Thioalbus denitrificans (DSM 26407, JCM 15568, KCTC 5699)

Name: Thioalbus denitrificans (DSM 26407, JCM 15568, KCTC 5699)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4304

Type strain

Strain Designation Su4

Culture col. no. DSM 26407 JCM 15568 KCTC 5699 Su4

NCBI tax ID(s) 547122

Special Collections DSMZ JCM KCTC

Links

Thioalbus denitrificans Su4 is a microaerophile, mesophilic prokaryote that was isolated from marine sediment.

microaerophile mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 397386

KCTC 5699,JCM 15568,DSM 26407

@ref 20215

Last LPSN update 2025-12-16 09:47:47

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Chromatiales

Family Ectothiorhodospiraceae

Genus Thioalbus

Species Thioalbus denitrificans

Full scientific name Thioalbus denitrificans Park et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.5
125439	negative	92.9

Colony morphology

18210

Incubation period3-7 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
18210	SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011)		Medium recipe at MediaDive	Name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011) Composition: MgCl2 x 6 H2O 4.13452 g/l NaHCO3 1.48368 g/l Na2S2O3 x 5 H2O 1.48368 g/l KCl 0.326409 g/l NH4Cl 0.24728 g/l K2HPO4 0.138477 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.0098912 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
18210	positive	growth	25	mesophilic
67770	positive	growth	25	mesophilic

Physiology and metabolism

Oxygen tolerance

18210

Oxygen tolerancemicroaerophile

Spore formation

@ref	Spore formation	Confidence
125438		92.881
125439		95.4

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	valine metabolism	100	9 of 9
66794	glycogen metabolism	100	5 of 5
66794	coenzyme A metabolism	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	adipate degradation	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	lipoate biosynthesis	100	5 of 5
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	hydrogen production	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	methanofuran biosynthesis	100	5 of 5
66794	cardiolipin biosynthesis	100	7 of 7
66794	methylglyoxal degradation	100	5 of 5
66794	denitrification	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	isoleucine metabolism	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	dolichol and dolichyl phosphate biosynthesis	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ubiquinone biosynthesis	100	7 of 7
66794	threonine metabolism	100	10 of 10
66794	heme metabolism	92.86	13 of 14
66794	photosynthesis	92.86	13 of 14
66794	pentose phosphate pathway	90.91	10 of 11
66794	lipid A biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	vitamin B1 metabolism	84.62	11 of 13
66794	urea cycle	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	alanine metabolism	82.76	24 of 29
66794	factor 420 biosynthesis	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	citric acid cycle	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	d-mannose degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	acetate fermentation	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	peptidoglycan biosynthesis	73.33	11 of 15
66794	pyrimidine metabolism	73.33	33 of 45
66794	tyrosine metabolism	71.43	10 of 14
66794	glutathione metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	lipid metabolism	70.97	22 of 31
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	purine metabolism	67.02	63 of 94
66794	methanogenesis from CO2	66.67	8 of 12
66794	octane oxidation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	non-pathway related	65.79	25 of 38
66794	vitamin B6 metabolism	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	sulfate reduction	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	oxidative phosphorylation	61.54	56 of 91
66794	arginine metabolism	58.33	14 of 24
66794	tryptophan metabolism	57.89	22 of 38
66794	lysine metabolism	57.14	24 of 42
66794	cysteine metabolism	55.56	10 of 18
66794	nitrate assimilation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	proline metabolism	54.55	6 of 11
66794	polyamine pathway	52.17	12 of 23
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	pantothenate biosynthesis	50	3 of 6
66794	phenylmercury acetate degradation	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	ketogluconate metabolism	50	4 of 8
66794	carnitine metabolism	50	4 of 8
66794	starch degradation	50	5 of 10
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	resorcinol degradation	50	1 of 2
66794	metabolism of disaccharids	45.45	5 of 11
66794	degradation of hexoses	44.44	8 of 18
66794	vitamin B12 metabolism	44.12	15 of 34
66794	D-cycloserine biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	Entner Doudoroff pathway	40	4 of 10
66794	phenol degradation	40	8 of 20
66794	3-phenylpropionate degradation	40	6 of 15
66794	coenzyme M biosynthesis	40	4 of 10
66794	arachidonic acid metabolism	38.89	7 of 18
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	IAA biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	degradation of sugar alcohols	25	4 of 16
66794	lactate fermentation	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	catecholamine biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	allantoin degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
18210	marine sediment	East Sea	Republic of Korea	KOR	Asia
67770	Marine sediment		Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU837269 (>99% sequence identity) for Thioalbus denitrificans subclade from Microbeatlas

Aquatic Samples	867
Soil Samples	148
Animal Samples	42
Plant Samples	18
Total Samples	1075

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18210	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM333773v1 assembly for Thioalbus denitrificans DSM 26407	scaffold	GCA_003337735	547122.3	2770939499	547122	66.05

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
18210	Thioalbus denitrificans strain Su4 16S ribosomal RNA gene, partial sequence	EU837269	1417		547122

GC content

@ref	GC-content (mol%)	Method
18210	64.5	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: Thioalbus denitrificans DSM 26407
NCBI: GCA_003337735

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.40	no
125439	motility	BacteriaNetⓘ	yes	78.70	no
125439	gram_stain	BacteriaNetⓘ	negative	92.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	58.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thioalbus denitrificans strain DSM 26407
PATRIC: 547122.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	75.51	yes
125438	spore-forming	spore-formingⓘ	no	92.88	no
125438	aerobic	aerobicⓘ	no	61.44	yes
125438	thermophilic	thermophileⓘ	no	92.79	yes
125438	flagellated	motile2+ⓘ	no	56.72	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genomic Comparison, Phylogeny and Taxonomic Reevaluation of the Ectothiorhodospiraceae and Description of Halorhodospiraceae fam. nov. and Halochlorospira gen. nov.	Imhoff JF, Kyndt JA, Meyer TE.	Microorganisms	10.3390/microorganisms10020295	2022
Phylogeny	Thioalbus denitrificans gen. nov., sp. nov., a chemolithoautotrophic sulfur-oxidizing gammaproteobacterium, isolated from marine sediment.	Park SJ, Pham VH, Jung MY, Kim SJ, Kim JG, Roh DH, Rhee SK	Int J Syst Evol Microbiol	10.1099/ijs.0.024844-0	2010

References

#18210	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26407
#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 )
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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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Thioalbus denitrificans (DSM 26407, JCM 15568, KCTC 5699)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003337735

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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