Name: Sagittula marina F028-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 131262

Type strain:

Species: Sagittula marina

Strain Designation: F028-2

Culture col. no.: DSM 102235, JCM 17627, KCTC 23543

Strain history: S. J. Cho F028-2.

NCBI tax ID(s): 943940 (species)

SI-ID 401768

DSM 102235

Special Collections

Section

Sagittula marina F028-2 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seawater sample.

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

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Roseobacteraceae*
	Genus	*Sagittula*
	Species	**Sagittula marina**
	Full Scientific Name (LPSN)	Sagittula marina Lee et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30634]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.815

[Ref.: #30634]	Cell length	1 µm

[Ref.: #30634]	Cell width	0.5 µm

[Ref.: #30634]	Cell shape	rod-shaped

[Ref.: #30634]	Motility	no

[Ref.: #22489]

Incubation period

2-3 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22489]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #22489]

Culture medium growth

[Ref.: #22489]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22489]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #22489]	growth	25 °C
[Ref.: #30634]	growth	04-30 °C
[Ref.: #30634]	optimum	25 °C
[Ref.: #67770]	growth	25 °C

	pH	Kind of pH		pH
[Ref.: #30634]			optimum	7.5
[Ref.: #30634]			growth	6.5-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30634]

Oxygen tolerance

aerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30634]		NaCl		growth	01-07	%
[Ref.: #30634]		NaCl		optimum	3	%

[Ref.: #30634]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30634]	2,3-butanediol ChEBI	+	carbon source
[Ref.: #30634]	acetate ChEBI	+	carbon source
[Ref.: #30634]	alanine ChEBI	+	carbon source
[Ref.: #30634]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30634]	citrate ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30634]	glucose ChEBI	+	carbon source
[Ref.: #30634]	glutamate ChEBI	+	carbon source
[Ref.: #30634]	glycine ChEBI	+	carbon source
[Ref.: #30634]	glycogen ChEBI	+	carbon source
[Ref.: #30634]	inosine ChEBI	+	carbon source
[Ref.: #30634]	L-alaninamide ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30634]	L-arabitol ChEBI	+	carbon source
[Ref.: #30634]	lactate ChEBI	+	carbon source
[Ref.: #30634]	malate ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30634]	mannitol ChEBI	+	carbon source
[Ref.: #30634]	mannose ChEBI	+	carbon source
[Ref.: #30634]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #30634]	proline ChEBI	+	carbon source
[Ref.: #30634]	propionate ChEBI	+	carbon source
[Ref.: #30634]	ribitol ChEBI	+	carbon source
[Ref.: #30634]	sorbitol ChEBI	+	carbon source
[Ref.: #30634]	succinate ChEBI	+	carbon source
[Ref.: #30634]	thymidine ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30634]	acid phosphatase	+	3.1.3.2
[Ref.: #30634]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #22489]	catalase	+	1.11.1.6
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #22489]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #22489]	26998	-	-	-	-	+	+	-	+/-	+	+	+	+	-	+	-	-	+/-	+	+	+	+

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

[Ref.: #22489]	Sample type/isolated from	seawater sample
[Ref.: #22489]	Geographic location (country and/or sea, region)	Damupo beach, Pohang
[Ref.: #22489]	Country	Republic of Korea
[Ref.: #22489]	Country ISO 3 Code	KOR
[Ref.: #22489]	Continent	Asia
[Ref.: #22489]	Geographic location	36.0475°/129.5860°

[Ref.: #67770]	Sample type/isolated from	Seawater at Damupo beach in Pohang
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ336489 (>99% sequence identity) for Sagittula marina subclade from Microbeatlas

Aquatic Samples	545
Soil Samples	14
Animal Samples	80
Plant Samples	10
Total Samples	649

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #22489]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #22489]	Sagittula marina strain F028-2 16S ribosomal RNA gene, partial sequence	HQ336489	1376	GenBank ENA	943940 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Sagittula marina DSM 102235	GCA_014196795	scaffold	GenBank ENA	943940 tax ID	*
[Ref.: #66792]	Sagittula marina strain DSM 102235	943940.3	wgs	PATRIC	943940 tax ID	*
[Ref.: #66792]	Sagittula marina DSM 102235	2829988960	draft	JGI IMG/M	943940 tax ID	*

[Ref.: #30634]	GC-content	61.6 mol%
[Ref.: #22489]	GC-content	61.6 mol%	thermal denaturation, midpoint method (Tm)

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: Sagittula marina DSM 102235 NCBI: GCA_014196795.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sagittula marina DSM 102235 NCBI: GCA_014196795.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.815	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.158	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	82.853	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	86.57	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.23	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	69.146	no

Availability in culture collections External links

[Ref.: #22489]

Culture collection no.

DSM 102235, JCM 17627, KCTC 23543

[Ref.: #89706]

SI-ID 401768

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sagittula salina sp. nov., isolated from marine waste.	Satari L, Molina-Menor E, Vidal-Verdu A, Pascual J, Pereto J, Porcar M	Int J Syst Evol Microbiol	10.1099/ijsem.0.005240	2022	*
Phylogeny	Sagittula marina sp. nov., isolated from seawater and emended description of the genus Sagittula.	Lee DH, Cho SJ, Kim SM, Lee SB	Int J Syst Evol Microbiol	10.1099/ijs.0.040766-0	2012	*

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 )

#22489

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102235

#30634

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 #26965 (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;

#68369

Automatically annotated from API 20NE .

#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 .

#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 )

#89706

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID401768.1 )

#26965

IJSEM 2101 2013 ( DOI 10.1099/ijs.0.040766-0 , PubMed 23087166 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Sagittula marina in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Sagittula marina DSM 102235

Sagittula marina DSM 102235

Change proposal

Change proposal