	-	3.2.1.24	from API zym
43509	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
43509	beta-galactosidase	-	3.2.1.23
68382	beta-galactosidase	-	3.2.1.23	from API zym
43509	beta-glucosidase	-	3.2.1.21
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
43509	beta-glucuronidase	-	3.2.1.31
68382	beta-glucuronidase	-	3.2.1.31	from API zym
43509	catalase	+	1.11.1.6
43509	cystine arylamidase	-	3.4.11.3
68382	cystine arylamidase	-	3.4.11.3	from API zym
43509	cytochrome oxidase	+	1.9.3.1
43509	esterase (C 4)	+
43509	esterase Lipase (C 8)	+
43509	gelatinase	-
68369	gelatinase	-		from API 20NE
43509	leucine arylamidase	+	3.4.11.1
43509	lipase (C 14)	+/-
68382	lipase (C 14)	-		from API zym
43509	N-acetyl-beta-glucosaminidase	-	3.2.1.52
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
43509	naphthol-AS-BI-phosphohydrolase	-
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
43509	trypsin	-	3.4.21.4
68382	trypsin	-	3.4.21.4	from API zym
43509	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
43509	valine arylamidase	+/-
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	ribulose monophosphate pathway	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	formaldehyde oxidation	100	3 of 3
66794	valine metabolism	100	9 of 9
66794	octane oxidation	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	palmitate biosynthesis	100	22 of 22
66794	pentose phosphate pathway	100	11 of 11
66794	taurine degradation	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	ceramide biosynthesis	100	1 of 1
66794	L-lactaldehyde degradation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	leucine metabolism	92.31	12 of 13
66794	phenylalanine metabolism	92.31	12 of 13
66794	degradation of aromatic, nitrogen containing compounds	91.67	11 of 12
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	allantoin degradation	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	ketogluconate metabolism	87.5	7 of 8
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	NAD metabolism	83.33	15 of 18
66794	vitamin B12 metabolism	82.35	28 of 34
66794	tryptophan metabolism	81.58	31 of 38
66794	peptidoglycan biosynthesis	80	12 of 15
66794	gallate degradation	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	purine metabolism	78.72	74 of 94
66794	heme metabolism	78.57	11 of 14
66794	tyrosine metabolism	78.57	11 of 14
66794	photosynthesis	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	pyrimidine metabolism	77.78	35 of 45
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	degradation of sugar acids	76	19 of 25
66794	alanine metabolism	75.86	22 of 29
66794	lactate fermentation	75	3 of 4
66794	biotin biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	carnitine metabolism	75	6 of 8
66794	arginine metabolism	75	18 of 24
66794	butanoate fermentation	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	vitamin B6 metabolism	72.73	8 of 11
66794	proline metabolism	72.73	8 of 11
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	glutathione metabolism	71.43	10 of 14
66794	aclacinomycin biosynthesis	71.43	5 of 7
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	propionate fermentation	70	7 of 10
66794	phenol degradation	70	14 of 20
66794	vitamin B1 metabolism	69.23	9 of 13
66794	lysine metabolism	69.05	29 of 42
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	3-phenylpropionate degradation	66.67	10 of 15
66794	cyanate degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	lipid A biosynthesis	66.67	6 of 9
66794	IAA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	degradation of pentoses	64.29	18 of 28
66794	non-pathway related	63.16	24 of 38
66794	histidine metabolism	62.07	18 of 29
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	methionine metabolism	61.54	16 of 26
66794	hydrogen production	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	flavin biosynthesis	60	9 of 15
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	glycolysis	58.82	10 of 17
66794	oxidative phosphorylation	58.24	53 of 91
66794	propanol degradation	57.14	4 of 7
66794	degradation of sugar alcohols	56.25	9 of 16
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	aspartate and asparagine metabolism	55.56	5 of 9
66794	urea cycle	53.85	7 of 13
66794	isoprenoid biosynthesis	53.85	14 of 26
66794	sulfate reduction	53.85	7 of 13
66794	pantothenate biosynthesis	50	3 of 6
66794	kanosamine biosynthesis II	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	cyclohexanol degradation	50	2 of 4
66794	myo-inositol biosynthesis	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	acetate fermentation	50	2 of 4
66794	CMP-KDO biosynthesis	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	resorcinol degradation	50	1 of 2
66794	catecholamine biosynthesis	50	2 of 4
66794	cysteine metabolism	50	9 of 18
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
66794	polyamine pathway	47.83	11 of 23
66794	d-xylose degradation	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	degradation of hexoses	44.44	8 of 18
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	bile acid biosynthesis, neutral pathway	41.18	7 of 17
66794	3-chlorocatechol degradation	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	lipoate biosynthesis	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	ascorbate metabolism	36.36	8 of 22
66794	chlorophyll metabolism	33.33	6 of 18
66794	sulfoquinovose 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	sphingosine metabolism	33.33	2 of 6
66794	carotenoid biosynthesis	31.82	7 of 22
66794	mevalonate metabolism	28.57	2 of 7
66794	metabolism of disaccharids	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8

Fatty acid profile

Metadata FA analysis

@ref

43509

Fatty acid	Percentage
C18:1ω7c	90.3
C12:1 3OH	3.7
C18:0	2.2
C16:0	1.8
11-methyl-C18:1ω7c	1.3

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
43509	-	+	+/-	+/-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
43509	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Host	#Invertebrates (Other)	#Tunicata

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
43509	inner content of a sea squirt	Tsingtao Port, Jiaozhou Bay	China	CHN	Asia
125207	sea squirt Ciona savignyi	Jiaozhou Bay, Tsingtao Port (36° 04' 00'' N, 120° 19' 05'' E)	China	CHN	Asia	36.0667	120.318 36.0667/120.318

Taxonmaps

69479

Global distribution of 16S sequence KX790330 (>99% sequence identity) for Amylibacter cionae subclade from Microbeatlas

Aquatic Samples	279
Soil Samples	8
Animal Samples	86
Plant Samples
Total Samples	373

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
125207	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1464373v1 assembly for Neptunicoccus cionae CGMCC 1.15880	contig	GCA_014643735	2035344.4	3001054348	2035344	73.7

16S sequences

@ref	Description	Accession	Database
43509	Amylibacter cionae strain H-12 16S ribosomal RNA gene, partial sequence	KX790330

GC content

@ref	GC-content (mol%)	Method
43509	53.7	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Amylibacter cionae CGMCC 1.15880
NCBI: GCA_014643735

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.80	no
125439	motility	BacteriaNetⓘ	yes	57.30	no
125439	gram_stain	BacteriaNetⓘ	negative	95.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Amylibacter cionae strain CGMCC 1.15880
PATRIC: 2035344.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.33	yes
125438	anaerobic	anaerobicⓘ	no	96.30	yes
125438	spore-forming	spore-formingⓘ	no	91.12	no
125438	aerobic	aerobicⓘ	yes	84.96	no
125438	thermophilic	thermophileⓘ	no	97.82	no
125438	flagellated	motile2+ⓘ	no	81.73	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Validation List no. 219. Valid publication of new names and new combinations effectively published outside the IJSEM.	Oren A, Goker M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006452	2024
	Cloning and expression of the dimethylsulfoniopropionate lyase gene dddY and the identification of the key amino acids necessary for its activity.	Liu Y, Ma F, Zhang H, Chu C, Wang X, Tang Y, He J, Qiu J, Xu S, Li L.	Curr Res Microb Sci	10.1016/j.crmicr.2025.100444	2025
Pathogenicity	Bioinformatic discovery of type 11 secretion system (T11SS) cargo across the Proteobacteria.	Grossman AS, Mucci NC, Kauffman SJ, Rafi J, Goodrich-Blair H.	Microb Genom	10.1099/mgen.0.001406	2025
Metabolism	Functional annotation of orthologs in metagenomes: a case study of genes for the transformation of oceanic dimethylsulfoniopropionate.	Gonzalez JM, Hernandez L, Manzano I, Pedros-Alio C.	ISME J	10.1038/s41396-019-0347-6	2019
	Genome-based analysis of the family Paracoccaceae and description of Ostreiculturibacter nitratireducens gen. nov., sp. nov., isolated from an oyster farm on a tidal flat.	Huang Z, Li M, Oren A, Lai Q.	Front Microbiol	10.3389/fmicb.2024.1376777	2024
Phylogeny	Amylibacter cionae sp. nov., isolated from the sea squirt Ciona savignyi.	Wang D, Wei Y, Cui Q, Li W	Int J Syst Evol Microbiol	10.1099/ijsem.0.002140	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 )
#43509	Dandan Wang, Yuxi Wei, Qiu Cui, Wenli Li: Amylibacter cionae sp. nov., isolated from the sea squirt Ciona savignyi. IJSEM 67: 3462 - 3466 2017 ( DOI 10.1099/ijsem.0.002140 , PubMed 28866998 )
#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 )
#68369	Automatically annotated from API 20NE .
#68382	Automatically annotated from API zym .
#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 .
#125207	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 108668
#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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Amylibacter cionae (KCTC 52581, CGMCC 1.15880, H-12)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

Fatty acid profile

API zym

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014643735

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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