Name: Flavobacterium pectinovorum 81
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5528

Type strain:

Species: Flavobacterium pectinovorum

Strain Designation: 81

Culture col. no.: DSM 6368, ATCC 19366, IAM 14307, NCIB 9059, Dorey 81, Cy p1, JCM 8518, CIP 104742, IFO 15945, LMG 4031, LMG 8366, NBRC 15945, NCIMB 9059, VKM B-1171

Strain history: CIP <- 1996, J.F. Bernardet, INRA, Jouy en Josas, France <- NCIMB <- B.C.J.G. Knight <- M.J. Dorey: strain 81

NCBI tax ID(s): 29533 (species)

SI-ID 2150

LMG 4031, ATCC 19366, DSM 6368, IAM 14307, LMG 8366, NCIMB 9059, NCIB 9059, CIP 104742, JCM 8518, IFO 15945, VKM B-1171, NBRC 15945, CCUG 58916

Section

Flavobacterium pectinovorum 81 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from soil.

colony-forming
Gram-negative
motile
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	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium pectinovorum**
	Full Scientific Name (LPSN)	Flavobacterium pectinovorum (Reichenbach 1989 ex Dorey 1959) Bernardet et al. 1996

Synonym

Cytophaga pectinovora

Information on morphological and physiological properties Morphology

[Ref.: #43347]	Gram stain	negative
[Ref.: #121645]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.991

[Ref.: #43347]	Cell length	1-5 µm

[Ref.: #43347]	Cell width	0.4-0.5 µm

[Ref.: #43347]	Cell shape	rod-shaped
[Ref.: #121645]	Cell shape	rod-shaped

[Ref.: #43347]	Motility	yes
[Ref.: #121645]	Motility	no

[Ref.: #43347]	Flagellum arrangement	gliding

[Ref.: #43347]	Colony color	bright yellow
[Ref.: #43347]	Colony shape	circular

[Ref.: #43347]	Pigment production	yes
[Ref.: #43347]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #2624]

Culture medium

CY-AGAR (DSMZ Medium 67)

[Ref.: #2624]

Culture medium growth

[Ref.: #2624]

Culture medium link

Medium recipe at MediaDive

[Ref.: #2624]

Culture medium composition

expand / minimize

[Ref.: #35237]

Culture medium

MEDIUM 3 - Columbia agar

[Ref.: #35237]

Culture medium growth

[Ref.: #35237]

Culture medium composition

expand / minimize

[Ref.: #43347]

Culture medium

Nutrient agar (NA)

[Ref.: #43347]

Culture medium growth

[Ref.: #43347]

Culture medium

TSA (Tryptic Soy Agar)

[Ref.: #43347]

Culture medium growth

[Ref.: #121645]

Culture medium

CIP Medium 3

[Ref.: #121645]

Culture medium growth

[Ref.: #121645]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #121645]

Culture medium

CIP Medium 72

[Ref.: #121645]

Culture medium growth

[Ref.: #121645]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #43347]

Culture medium

Marine agar (MA)

[Ref.: #43347]

Culture medium growth

	Kind of temperature		Temperature
[Ref.: #2624]		growth	25-30 °C
[Ref.: #35237]		growth	22 °C
[Ref.: #67770]		growth	25 °C
[Ref.: #121645]		growth	10-30 °C
[Ref.: #121645]	no	growth	37 °C
[Ref.: #121645]	no	growth	41 °C

[Ref.: #2624]	Temperature range	mesophilic
[Ref.: #35237]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #121645]	Temperature range	mesophilic
[Ref.: #121645]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43347]	Oxygen tolerance	aerobe
[Ref.: #121645]	Oxygen tolerance	obligate aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

	Salt	Tested relation		Salt conc.
[Ref.: #121645]	NaCl		growth	0-2	%
[Ref.: #121645]	NaCl	no	growth	4	%
[Ref.: #121645]	NaCl	no	growth	6	%
[Ref.: #121645]	NaCl	no	growth	8	%
[Ref.: #121645]	NaCl	no	growth	10	%

[Ref.: #67770]

Observation

quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43347]	agar ChEBI	-	degradation
[Ref.: #43347]	alginate ChEBI	+	degradation
[Ref.: #43347]	ammonium ChEBI	+	nitrogen source
[Ref.: #43347]	arabinose ChEBI	+	assimilation
[Ref.: #43347]	carboxymethylcellulose ChEBI	+	degradation
[Ref.: #43347]	casamino acids	+	nitrogen source
[Ref.: #43347]	casein	+	degradation
[Ref.: #43347]	cellobiose ChEBI	+	assimilation
[Ref.: #43347]	chitin ChEBI	+	degradation
[Ref.: #43347]	dna ChEBI	+	degradation
[Ref.: #43347]	esculin ChEBI	+	degradation
[Ref.: #121645]	esculin ChEBI	+	hydrolysis
[Ref.: #43347]	gelatin ChEBI	+	degradation
[Ref.: #43347]	glucose ChEBI	+	assimilation
[Ref.: #43347]	glycerol ChEBI	-	assimilation
[Ref.: #43347]	inulin ChEBI	+	assimilation
[Ref.: #43347]	lactose ChEBI	+	assimilation
[Ref.: #43347]	maltose ChEBI	+	assimilation
[Ref.: #43347]	mannitol ChEBI	-	assimilation
[Ref.: #43347]	nitrate ChEBI	+	nitrogen source
[Ref.: #43347]	nitrate ChEBI	+	reduction
[Ref.: #121645]	nitrate ChEBI	+	reduction
[Ref.: #121645]	nitrite ChEBI	-	reduction
[Ref.: #43347]	pectin ChEBI	+	assimilation
[Ref.: #43347]	pectin ChEBI	+	degradation
[Ref.: #43347]	peptone	+	nitrogen source
[Ref.: #43347]	salicin ChEBI	-	assimilation
[Ref.: #121645]	sodium thiosulfate ChEBI	-	builds gas from
[Ref.: #43347]	starch ChEBI	+	degradation
[Ref.: #43347]	sucrose ChEBI	+	assimilation
[Ref.: #43347]	tween 20 ChEBI	+	degradation
[Ref.: #43347]	tween 40 ChEBI	+	degradation
[Ref.: #43347]	tween 60 ChEBI	+	degradation
[Ref.: #43347]	tween 80 ChEBI	+	degradation
[Ref.: #43347]	tyrosine ChEBI	+	degradation
[Ref.: #43347]	urea ChEBI	-	degradation
[Ref.: #43347]	xylose ChEBI	+	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #121645]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite	Production
[Ref.: #43347]	hydrogen sulfide ChEBI	no
[Ref.: #43347]	indole ChEBI	no
[Ref.: #121645]	indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #121645]	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.: #43347]	beta-galactosidase	+	3.2.1.23
[Ref.: #121645]	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.: #121645]	caseinase	-	3.4.21.50
[Ref.: #43347]	catalase	+/-	1.11.1.6
[Ref.: #121645]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #43347]	cytochrome oxidase	+/-	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #121645]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #121645]	gelatinase	+
[Ref.: #121645]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #121645]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #121645]	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.: #121645]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #121645]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #121645]	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.: #121645]	798	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.: #121645]	8163	-	+	+	+	-	+	+	+	-	-	+	+	-	+	+	+	+	+	-	-

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

[Ref.: #2624]	Sample type/isolated from	soil

[Ref.: #67770]	Sample type/isolated from	Soil

[Ref.: #121645]	Sample type/isolated from	Environment, Soil
[Ref.: #121645]	Geographic location (country and/or sea, region)	Thames valley, England
[Ref.: #121645]	Country	United Kingdom
[Ref.: #121645]	Country ISO 3 Code	GBR
[Ref.: #121645]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

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

[Ref.: #2624]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121645]	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.: #2624]	Flavobacterium pectinovorum gene for 16S rRNA, partial sequence, strain: NBRC 15945	AB681003	1439	ENA	29533 tax ID
[Ref.: #43347]	16S rRNA gene sequence	D12669		GenBank
[Ref.: #2624]	Flavobacterium pectinovorum partial 16S rRNA gene, type strain DSM 6368	AM230490	1550	ENA	29533 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Flavobacterium pectinovorum DSM 6368	GCA_900142715	scaffold	GenBank	29533 tax ID
[Ref.: #67770]	Flavobacterium pectinovorum ATCC 19366	GCA_002217365	scaffold	GenBank	29533 tax ID
[Ref.: #66792]	Flavobacterium pectinovorum strain ATCC 19366	29533.5	wgs	PATRIC	29533 tax ID	*
[Ref.: #66792]	Flavobacterium pectinovorum strain DSM 6368	29533.3	wgs	PATRIC	29533 tax ID	*
[Ref.: #66792]	Flavobacterium pectinovorum DSM 6368	2698536748	draft	JGI IMG/M	29533 tax ID	*

[Ref.: #2624]	GC-content	35.5 mol%
[Ref.: #2624]	GC-content	34.0 mol%
[Ref.: #43347]	GC-content	34-35.5 mol%	Buoyant density centrifugation (BD)
[Ref.: #43347]	GC-content	34-35.5 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	34 mol%	Buoyant density centrifugation (BD)

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: Flavobacterium pectinovorum DSM 6368 NCBI: GCA_900142715.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium pectinovorum strain ATCC 19366 PATRIC: 29533.5
[Ref.: #69480]	gram-positive	no	98.45	yes
[Ref.: #69480]	anaerobic	no	99.779	no
[Ref.: #69480]	halophile	no	95.812	no
[Ref.: #69480]	spore-forming	no	93.141	no
[Ref.: #69480]	glucose-util	yes	91.853	yes
[Ref.: #69480]	motile	no	84.707	no
[Ref.: #69480]	flagellated	no	94.295	no
[Ref.: #69480]	thermophile	no	99.646	no
[Ref.: #69480]	aerobic	yes	91.354	no
[Ref.: #69480]	glucose-ferment	no	88.892	no

Availability in culture collections External links

[Ref.: #2624]

Culture collection no.

DSM 6368, ATCC 19366, IAM 14307, NCIB 9059, Dorey 81, Cy p1, JCM 8518, CIP 104742, IFO 15945, LMG 4031, LMG 8366, NBRC 15945, NCIMB 9059, VKM B-1171

[Ref.: #75011]

SI-ID 2150

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium quisquiliarum sp. nov., isolated from activated sludge.	Zhang B, Liu ZQ, Zheng YG	Int J Syst Evol Microbiol	10.1099/ijsem.0.002230	2017	*
Phylogeny	Flavobacterium paronense sp. nov., isolated from freshwater of an artificial vegetated island.	Joung Y, Kang H, Kim H, Kim TS, Han JH, Kim SB, Ahn TS, Joh K	Int J Syst Evol Microbiol	10.1099/ijsem.0.000727	2015	*
Phylogeny	Flavobacterium maotaiense sp. nov., isolated from freshwater.	Feng Q, Gao Y, Nogi Y, Tan X, Han L, Zhang Y, Lv J	Int J Syst Evol Microbiol	10.1099/ijs.0.064139-0	2014	*
Phylogeny	Flavobacterium plurextorum sp. nov. Isolated from Farmed Rainbow Trout (Oncorhynchus mykiss).	Zamora L, Fernandez-Garayzabal JF, Sanchez-Porro C, Palacios MA, Moore ER, Dominguez L, Ventosa A, Vela AI	PLoS One	10.1371/journal.pone.0067741	2013	*

References

#2624

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 6368

#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 )

#35237 ; Curators of the CIP;

#43347

; 4: 145 - 176 ISBN 978 ( DOI 10.1007/978-0-387-68572-4 )

#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 .

#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 )

#75011

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-ID2150.1 )

#121645 Collection of Institut Pasteur ; Curators of the CIP; CIP 104742
* These data were automatically processed and therefore are not curated

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Flavobacterium pectinovorum DSM 6368

Flavobacterium pectinovorum strain ATCC 19366

Change proposal

Change proposal