Name: Spongiibacter marinus HAL40b
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17903

Type strain:

Species: Spongiibacter marinus

Strain Designation: HAL40b

Culture col. no.: DSM 17750, CCUG 54896

Strain history: <- U. Szewzyk, TU Berlin; HAL 40b <- I. Graeber

NCBI tax ID(s): 354246 (species)

SI-ID 407655

DSM 17750, CCUG 54896

Other strains from Spongiibacter marinus

S. marinus 5IX/A0/131, 5IX/A01/131, DSM 19753, ...

Section

Spongiibacter marinus HAL40b is an aerobe, Gram-negative, motile bacterium that was isolated from marine sponge Haliclona sp. 1.

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	*Gammaproteobacteria*
	Order	*Cellvibrionales*
	Family	*Spongiibacteraceae*
	Genus	*Spongiibacter*
	Species	**Spongiibacter marinus**
	Full Scientific Name (LPSN)	Spongiibacter marinus Graeber et al. 2008

	Synonym	Neomelitea salexigens
	Synonym	Melitea salexigens

Information on morphological and physiological properties Morphology

[Ref.: #32402]	Gram stain	negative

[Ref.: #32402]	Cell length	1.5 µm

[Ref.: #32402]	Cell width	0.5 µm

[Ref.: #32402]	Cell shape	rod-shaped

[Ref.: #32402]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7168]

Culture medium

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

[Ref.: #7168]

Culture medium growth

[Ref.: #7168]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7168]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7168]	growth	20-30 °C
[Ref.: #32402]	growth	10-40 °C
[Ref.: #32402]	optimum	25 °C
[Ref.: #60373]	growth	30 °C

[Ref.: #32402]	Temperature range	mesophilic
[Ref.: #60373]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32402]			optimum	8
[Ref.: #32402]			growth	6.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32402]	Oxygen tolerance	aerobe
[Ref.: #60373]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32402]		NaCl		growth	01-07	%
[Ref.: #32402]		NaCl		optimum	3	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32402]		arabinose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #32402]	acid phosphatase	+	3.1.3.2
[Ref.: #32402]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32402]	catalase	+	1.11.1.6
[Ref.: #32402]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #7168]	Sample type/isolated from	marine sponge Haliclona sp. 1
[Ref.: #7168]	Host species	Haliclona
[Ref.: #7168]	Geographic location (country and/or sea, region)	Sula Ridge off the Norwegian coast
[Ref.: #7168]	Country	Norway
[Ref.: #7168]	Country ISO 3 Code	NOR
[Ref.: #7168]	Continent	Europe

[Ref.: #60373]	Sample type/isolated from	Demosponge haliclona sp.1
[Ref.: #60373]	Sampling date	1999-08-01
[Ref.: #60373]	Geographic location (country and/or sea, region)	Sula Ridge
[Ref.: #60373]	Country	Norway
[Ref.: #60373]	Country ISO 3 Code	NOR
[Ref.: #60373]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Host	#Invertebrates (Other)	#Porifera (Sponges)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HQ658852 (>99% sequence identity) for Spongiibacter marinus subclade from Microbeatlas

Aquatic Samples	3246
Soil Samples	77
Animal Samples	235
Plant Samples	15
Total Samples	3573

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

[Ref.: #7168]

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.: #7168]	Spongiibacter marinus partial 16S rRNA gene, strain HAL40bT	AM117932	1452	ENA	354246 tax ID
[Ref.: #20218]	Spongiibacter marinus strain DSM 17750 16S ribosomal RNA gene, partial sequence	HQ658852	1495	ENA	354246 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Spongiibacter marinus DSM 17750	GCA_016906995	scaffold	GenBank	354246 tax ID	*
[Ref.: #66792]	Spongiibacter marinus strain DSM 17750	354246.3	wgs	PATRIC	354246 tax ID	*
[Ref.: #66792]	Spongiibacter marinus DSM 17750	2861631615	draft	JGI IMG/M	354246 tax ID	*

[Ref.: #7168]

GC-content

69.1 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Spongiibacter marinus DSM 17750 NCBI: GCA_016906995.1
[Ref.: #69480]	flagellated	yes	79.333	no
[Ref.: #69480]	gram-positive	no	98.707	no
[Ref.: #69480]	anaerobic	no	97.563	no
[Ref.: #69480]	aerobic	yes	90.832	no
[Ref.: #69480]	halophile	yes	83.743	no
[Ref.: #69480]	spore-forming	no	95.37	no
[Ref.: #69480]	thermophile	no	97.885	yes
[Ref.: #69480]	glucose-util	no	51.423	no
[Ref.: #69480]	motile	yes	90.987	yes
[Ref.: #69480]	glucose-ferment	no	92.214	no

Availability in culture collections External links

[Ref.: #7168]

Culture collection no.

DSM 17750, CCUG 54896

[Ref.: #86892]

SI-ID 407655

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Spongiibacter marinus gen. nov., sp. nov., a halophilic marine bacterium isolated from the boreal sponge Haliclona sp. 1.	Graeber I, Kaesler I, Borchert MS, Dieckmann R, Pape T, Lurz R, Nielsen P, von Dohren H, Michaelis W, Szewzyk U	Int J Syst Evol Microbiol	10.1099/ijs.0.65438-0	2008	*
Phylogeny	Spongiibacter thalassae sp. nov., a marine gammaproteobacterium isolated from seawater.	Yoon J	Arch Microbiol	10.1007/s00203-022-02888-9	2022	*
Phylogeny	Description of Spongiibacter borealis sp. nov., isolated from Arctic seawater, and reclassification of Melitea salexigens Urios et al. 2008 as a later heterotypic synonym of Spongiibacter marinus Graeber et al. 2008 with emended descriptions of the genus Spongiibacter and Spongiibacter marinus.	Jang GI, Hwang CY, Choi HG, Kang SH, Cho BC	Int J Syst Evol Microbiol	10.1099/ijs.0.028795-0	2011	*
Phylogeny	Spongiibacter tropicus sp. nov., isolated from a Synechococcus culture.	Hwang CY, Cho BC	Int J Syst Evol Microbiol	10.1099/ijs.0.005819-0	2009	*

References

#7168

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17750

#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 )

#32402

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 #28626 (see below)

#60373 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54896

#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 .

#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) .

#86892

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-ID407655.1 )

#28626

IJSEM 585 2008 ( DOI 10.1099/ijs.0.65438-0 , PubMed 18319460 )

* 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 Spongiibacter marinus in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Spongiibacter marinus DSM 17750

Change proposal

Change proposal