Name: Zobellia uliginosa 553 (843)
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5664

Type strain:

Species: Zobellia uliginosa

Strain Designation: 553 (843)

Culture col. no.: DSM 2061, ATCC 14397, IAM 14312, IFO 14962, NBRC 14962, NCMB 1863, JCM 21152, ACAM 538, CCUG 33448, CECT 4277, CIP 104808, LMG 3809, NCIMB 1863

Strain history: CIP <- 1996, IFO <- ATCC <- C.E. ZoBell: strain 553, Flavobacterium uliginosum

NCBI tax ID(s): 143224 (species)

SI-ID 2837

LMG 3809, ATCC 14397, DSM 2061, NCMB 1863, CECT 4277, IAM 14312, IFO 14962, CIP 104808, CCUG 33448, NCIMB 1863, KCTC 2916, CCUG 47100, NBRC 14962, JCM 21152

Special Collections

Section

Zobellia uliginosa 553 is a Gram-negative bacterium that was isolated from seawater.

Gram-negative
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Zobellia*
	Species	**Zobellia uliginosa**
	Full Scientific Name (LPSN)	Zobellia uliginosa (ZoBell and Upham 1944) Barbeyron et al. 2001

	Synonym	Flavobacterium uliginosum
	Synonym	Cellulophaga uliginosa
	Synonym	Cytophaga uliginosa

Information on morphological and physiological properties Morphology

[Ref.: #123712]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99

[Ref.: #123712]	Cell shape	rod-shaped

[Ref.: #123712]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92.25

Information on culture and growth conditions Culture and growth conditions

[Ref.: #697]

Culture medium

SEAWATER YEAST PEPTONE AGAR (DSMZ Medium 243)

[Ref.: #697]

Culture medium growth

[Ref.: #697]

Culture medium link

Medium recipe at MediaDive

[Ref.: #697]

Culture medium composition

expand / minimize

[Ref.: #37581]

Culture medium

MEDIUM 167 - for Cytophaga uliginosa, Demetria terragena and Marinococcus al bus

[Ref.: #37581]

Culture medium growth

[Ref.: #37581]

Culture medium composition

expand / minimize

[Ref.: #123712]

Culture medium

CIP Medium 167

[Ref.: #123712]

Culture medium growth

[Ref.: #123712]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #123712]

Culture medium

CIP Medium 234

[Ref.: #123712]

Culture medium growth

[Ref.: #123712]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #697]		growth	26 °C
[Ref.: #37581]		growth	25 °C
[Ref.: #67770]		growth	25 °C
[Ref.: #123712]		growth	15-37 °C
[Ref.: #123712]	no	growth	5 °C
[Ref.: #123712]	no	growth	41 °C
[Ref.: #123712]	no	growth	45 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %90.265

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #123712]	esculin ChEBI	-	hydrolysis
[Ref.: #123712]	hippurate ChEBI	-	hydrolysis
[Ref.: #123712]	nitrate ChEBI	+	reduction
[Ref.: #123712]	nitrite ChEBI	-	reduction

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #123712]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #123712]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123712]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123712]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123712]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123712]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #123712]	gelatinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #123712]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123712]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123712]	oxidase	+
[Ref.: #123712]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123712]	tryptophan deaminase	-
[Ref.: #123712]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123712]	8215	-	+	+	+	-	+	+	-	+	-	+	+	+	+	-	+	-	+	-	-

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

[Ref.: #697]	Sample type/isolated from	seawater

[Ref.: #67770]	Sample type/isolated from	Marine bottom sediment
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB680724 (>99% sequence identity) for Zobellia from Microbeatlas

Aquatic Samples	434
Soil Samples	69
Animal Samples	18
Plant Samples	8
Total Samples	529

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

[Ref.: #697]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123712]	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.: #697]	Zobellia uliginosa strain ATCC 14397 16S ribosomal RNA gene, partial sequence	M62799	1527	GenBank ENA	143224 tax ID
[Ref.: #20218]	Zobellia uliginosa gene for 16S rRNA, partial sequence, strain: NBRC 14962	AB680724	1449	GenBank ENA	143224 tax ID	*
[Ref.: #124043]	Zobellia uliginosa gene for 16S ribosomal RNA, partial sequence, strain: NCIMB 1863.	D12674	1260	GenBank ENA	143224 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Zobellia uliginosa DSM 2061	GCA_900156625	contig	GenBank ENA	143224 tax ID	*
[Ref.: #66792]	Zobellia uliginosa strain DSM 2061	143224.8	wgs	PATRIC	143224 tax ID	*
[Ref.: #66792]	Zobellia uliginosa DSM 2061	2681813510	draft	JGI IMG/M	143224 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Zobellia uliginosa strain DSM 2061 PATRIC: 143224.8
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.159	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.265	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	84.709	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	98.958	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	92.25	no

Availability in culture collections External links

[Ref.: #697]

Culture collection no.

DSM 2061, ATCC 14397, IAM 14312, IFO 14962, NBRC 14962, NCMB 1863, JCM 21152, ACAM 538, CCUG 33448, CECT 4277, CIP 104808, LMG 3809, NCIMB 1863

[Ref.: #75146]

SI-ID 2837

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Zobellia galactanovorans gen. nov., sp. nov., a marine species of Flavobacteriaceae isolated from a red alga, and classification of [Cytophaga] uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Zobellia uliginosa gen. nov., comb. nov.	Barbeyron T, L'Haridon S, Corre E, Kloareg B, Potin P	Int J Syst Evol Microbiol	10.1099/00207713-51-3-985	2001	*

References

#697	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2061

#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 )

#37581 ; 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) .

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

#68382

Automatically annotated from API zym .

#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) .

#75146

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-ID2837.1 )

#123712 Collection of Institut Pasteur ; Curators of the CIP; CIP 104808

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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Zobellia uliginosa strain DSM 2061

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