Aurantiacibacter marinus (KCTC 23554, CCUG 60528, HWDM-33)

Name: Aurantiacibacter marinus (KCTC 23554, CCUG 60528, HWDM-33)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133748

Type strain

Strain Designation HWDM-33

Culture col. no. KCTC 23554 CCUG 60528 HWDM-33

NCBI tax ID(s) 874156

Special Collections CCUG KCTC Literature strains

Links

Aurantiacibacter marinus HWDM-33 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 410475

KCTC 23554,CCUG 60528

@ref 20215

Last LPSN update 2025-12-16 10:01:52

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Erythrobacteraceae

Genus Aurantiacibacter

Species Aurantiacibacter marinus

Full scientific name Aurantiacibacter marinus (Jung et al. 2012) Xu et al. 2020

Synonyms (1)

Erythrobacter marinus

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30381	negative	0.75 µm	0.4 µm	rod-shaped
67771	negative
125438	negative				97.802
125439	negative				99.5

Colony morphology

62344

Incubation period2 days

Pigmentation

30381

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
30381	positive	growth	04-34
30381	positive	optimum	25	mesophilic
62344	positive	growth	30	mesophilic
67771	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
30381	positive	optimum	7.5
30381	positive	growth	5.5-8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30381	aerobe
62344	aerobe
67771	aerobe
125439	obligate aerobe	99.6

Spore formation

@ref	Spore formation	Confidence
125438		91.465
125439		97

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30381	NaCl	positive	growth	<5 %
30381	NaCl	positive	optimum	2.50 %

Observation

67771

Observationquinones: Q-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30381	17057 ChEBI	cellobiose	+	carbon source
30381	4853 ChEBI	esculin	+	hydrolysis
30381	17234 ChEBI	glucose	+	carbon source
30381	15361 ChEBI	pyruvate	+	carbon source
30381	18222 ChEBI	xylose	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	adipate degradation	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	gluconeogenesis	100	8 of 8
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	biotin biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	phenylalanine metabolism	92.31	12 of 13
66794	valine metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	propanol degradation	85.71	6 of 7
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	leucine metabolism	84.62	11 of 13
66794	threonine metabolism	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	propionate fermentation	80	8 of 10
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	citric acid cycle	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	serine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	NAD metabolism	77.78	14 of 18
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	lactate fermentation	75	3 of 4
66794	d-xylose degradation	72.73	8 of 11
66794	alanine metabolism	72.41	21 of 29
66794	purine metabolism	72.34	68 of 94
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	heme metabolism	71.43	10 of 14
66794	tyrosine metabolism	71.43	10 of 14
66794	glycolysis	70.59	12 of 17
66794	vitamin B1 metabolism	69.23	9 of 13
66794	degradation of sugar alcohols	68.75	11 of 16
66794	octane oxidation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	cyanate degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	glutathione metabolism	64.29	9 of 14
66794	proline metabolism	63.64	7 of 11
66794	pentose phosphate pathway	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	vitamin B6 metabolism	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	isoleucine metabolism	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	pyrimidine metabolism	62.22	28 of 45
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	methionine metabolism	61.54	16 of 26
66794	chlorophyll metabolism	61.11	11 of 18
66794	cysteine metabolism	61.11	11 of 18
66794	glycogen metabolism	60	3 of 5
66794	lipid metabolism	58.06	18 of 31
66794	histidine metabolism	55.17	16 of 29
66794	degradation of pentoses	53.57	15 of 28
66794	lysine metabolism	52.38	22 of 42
66794	phenylmercury acetate degradation	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	CMP-KDO biosynthesis	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	sulfopterin metabolism	50	2 of 4
66794	cyclohexanol degradation	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	starch degradation	50	5 of 10
66794	polyamine pathway	47.83	11 of 23
66794	sulfate reduction	46.15	6 of 13
66794	urea cycle	46.15	6 of 13
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	carotenoid biosynthesis	40.91	9 of 22
66794	ascorbate metabolism	40.91	9 of 22
66794	glycine metabolism	40	4 of 10
66794	3-chlorocatechol degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	ketogluconate metabolism	37.5	3 of 8
66794	pantothenate biosynthesis	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	nitrate assimilation	33.33	3 of 9
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	degradation of sugar acids	32	8 of 25
66794	oxidative phosphorylation	31.87	29 of 91
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	myo-inositol biosynthesis	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9

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
30381	seawater
62344	Sea water,Yellow sea	2007	Yellow Sea,Hwang-do	Republic of Korea	KOR	Asia
67771	From sea water		Yellow Sea	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence HQ117934 (>99% sequence identity) for Aurantiacibacter marinus from Microbeatlas

Aquatic Samples	409
Soil Samples	84
Animal Samples	39
Plant Samples	14
Total Samples	546

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM102155v1 assembly for Aurantiacibacter marinus KCTC 23554	contig	GCA_001021555	874156.11	2648501438	874156	75.95
66792	ASM101330v1 assembly for Aurantiacibacter marinus HWDM-33	contig	GCA_001013305		2630968569	874156	73.43

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30381	Erythrobacter marinus strain HWDM-33 16S ribosomal RNA gene, partial sequence	HQ117934	1442		874156

GC content

30381

GC-content (mol%)66.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Aurantiacibacter marinus KCTC 23554
NCBI: GCA_001021555

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.00	no
125439	motility	BacteriaNetⓘ	yes	51.50	no
125439	gram_stain	BacteriaNetⓘ	negative	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Erythrobacter marinus strain KCTC 23554
PATRIC: 874156.11

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.80	yes
125438	anaerobic	anaerobicⓘ	no	95.13	no
125438	aerobic	aerobicⓘ	yes	84.80	yes
125438	spore-forming	spore-formingⓘ	no	91.47	no
125438	thermophilic	thermophileⓘ	no	96.30	yes
125438	flagellated	motile2+ⓘ	no	65.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Aurantiacibacter rhizosphaerae sp. nov., isolated from a rhizosphere mudflat of a halophyte and proposal to reclassify Erythrobacter suaedae Lee et al. 2019. and Erythrobacter flavus Yoon et al. 2003 as Aurantiacibacter suaedae comb. nov. and Qipengyuania flava comb. nov., respectively.	Lee SD, Kim IS	Int J Syst Evol Microbiol	10.1099/ijsem.0.004524	2020

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 )
#30381	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 #26720 (see below)
#62344	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 60528
#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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Aurantiacibacter marinus (KCTC 23554, CCUG 60528, HWDM-33)

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

Observation

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001021555

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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