Dongshaea marina (BCRC 81069, JCM 32096, DM2)

Name: Dongshaea marina (BCRC 81069, JCM 32096, DM2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 164191

Type strain

Strain Designation DM2

Culture col. no. BCRC 81069 JCM 32096 DM2

NCBI tax ID(s) 2047966

Special Collections JCM Literature strains

History W. Y. Shieh; Inst. of Oceanogr., Natl. Taiwan Univ., Taiwan; DM2.

Links

Dongshaea marina DM2 is a facultative anaerobe, halophilic, chemoheterotroph bacterium that forms circular colonies and was isolated from Lagoon sediment sample of Dongsha Island.

Gram-negative rod-shaped colony-forming facultative anaerobe halophilic chemoheterotroph genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 26445

BCRC 81069,JCM 32096

@ref 20215

Last LPSN update 2026-02-09 11:39:47

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Aeromonadales

Family Aeromonadaceae

Genus Dongshaea

Species Dongshaea marina

Full scientific name Dongshaea marina Huang et al. 2019

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
67775	negative	1.4-2.2 µm	1-1.2 µm	rod-shaped
67775					monotrichous
125439	negative					97.7
125438	negative					99.994

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
67775	2-4 mm	off-white	circular	3-5 days	Peptone-yeast extract agar

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	30
67775	positive	growth	15-35
67775	positive	optimum	30
67775	negative	growth	4-10
67775	negative	growth	42

Culture pH

@ref	Ability	Type	PH	PH range
67775	positive	growth	5-9	alkaliphile
67775		growth	10

Physiology and metabolism

Oxygen tolerance

67775

Oxygen tolerancefacultative anaerobe

Nutrition type

67775

Typechemoheterotroph

Spore formation

@ref	Type of spore	Spore formation	Confidence
67775	endospore
125438			91.691

Halophily

@ref	Halophily level	Salt	Growth	Tested relation	Concentration
67775	halophilic	NaCl	positive	growth	1-5 %
67775		NaCl	positive	optimum	2-3 %
67775		NaCl		growth	0 %
67775		NaCl		growth	7-10 %

Observation

@ref	Observation
67770	quinones: Q-8
67775	Nearly all cells are non-motile and non-flagellated, whereas a few of the cells exhibit motility and monotrichous flagella.

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
67775	2509 ChEBI	agar	-	hydrolysis
67775		casein	-	hydrolysis
67775	17057 ChEBI	cellobiose	+	builds acid from
67775	17057 ChEBI	cellobiose	+	builds gas from
67775	12936 ChEBI	D-galactose	+	builds acid from
67775	12936 ChEBI	D-galactose	+	builds gas from
67775	17634 ChEBI	D-glucose	+	fermentation
67775	16024 ChEBI	D-mannose	+	builds acid from
67775	16024 ChEBI	D-mannose	+	builds gas from
67775	65327 ChEBI	D-xylose	+	builds acid from
67775	65327 ChEBI	D-xylose	+	builds gas from
67775	16991 ChEBI	dna	-	hydrolysis
67775	5291 ChEBI	gelatin	-	hydrolysis
67775	17632 ChEBI	nitrate	+	reduction
67775	26710 ChEBI	sodium chloride	+	required for growth
67775	28017 ChEBI	starch	+	hydrolysis
67775	17992 ChEBI	sucrose	+	builds acid from
67775	17992 ChEBI	sucrose	+	builds gas from
67775	27082 ChEBI	trehalose	+	builds acid from
67775	27082 ChEBI	trehalose	+	builds gas from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67775	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
67775	acid phosphatase	+	3.1.3.2
67775	alkaline phosphatase	+	3.1.3.1
67775	alpha-glucosidase	-	3.2.1.20
67775	arginine dihydrolase	+	3.5.3.6
67775	beta-galactosidase	+	3.2.1.23
67775	beta-glucuronidase	-	3.2.1.31
67775	catalase	-	1.11.1.6
67775	cytochrome oxidase	-	1.9.3.1
67775	esterase (C 4)	+
67775	esterase Lipase (C 8)	-
67775	leucine arylamidase	+	3.4.11.1
67775	N-acetyl-beta-glucosaminidase	+	3.2.1.52
67775	naphthol-AS-BI-phosphohydrolase	+
67775	trypsin	-	3.4.21.4
67775	valine arylamidase	+

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Enrichment culture temperature	Isolation procedure
67770	Lagoon sediment sample of Dongsha Island		Taiwan, Province of China	TWN	Asia
67775	lagoon sediment sample	Dongsha Island	Taiwan, Province of China	TWN	Asia	25	Some wet mass (2 g) of each sample was taken and vigorously shaken in 98 ml sterile NaCl-Tris buffer (30 g NaCl and 0.24 g Tris in 1 l deionized water, pH 8.0). The shaken solutions were decimally diluted with the same buffer. Aliquots (1 ml) of the dilutions (10-3 to 10-5) were transferred to rimless tubes containing PYG medium (5 ml) in triplicate. All cultures were set in anaerobic jars (Difco) and incubated at 25°C in the dark for 3-7 days. The air in each anaerobic jar was replaced by N2 before incubation. The gas replacement was performed by flushing the anaerobic jar 30 times with high-purity N2 (99.9 %). Oxygen-free or nearly oxygen-free conditions could be established in the culturesystem throughout such a gas replacement treatment. Cultures that developed visible turbidity were streaked (one loopful) onto the PY plate medium and the plates were incubated at 25°C in the dark for 2-3 days under aerobic conditions. Individual colonies appearing on the plates were picked off and purified by successive streaking on PY plates.

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM307264v1 assembly for Dongshaea marina DM2	complete	GCA_003072645	2047966.4	2786546686	2047966	81.41

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67775	Dongshaea marina strain DM2 16S ribosomal RNA gene, partial sequence	MG232375	1471		2047966

GC content

@ref	GC-content (mol%)	Method
67770	51	genome sequence analysis
67770	51.8	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: Dongshaea marina DM2
NCBI: GCA_003072645

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	82.00	no
125439	motility	BacteriaNetⓘ	yes	78.50	no
125439	gram_stain	BacteriaNetⓘ	negative	97.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	62.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Dongshaea marina DM2
NCBI: GCA_003072645.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.99	yes
125438	anaerobic	anaerobicⓘ	no	93.90	yes
125438	aerobic	aerobicⓘ	no	74.04	yes
125438	spore-forming	spore-formingⓘ	no	91.69	yes
125438	thermophilic	thermophileⓘ	no	96.50	yes
125438	flagellated	motile2+ⓘ	yes	82.20	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Dongshaea marina gen. nov., sp. nov., a facultatively anaerobic marine bacterium that ferments glucose with gas production.	Huang SP, Chen TY, Chen JS, Wang LT, Huang L, Lin ST, Wei CL, Lin S, Wang PL, Chen YM, Shieh WY	Int J Syst Evol Microbiol	10.1099/ijsem.0.003080	2019

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 )
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67775	Ssu-Po Huang, Tzu-Yin Chen, Jwo-Sheng Chen, Li-Ting Wang, Lina Huang, Shih-Ting Lin, Chih-Lin Wei, Saulwood Lin, Pei-Ling Wang, Yi-Min Chen, Wung Yang Shieh: Dongshaea marina gen. nov., sp. nov., a facultatively anaerobic marine bacterium that ferments glucose with gas production. IJSEM 69: 3318 - 3325 2019 ( DOI 10.1099/ijsem.0.003080 )
#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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Dongshaea marina (BCRC 81069, JCM 32096, DM2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003072645

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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