Name: Algoriphagus chordae CIP 108556
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17705

Type strain:

Species: Algoriphagus chordae

Culture col. no.: CIP 108556, DSM 19830, CCUG 47095, KMM 3957, LMG 21970

Strain history: CIP <- 2004, CCUG <- 2002, KMM

NCBI tax ID(s): 237019 (species)

SI-ID 93523

LMG 21970, CCUG 47095, CIP 108556, DSM 19830

Section

Algoriphagus chordae CIP 108556 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from brown alga Chorda filum.

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	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Cytophagia*
	Order	*Cytophagales*
	Family	*Cyclobacteriaceae*
	Genus	*Algoriphagus*
	Species	**Algoriphagus chordae**
	Full Scientific Name (LPSN)	Algoriphagus chordae Nedashkovskaya et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #30078]	Gram stain	negative
[Ref.: #118256]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.981

[Ref.: #30078]	Cell length	6 µm

[Ref.: #30078]	Cell width	0.6 µm

[Ref.: #30078]	Cell shape	rod-shaped
[Ref.: #118256]	Cell shape	rod-shaped

[Ref.: #30078]	Motility	no
[Ref.: #118256]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %92.673

[Ref.: #30078]	Pigment production	yes
[Ref.: #118256]	Pigment production	no
[Ref.: #118256]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8339]

Culture medium

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

[Ref.: #8339]

Culture medium growth

[Ref.: #8339]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8339]

Culture medium composition

expand / minimize

[Ref.: #40016]

Culture medium

Marine agar (MA)

[Ref.: #40016]

Culture medium growth

[Ref.: #40016]

Culture medium composition

expand / minimize

[Ref.: #118256]

Culture medium

CIP Medium 13

[Ref.: #118256]

Culture medium growth

[Ref.: #118256]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #8339]		growth	25 °C
[Ref.: #30078]		growth	04-32 °C
[Ref.: #30078]		optimum	24 °C
[Ref.: #40016]		growth	25 °C
[Ref.: #57506]		growth	25-28 °C
[Ref.: #118256]	no	growth	41 °C
[Ref.: #118256]	no	growth	37 °C
[Ref.: #118256]	no	growth	5 °C
[Ref.: #118256]		growth	15-30 °C
[Ref.: #118256]	no	growth	45 °C

[Ref.: #8339]	Temperature range	mesophilic
[Ref.: #30078]	Temperature range	psychrophilic
[Ref.: #40016]	Temperature range	mesophilic
[Ref.: #57506]	Temperature range	mesophilic
[Ref.: #118256]	Temperature range	thermophilic
[Ref.: #118256]	Temperature range	mesophilic
[Ref.: #118256]	Temperature range	psychrophilic
[Ref.: #118256]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30078]	Oxygen tolerance	aerobe
[Ref.: #57506]	Oxygen tolerance	aerobe
[Ref.: #118256]	Oxygen tolerance	facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.905

	Salt	Tested relation		Salt conc.
[Ref.: #30078]	NaCl		growth	01-10	%
[Ref.: #30078]	NaCl		optimum	5.5	%
[Ref.: #118256]	NaCl		growth	2-10	%
[Ref.: #118256]	NaCl	no	growth	0	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30078]	arabinose ChEBI	+	carbon source
[Ref.: #30078]	cellobiose ChEBI	+	carbon source
[Ref.: #118256]	esculin ChEBI	+	hydrolysis
[Ref.: #30078]	fucose ChEBI	+	carbon source
[Ref.: #30078]	galactose ChEBI	+	carbon source
[Ref.: #30078]	glucose ChEBI	+	carbon source
[Ref.: #118256]	hippurate ChEBI	+	hydrolysis
[Ref.: #30078]	lactose ChEBI	+	carbon source
[Ref.: #118256]	malonate ChEBI	-	assimilation
[Ref.: #30078]	maltose ChEBI	+	carbon source
[Ref.: #30078]	mannose ChEBI	+	carbon source
[Ref.: #30078]	melibiose ChEBI	+	carbon source
[Ref.: #118256]	nitrate ChEBI	-	reduction
[Ref.: #118256]	nitrite ChEBI	-	reduction
[Ref.: #30078]	raffinose ChEBI	+	carbon source
[Ref.: #30078]	rhamnose ChEBI	+	carbon source
[Ref.: #30078]	sucrose ChEBI	+	carbon source
[Ref.: #30078]	tween 20 ChEBI	+	carbon source
[Ref.: #30078]	tween 40 ChEBI	+	carbon source
[Ref.: #30078]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #118256]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #118256]		acetoin ChEBI	-
[Ref.: #118256]		glucose ChEBI		+

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #118256]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #30078]	alkaline phosphatase	+	3.1.3.1
[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.: #118256]	amylase	-
[Ref.: #118256]	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.: #118256]	caseinase	+	3.4.21.50
[Ref.: #30078]	catalase	+	1.11.1.6
[Ref.: #118256]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #30078]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #118256]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #118256]	gelatinase	-
[Ref.: #118256]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #118256]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #118256]	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.: #118256]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #118256]	oxidase	-
[Ref.: #118256]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #118256]	tryptophan deaminase	-
[Ref.: #118256]	tween esterase	+
[Ref.: #118256]	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.: #118256]	11280	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-

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

[Ref.: #8339]	Sample type/isolated from	brown alga Chorda filum
[Ref.: #8339]	Host species	Chorda filum
[Ref.: #8339]	Geographic location (country and/or sea, region)	Sea of Japan, Gulf of Peter the Great, Troitsa Bay
[Ref.: #8339]	Continent	Asia

[Ref.: #57506]	Sample type/isolated from	Brown alga,Chorda filum
[Ref.: #57506]	Sampling date	2000-06-01
[Ref.: #57506]	Geographic location (country and/or sea, region)	Sea of Japan
[Ref.: #57506]	Country	Pacific Ocean

[Ref.: #118256]	Sample type/isolated from	Brown alga, Chorda filum
[Ref.: #118256]	Geographic location (country and/or sea, region)	Pacific Ocean
[Ref.: #118256]	Country	Sea of Japan
[Ref.: #118256]	Isolation date	2000
* marker position based on {}

Isolation sources categories

#Host

#Algae

#Brown 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.: #8339]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118256]	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.: #8339]	Rhodovirga chordae 16S rRNA gene, strain LMG 21970	AJ575265	1473	ENA	237019 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Algoriphagus chordae DSM 19830	GCA_003254055	scaffold	GenBank	237019 tax ID	*
[Ref.: #66792]	Algoriphagus chordae strain DSM 19830	237019.4	wgs	PATRIC	237019 tax ID	*
[Ref.: #66792]	Algoriphagus chordae DSM 19830	2593339285	draft	JGI IMG/M	237019 tax ID	*

[Ref.: #30078]

GC-content

38.5 mol%

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 chordae DSM 19830 NCBI: GCA_003254055.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Algoriphagus chordae DSM 19830 NCBI: GCA_003254055.1
[Ref.: #69480]	flagellated	no	97.839	yes
[Ref.: #69480]	gram-positive	no	97.539	no
[Ref.: #69480]	anaerobic	no	99.041	yes
[Ref.: #69480]	halophile	no	55.288	yes
[Ref.: #69480]	spore-forming	no	94.435	no
[Ref.: #69480]	aerobic	yes	90.463	yes
[Ref.: #69480]	glucose-util	yes	90.107	yes
[Ref.: #69480]	thermophile	no	98.791	yes
[Ref.: #69480]	motile	no	91.442	yes
[Ref.: #69480]	glucose-ferment	no	90.555	no

Availability in culture collections External links

[Ref.: #8339]

Culture collection no.

CIP 108556, DSM 19830, CCUG 47095, KMM 3957, LMG 21970

[Ref.: #86696]

SI-ID 93523

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

#8339

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19830

#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 )

#30078

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 #26435 (see below)

#40016 ; Curators of the CIP;
#57506 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47095

#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 )

#86696

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-ID93523.1 )

#118256 Collection of Institut Pasteur ; Curators of the CIP; CIP 108556

#26435

IJSEM 1757 2004 ( DOI 10.1099/ijs.0.02915-0 , PubMed 15388741 )

* These data were automatically processed and therefore are not curated

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Algoriphagus chordae DSM 19830

Algoriphagus chordae DSM 19830

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