Name: Algoriphagus ratkowskyi IC025
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17703

Type strain:

Species: Algoriphagus ratkowskyi

Strain Designation: IC025

Culture col. no.: DSM 22686, ACAM 646, CIP 107452, LMG 21435

Strain history: CIP <- 2002, J. Bowman, Tasmania Univ., Tasmania, Australia: strain IC025

NCBI tax ID(s): 57028 (species)

SI-ID 86445

LMG 21435, CIP 107452

Section

Algoriphagus ratkowskyi IC025 is a mesophilic bacterium that was isolated from sea-ice algal assemblage.

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	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Cyclobacteriaceae*
	Genus	*Algoriphagus*
	Species	**Algoriphagus ratkowskyi**
	Full Scientific Name (LPSN)	Algoriphagus ratkowskyi Bowman et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #122142]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.983

[Ref.: #122142]	Cell shape	rod-shaped

[Ref.: #122142]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.765

Information on culture and growth conditions Culture and growth conditions

[Ref.: #16463]

Culture medium

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

[Ref.: #16463]

Culture medium growth

[Ref.: #16463]

Culture medium link

Medium recipe at MediaDive

[Ref.: #16463]

Culture medium composition

expand / minimize

[Ref.: #33800]

Culture medium

Marine agar (MA)

[Ref.: #33800]

Culture medium growth

[Ref.: #33800]

Culture medium composition

expand / minimize

[Ref.: #122142]

Culture medium

CIP Medium 13

[Ref.: #122142]

Culture medium growth

[Ref.: #122142]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #16463]		growth	28 °C
[Ref.: #33800]		growth	10 °C
[Ref.: #122142]		growth	10 °C
[Ref.: #122142]	no	growth	25 °C
[Ref.: #122142]	no	growth	30 °C
[Ref.: #122142]	no	growth	37 °C
[Ref.: #122142]	no	growth	41 °C
[Ref.: #122142]	no	growth	45 °C

[Ref.: #16463]	Temperature range	mesophilic
[Ref.: #33800]	Temperature range	psychrophilic
[Ref.: #122142]	Temperature range	psychrophilic
[Ref.: #122142]	Temperature range	mesophilic
[Ref.: #122142]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #122142]		NaCl		growth	0-8	%
[Ref.: #122142]		NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #122142]	citrate ChEBI	-	carbon source
[Ref.: #122142]	esculin ChEBI	+	hydrolysis
[Ref.: #122142]	hippurate ChEBI	+	hydrolysis
[Ref.: #122142]	nitrate ChEBI	-	reduction
[Ref.: #122142]	nitrate ChEBI	-	respiration
[Ref.: #122142]	nitrite ChEBI	+	reduction

	Metabolite production	Metabolite	Production
[Ref.: #122142]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #122142]		acetoin ChEBI	-
[Ref.: #122142]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #122142]	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.: #122142]	amylase	-
[Ref.: #122142]	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.: #122142]	caseinase	+	3.4.21.50
[Ref.: #122142]	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.: #122142]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #122142]	gelatinase	+/-
[Ref.: #122142]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #122142]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #122142]	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.: #122142]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #122142]	oxidase	+
[Ref.: #122142]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #122142]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #122142]	tryptophan deaminase	-
[Ref.: #122142]	tween esterase	+
[Ref.: #122142]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #122142]	2216	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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.: #122142]	10362	-	+	+	+	-	+	+	-	-	+	+	+	+	+	-	-	+	+	+	-

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

[Ref.: #16463]	Sample type/isolated from	sea-ice algal assemblage
[Ref.: #16463]	Geographic location (country and/or sea, region)	Prdyz Bay
[Ref.: #16463]	Continent	Australia and Oceania

[Ref.: #122142]	Sample type/isolated from	Environment, Sea ice
[Ref.: #122142]	Country	Antarctica
[Ref.: #122142]	Country ISO 3 Code	ATA
[Ref.: #122142]	Continent	Antarctica
[Ref.: #122142]	Isolation date	1996
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Ice
#Environmental	#Aquatic	#Marine
#Host	#Algae	-

What are isolation sources categories?

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

[Ref.: #16463]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122142]	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.: #16463]	Algoriphagus ratkowskyi 16S rRNA gene, type strain LMG 21435	AJ608641	1436	ENA	57028 tax ID
[Ref.: #16463]	Marine psychrophile IC025 16S ribosomal RNA gene, partial sequence	U85891	1484	ENA	57028 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Algoriphagus ratkowskyi DSM 22686	GCA_003254355	scaffold	GenBank	57028 tax ID	*
[Ref.: #66792]	Algoriphagus ratkowskyi DSM 22686	GCA_002150505	contig	GenBank	57028 tax ID	*
[Ref.: #66792]	Algoriphagus ratkowskyi strain DSM 22686	57028.4	wgs	PATRIC	57028 tax ID	*
[Ref.: #66792]	Algoriphagus ratkowskyi strain DSM 22686	57028.6	wgs	PATRIC	57028 tax ID	*
[Ref.: #66792]	Algoriphagus ratkowskyi DSM 22686	2593339288	draft	JGI IMG/M	57028 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Algoriphagus ratkowskyi DSM 22686 NCBI: GCA_003254355.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Algoriphagus ratkowskyi DSM 22686 NCBI: GCA_003254355.1
[Ref.: #69480]	flagellated	no	97.47	no
[Ref.: #69480]	gram-positive	no	98.123	no
[Ref.: #69480]	anaerobic	no	98.888	no
[Ref.: #69480]	halophile	no	65.758	no
[Ref.: #69480]	spore-forming	no	95.568	no
[Ref.: #69480]	aerobic	yes	90.134	no
[Ref.: #69480]	glucose-util	yes	89.273	no
[Ref.: #69480]	thermophile	no	99.11	no
[Ref.: #69480]	motile	no	91.106	no
[Ref.: #69480]	glucose-ferment	no	91.344	no

Availability in culture collections External links

[Ref.: #16463]

Culture collection no.

DSM 22686, ACAM 646, CIP 107452, LMG 21435

[Ref.: #86694]

SI-ID 86445

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Description of Algoriphagus aquimarinus sp. nov., Algoriphagus chordae sp. nov. and Algoriphagus winogradskyi sp. nov., from sea water and algae, transfer of Hongiella halophila Yi and Chun 2004 to the genus Algoriphagus as Algoriphagus halophilus comb. nov. and emended descriptions of the genera Algoriphagus Bowman et al. 2003 and Hongiella Yi and Chun 2004.	Nedashkovskaya OI, Vancanneyt M, Van Trappen S, Vandemeulebroecke K, Lysenko AM, Rohde M, Falsen E, Frolova GM, Mikhailov VV, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.02915-0	2004	*

References

#16463

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22686

#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 )

#33800 ; 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) .

#68382

Automatically annotated from API zym .

#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 )

#86694

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-ID86445.1 )

#122142 Collection of Institut Pasteur ; Curators of the CIP; CIP 107452
* These data were automatically processed and therefore are not curated

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Algoriphagus ratkowskyi DSM 22686

Algoriphagus ratkowskyi DSM 22686

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