Name: Devosia submarina NRIC 0884
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 133922

Type strain:

Species: Devosia submarina

Culture col. no.: NRIC 0884, JCM 18935, KMM 9415

Strain history: N. Tanaka Sl74.

NCBI tax ID(s): 1173082 (species)

Special Collections

Section

Devosia submarina NRIC 0884 is an aerobe, Gram-negative, motile bacterium that was isolated from marine sediment.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Devosiaceae*
	Genus	*Devosia*
	Species	**Devosia submarina**
	Full Scientific Name (LPSN)	Devosia submarina Romanenko et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30880]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %94.969

[Ref.: #30880]	Cell length	1.6 µm

[Ref.: #30880]	Cell width	1 µm

[Ref.: #30880]	Cell shape	rod-shaped

[Ref.: #30880]	Motility	yes

[Ref.: #30880]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #30880]	growth	05-38 °C
[Ref.: #30880]	optimum	29 °C
[Ref.: #67770]	growth	25 °C

	pH	Kind of pH		pH
[Ref.: #30880]			optimum	7.5
[Ref.: #30880]			growth	6.0-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30880]

Oxygen tolerance

aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %90.29
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30880]		NaCl		growth	0-5	%
[Ref.: #30880]		NaCl		optimum	1.5	%

[Ref.: #67770]

Observation

quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30880]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #30880]	esculin ChEBI	+	hydrolysis
[Ref.: #30880]	proline ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #30880]	acid phosphatase	+	3.1.3.2
[Ref.: #30880]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30880]	catalase	+	1.11.1.6
[Ref.: #30880]	cytochrome oxidase	+	1.9.3.1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #30880]	Sample type/isolated from	marine sediment

[Ref.: #67770]	Sample type/isolated from	Deep surface-sediment sample collected from the Sea of Japan
[Ref.: #67770]	Country	Russia
[Ref.: #67770]	Country ISO 3 Code	RUS
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #30880]	Devosia submarina gene for 16S ribosomal RNA, partial sequence, strain: Sl74	AB712348	1442	GenBank ENA	1173082 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Devosia submarina JCM 18935	GCA_003056345	contig	GenBank ENA	1173082 tax ID	*
[Ref.: #66792]	Devosia submarina strain JCM 18935	1173082.4	wgs	PATRIC	1173082 tax ID	*
[Ref.: #66792]	Devosia submarina JCM 18935	2848589509	draft	JGI IMG/M	1173082 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Devosia submarina strain JCM 18935 PATRIC: 1173082.4
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Devosia submarina strain JCM 18935 PATRIC: 1173082.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.969	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.017	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.29	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.122	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.559	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	64.13	no

Availability in culture collections External links

[Ref.: #30880]

Culture collection no.

NRIC 0884, JCM 18935, KMM 9415

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Devosia beringensis sp. nov., isolated from surface sediment of the Bering Sea.	Zhang YX, Yu Y, Luo W, Zeng YX, Du ZJ, Li HR	Int J Syst Evol Microbiol	10.1099/ijsem.0.004995	2021	*
Phylogeny	Devosia aurantiaca sp. nov., Isolated from Mountain Soil and Proposal of Albitalea gen. nov. to Replace the Illegitimate Prokaryotic Genus Name Geomonas Khan et al. 2020.	Khan SA, Kim HM, Chun BH, Jeon CO	Curr Microbiol	10.1007/s00284-021-02515-8	2021	*
Phylogeny	Devosia submarina sp. nov., isolated from deep-sea surface sediments.	Romanenko LA, Tanaka N, Svetashev VI	Int J Syst Evol Microbiol	10.1099/ijs.0.046607-0	2013	*
Phylogeny	Devosia naphthalenivorans sp. nov., isolated from East Pacific Ocean sediment.	Chen Y, Zhu S, Lin D, Wang X, Yang J, Chen J	Int J Syst Evol Microbiol	10.1099/ijsem.0.003410	2019	*
	Structure of the Cell-Wall-Associated Polysaccharides from the Deep-Sea Marine Bacterium Devosia submarina KMM 9415(T).	Kokoulin MS, Romanenko LA, Kuzmich AS, Chernikov O	Mar Drugs	10.3390/md19120665	2021	*

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 )

#30880

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 #27210 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#27210

IJSEM 3079 2013 ( DOI 10.1099/ijs.0.046607-0 , PubMed 23416574 )

* These data were automatically processed and therefore are not curated

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Devosia submarina strain JCM 18935

Devosia submarina strain JCM 18935

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