Name: Pseudoalteromonas rubra Cerbom 18
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12681

Type strain:

Species: Pseudoalteromonas rubra

Strain Designation: Cerbom 18

Culture col. no.: DSM 6842, ATCC 29570, LMG 2876, NCIMB 1890, CIP 104110, DSM 6064

Strain history: CIP <- 1994, NCIMB <- M. Aubert, Nice, France

NCBI tax ID(s): 1117318 (strain), 43658 (species)

SI-ID 92114

LMG 2876, ATCC 29570, CCM 2933, DSM 6842, NCMB 1890, CIP 104110, NCIMB 1890, DSM 6064

Section

Pseudoalteromonas rubra Cerbom 18 is a mesophilic, Gram-negative, motile bacterium that was isolated from surface seawater.

Gram-negative
motile
rod-shaped
mesophilic
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	*Alteromonadales*
	Family	*Pseudoalteromonadaceae*
	Genus	*Pseudoalteromonas*
	Species	**Pseudoalteromonas rubra**
	Full Scientific Name (LPSN)	Pseudoalteromonas rubra (Gauthier 1976) Gauthier et al. 1995

Synonym

Alteromonas rubra

Information on morphological and physiological properties Morphology

[Ref.: #122286]	Gram stain	negative

[Ref.: #122286]	Cell shape	rod-shaped

[Ref.: #122286]	Motility	yes

Multimedia content

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Caption:

Micrograph of DSM 6842.

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Intellectual property rights:

Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

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Caption:

DSM 6842 grown on DSMZ medium 514.

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Intellectual property rights:

Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Information on culture and growth conditions Culture and growth conditions

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Culture medium

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

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

Marine agar (MA)

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Culture medium growth

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Culture medium composition

expand / minimize

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Culture medium

CIP Medium 13

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #2850]		growth	25 °C
[Ref.: #42026]		growth	22 °C
[Ref.: #122286]		growth	22-30 °C
[Ref.: #122286]	no	growth	5 °C
[Ref.: #122286]	no	growth	10 °C
[Ref.: #122286]	no	growth	41 °C

[Ref.: #2850]	Temperature range	mesophilic
[Ref.: #42026]	Temperature range	psychrophilic
[Ref.: #122286]	Temperature range	psychrophilic
[Ref.: #122286]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122286]	esculin ChEBI	-	hydrolysis
[Ref.: #122286]	nitrate ChEBI	-	reduction
[Ref.: #122286]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #122286]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #122286]		acetoin ChEBI	-
[Ref.: #122286]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #122286]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #122286]	beta-galactosidase	-	3.2.1.23
[Ref.: #122286]	caseinase	+	3.4.21.50
[Ref.: #122286]	catalase	+	1.11.1.6
[Ref.: #122286]	gelatinase	+
[Ref.: #122286]	lecithinase	-
[Ref.: #122286]	lysine decarboxylase	-	4.1.1.18
[Ref.: #122286]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #122286]	oxidase	+
[Ref.: #122286]	tryptophan deaminase	-
[Ref.: #122286]	urease	-	3.5.1.5
	Only first 10 entries are displayed. Click here to see all.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	enterobactin biosynthesis	100	3 of 3
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	ubiquinone biosynthesis	100	7 of 7
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	photosynthesis	92.86	13 of 14
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	leucine metabolism	92.31	12 of 13
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	tyrosine metabolism	85.71	12 of 14
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	glutathione metabolism	78.57	11 of 14
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	purine metabolism	74.47	70 of 94
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	histidine metabolism	68.97	20 of 29
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	lipid metabolism	61.29	19 of 31
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	polyamine pathway	60.87	14 of 23
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	gallate degradation	60	3 of 5
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
[Ref.: #66794]	non-pathway related	57.89	22 of 38
[Ref.: #66794]	lysine metabolism	54.76	23 of 42
[Ref.: #66794]	isoprenoid biosynthesis	53.85	14 of 26
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	arachidonic acid metabolism	50	9 of 18
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	sphingosine metabolism	50	3 of 6
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	oxidative phosphorylation	43.96	40 of 91
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	carotenoid biosynthesis	40.91	9 of 22
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	4-hydroxyphenylacetate degradation	40	4 of 10
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	degradation of pentoses	39.29	11 of 28
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	degradation of sugar alcohols	37.5	6 of 16
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	phenol degradation	35	7 of 20
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	methane metabolism	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	vitamin B12 metabolism	32.35	11 of 34
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	reductive acetyl coenzyme A pathway	28.57	2 of 7
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	degradation of sugar acids	24	6 of 25
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #2850]	Sample type/isolated from	surface seawater
[Ref.: #2850]	Geographic location (country and/or sea, region)	Mediterranean Sea near Nice
[Ref.: #2850]	Country	France
[Ref.: #2850]	Country ISO 3 Code	FRA
[Ref.: #2850]	Continent	Europe

[Ref.: #122286]	Sample type/isolated from	Environment, Seawater
[Ref.: #122286]	Geographic location (country and/or sea, region)	Nice
[Ref.: #122286]	Country	France
[Ref.: #122286]	Country ISO 3 Code	FRA
[Ref.: #122286]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Surface water

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X82147 (>99% sequence identity) for Pseudoalteromonas from Microbeatlas

Aquatic Samples	2485
Soil Samples	55
Animal Samples	574
Plant Samples	64
Total Samples	3178

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

[Ref.: #2850]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122286]	Biosafety level	1	Risk group (French classification)

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.: #2850]	A.rubra 16S rRNA gene (ATCC 29570T)	X82147	1426	ENA	1117318 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudoalteromonas rubra DSM 6842	GCA_000238295	chromosome	GenBank	43658 tax ID	*
[Ref.: #66792]	Pseudoalteromonas rubra ATCC 29570	1117318.14	wgs	PATRIC	1117318 tax ID	*
[Ref.: #66792]	Pseudoalteromonas rubra ATCC 29570	2541047006	draft	JGI IMG/M	1117318 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudoalteromonas rubra DSM 6842 NCBI: GCA_000238295.3
[Ref.: #69480]	motile	yes	89.926	no
[Ref.: #69480]	flagellated	yes	90.39	no
[Ref.: #69480]	gram-positive	no	98.945	no
[Ref.: #69480]	anaerobic	no	94.647	no
[Ref.: #69480]	aerobic	yes	78.27	no
[Ref.: #69480]	halophile	no	55.27	no
[Ref.: #69480]	spore-forming	no	92.679	no
[Ref.: #69480]	thermophile	no	99.596	no
[Ref.: #69480]	glucose-util	yes	89.962	no
[Ref.: #69480]	glucose-ferment	no	72.304	no
[Ref.: #69480]	motile	yes	89.926	no
[Ref.: #69480]	flagellated	yes	90.39	no
[Ref.: #69480]	gram-positive	no	98.945	no
[Ref.: #69480]	anaerobic	no	94.647	no
[Ref.: #69480]	aerobic	yes	78.27	no
[Ref.: #69480]	halophile	no	55.27	no
[Ref.: #69480]	spore-forming	no	92.679	no
[Ref.: #69480]	glucose-util	yes	89.962	no
[Ref.: #69480]	thermophile	no	99.596	no
[Ref.: #69480]	glucose-ferment	no	72.304	no

Availability in culture collections External links

[Ref.: #2850]

Culture collection no.

DSM 6842, ATCC 29570, LMG 2876, NCIMB 1890, CIP 104110, DSM 6064

[Ref.: #81892]

SI-ID 92114

Literature:

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Novel Salt-Tolerant Leucine Dehydrogenase from Marine Pseudoalteromonas rubra DSM 6842.	Chen R, Liao YT, Gao TT, Zhang YM, Lu LH, Wang CH	Mol Biotechnol	10.1007/s12033-022-00505-0	2022	*
Genetics	Genome sequence of the cycloprodigiosin-producing bacterial strain Pseudoalteromonas rubra ATCC 29570(T).	Xie BB, Shu YL, Qin QL, Rong JC, Zhang XY, Chen XL, Zhou BC, Zhang YZ	J Bacteriol	10.1128/JB.06822-11	2012	*
Genetics	Structure of a polysaccharide from the lipopolysaccharides of Vibrio vulnificus strains CECT 5198 and S3-I2-36, which is remarkably similar to the O-polysaccharide of Pseudoalteromonas rubra ATCC 29570.	Shashkov AS, Senchenkova SN, Chizhov AO, Knirel YA, Esteve C, Alcaide E, Merino S, Tomas JM	Carbohydr Res	10.1016/j.carres.2009.06.035	2009	*
Genetics	The structure of the O-polysaccharide of the Pseudoalteromonas rubra ATCC 29570T lipopolysaccharide containing a keto sugar.	Kilcoyne M, Shashkov AS, Knirel YA, Gorshkova RP, Nazarenko EL, Ivanova EP, Gorshkova NM, Senchenkova SN, Savage AV	Carbohydr Res	10.1016/j.carres.2005.07.007	2005	*
Phylogeny	Pseudoalteromonas bacteriolytica sp. nov., a marine bacterium that is the causative agent of red spot disease of Laminaria japonica.	Sawabe T, Makino H, Tatsumi M, Nakano K, Tajima K, Iqbal MM, Yumoto I, Ezura Y, Christen R	Int J Syst Bacteriol	10.1099/00207713-48-3-769	1998	*

References

#2850

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 6842

#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 )

#42026 ; Curators of the CIP;

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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) .

#81892

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-ID92114.1 )

#122286 Collection of Institut Pasteur ; Curators of the CIP; CIP 104110
* These data were automatically processed and therefore are not curated

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Pseudoalteromonas rubra DSM 6842

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