Sulfitobacter dubius (DSM 16472, ATCC BAA-320, KCTC 32184)

Name: Sulfitobacter dubius (DSM 16472, ATCC BAA-320, KCTC 32184)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13795

Type strain

Culture col. no. DSM 16472 ATCC BAA-320 KCTC 32184 KMM 3554 LMG 20555

NCBI tax ID(s) 218673

Special Collections DSMZ KCTC Literature strains

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Sulfitobacter dubius DSM 16472 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from sea grass Zostera marina.

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

Name and taxonomic classification

SI-ID 84770

DSM 16472,KCTC 32184,LMG 20555,ATCC BAA-320

@ref 20215

Last LPSN update 2025-12-16 09:50:11

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodobacterales

Family Roseobacteraceae

Genus Sulfitobacter

Species Sulfitobacter dubius

Full scientific name Sulfitobacter dubius Ivanova et al. 2004

BacDive ID	Other strains from **Sulfitobacter dubius** (13)	Type strain
175119	S. dubius Bio-205, DSM 109635
175120	S. dubius sp16_111, DSM 109968
175121	S. dubius sp16_140_3, DSM 109969
175122	S. dubius so17_42_2a_10, DSM 109970
175123	S. dubius so17_57_2, DSM 109971
175124	S. dubius sp16_123, DSM 109988
175125	S. dubius 3RS2_S1, DSM 109991
175126	S. dubius 3RW5_G4a, DSM 109992
175127	S. dubius 4CS2_PP2, DSM 109993
175128	S. dubius sp16_141_2, DSM 110032
175129	S. dubius SO248Ex85, DSM 110275
175130	S. dubius SO254Ex18a, DSM 110276
175131	S. dubius MB_33_2_3, DSM 110732

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
29915	negative	1.35 µm	0.7 µm	rod-shaped
125438	negative
125439	negative

Pigmentation

29915

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6462	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)	Range
6462	positive	growth	25	mesophilic
29915	positive	growth	10-30
29915	positive	optimum	25	mesophilic

Culture pH

@ref	Ability	Type	PH
29915	positive	optimum	7.75
29915	positive	growth	6.0-11.0

Physiology and metabolism

Oxygen tolerance

29915

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation
29915
125438
125439

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29915	NaCl	positive	growth	01-12 %
29915	NaCl	positive	optimum	6 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29915	16947 ChEBI	citrate	+	carbon source
29915	33984 ChEBI	fucose	+	carbon source
29915	28260 ChEBI	galactose	+	carbon source
29915	24175 ChEBI	galacturonate	+	carbon source
29915	5291 ChEBI	gelatin	+	carbon source
29915	32323 ChEBI	glucuronamide	+	carbon source
29915	28087 ChEBI	glycogen	+	carbon source
29915	28053 ChEBI	melibiose	+	carbon source
29915	17632 ChEBI	nitrate	+	reduction
29915	28044 ChEBI	phenylalanine	+	carbon source
29915	26546 ChEBI	rhamnose	+	carbon source
29915	17822 ChEBI	serine	+	carbon source
29915	30911 ChEBI	sorbitol	+	carbon source

Enzymes

@ref	Value	Activity	Ec
29915	catalase	+	1.11.1.6
29915	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Aquatic plant

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
6462	sea grass Zostera marina	Zostera marina	Sea of Japan	Russia	RUS	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ915635 (>99% sequence identity) for Sulfitobacter from Microbeatlas

Aquatic Samples	2251
Soil Samples	83
Animal Samples	278
Plant Samples	12
Total Samples	2624

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6462	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
66792	IMG-taxon 2616644813 annotated assembly for Sulfitobacter dubius DSM 16472	scaffold	GCA_900113435	218673.14	2616644813	218673	70.89

Genome browser: GCA_900113435

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Sulfitobacter dubius strain LMG20555 16S ribosomal RNA gene, partial sequence	DQ915635	1307	218673
6462	Sulfitobacter dubius strain KMM 3554T 16S ribosomal RNA gene, partial sequence	AY180102	1430	218673
124043	Sulfitobacter dubius 16S ribosomal RNA gene, partial sequence.	KY471028	599	218673
124043	Sulfitobacter dubius strain KMM 3554 16S ribosomal RNA gene, partial sequence.	KT989842	1457	218673

GC content

6462

GC-content (mol%)63.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Sulfitobacter dubius DSM 16472
NCBI: GCA_900113435

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	92.20	no
125439	motility	BacteriaNetⓘ	yes	65.70	no
125439	gram_stain	BacteriaNetⓘ	negative	92.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	88.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Sulfitobacter dubius DSM 16472
NCBI: GCA_900113435.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	95.55	yes
125438	aerobic	aerobicⓘ	yes	83.34	yes
125438	spore-forming	spore-formingⓘ	no	91.84	yes
125438	thermophilic	thermophileⓘ	no	97.06	yes
125438	flagellated	motile2+ⓘ	no	59.80	no

Literature

Title	Authors	Journal	DOI	Year
Abundant Sulfitobacter marine bacteria protect Emiliania huxleyi algae from pathogenic bacteria.	Beiralas R, Ozer N, Segev E.	ISME Commun	10.1038/s43705-023-00311-y	2023
Antifungal Natural Products Originating from Endophytic and Rhizospheric Microbes Isolated from Coastal Vegetation.	Jayaweera SLD, Van TTH, Dias DA.	J Xenobiot	10.3390/jox15010032	2025
Description of a sulfitobacter strain and its extracellular cyclodipeptides.	Long C, Lu XL, Gao Y, Jiao BH, Liu XY.	Evid Based Complement Alternat Med	10.1155/2011/393752	2011
Sulfitobacter aestuarii sp. nov., a marine bacterium isolated from a tidal flat of the Yellow Sea.	Park AY, Teeravet S, Pheng S, Lee JR, Kim SG, Suwannachart C	Int J Syst Evol Microbiol	10.1099/ijsem.0.002747	2018
Sulfitobacter faviae sp. nov., isolated from the coral Faviaveroni.	Kumari P, Bhattacharjee S, Poddar A, Das SK	Int J Syst Evol Microbiol	10.1099/ijsem.0.001265	2016
Sulfitobacter delicatus sp. nov. and Sulfitobacter dubius sp. nov., respectively from a starfish (Stellaster equestris) and sea grass (Zostera marina).	Ivanova EP, Gorshkova NM, Sawabe T, Zhukova NV, Hayashi K, Kurilenko VV, Alexeeva Y, Buljan V, Nicolau DV, Mikhailov VV, Christen R	Int J Syst Evol Microbiol	10.1099/ijs.0.02654-0	2004

References

#6462	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16472
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#29915	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 #26286 (see below)
#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) .
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Sulfitobacter dubius (DSM 16472, ATCC BAA-320, KCTC 32184)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900113435

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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