Name: Chitinophaga filiformis Fx e1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17744

Type strain:

Species: Chitinophaga filiformis

Strain Designation: Fx e1

Culture col. no.: CCUG 12809, CIP 106401, DSM 527, ATCC 29495, IAM 14320, IFO 15056, NBRC 15056, JCM 21160, HAMBI 1966, LMG 23482, NCIMB 13250, VKM B-1400

Strain history: CIP <- 2000, J.F. Bernardet, INRA, Jouy-en-Josas, France <- ATCC <- DSMZ <- H. Reichenbach: strain Fx e1, Flexibacter elegans

NCBI tax ID(s): 104663 (species)

SI-ID 10279

LMG 10391, ATCC 29495, DSM 527, IFO 15056, CCUG 12809, CIP 106401, IAM 14320, VKM B-1400, NBRC 15056, HAMBI 1966, NCIMB 13250, LMG 23482, JCM 21160

Section

Chitinophaga filiformis Fx e1 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from soil.

Gram-negative
mesophilic
obligate aerobe
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	*Chitinophagia*
	Order	*Chitinophagales*
	Family	*Chitinophagaceae*
	Genus	*Chitinophaga*
	Species	**Chitinophaga filiformis**
	Full Scientific Name (LPSN)	Chitinophaga filiformis (Reichenbach 1989 ex Solntseva 1940) Kämpfer et al. 2006

Synonym

Flexibacter filiformis

Information on morphological and physiological properties Morphology

[Ref.: #119348]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.982

[Ref.: #119348]	Cell shape	rod-shaped

[Ref.: #119348]	Motility	no

[Ref.: #45832]

Incubation period

1-2 days

[Ref.: #119348]	Pigment production	yes
[Ref.: #119348]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #125]

Culture medium

EX-LM MEDIUM (DSMZ Medium 1550)

[Ref.: #125]

Culture medium growth

[Ref.: #125]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #40297]

Culture medium

MEDIUM 342 - for Flexibacter filiformis

[Ref.: #40297]

Culture medium growth

[Ref.: #40297]

Culture medium composition

expand / minimize

[Ref.: #119348]

Culture medium

CIP Medium 35

[Ref.: #119348]

Culture medium growth

[Ref.: #119348]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #125]		growth	30 °C
[Ref.: #40297]		growth	30 °C
[Ref.: #45832]		growth	30 °C
[Ref.: #67770]		growth	30 °C
[Ref.: #119348]		growth	15-41 °C
[Ref.: #119348]	no	growth	5 °C
[Ref.: #119348]	no	growth	45 °C

[Ref.: #125]	Temperature range	mesophilic
[Ref.: #40297]	Temperature range	mesophilic
[Ref.: #45832]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #119348]	Temperature range	psychrophilic
[Ref.: #119348]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #119348]

Oxygen tolerance

obligate aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.936

[Ref.: #125]	Name of produced compound	5 chloroflexirubin
[Ref.: #125]	Name of produced compound	flexirubin

	Salt	Tested relation		Salt conc.
[Ref.: #119348]	NaCl	no	growth	2	%
[Ref.: #119348]	NaCl	no	growth	4	%
[Ref.: #119348]	NaCl	no	growth	6	%
[Ref.: #119348]	NaCl	no	growth	8	%
[Ref.: #119348]	NaCl	no	growth	10	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #119348]	esculin ChEBI	+	hydrolysis
[Ref.: #119348]	malonate ChEBI	-	assimilation
[Ref.: #119348]	nitrate ChEBI	+	reduction
[Ref.: #119348]	nitrate ChEBI	-	respiration
[Ref.: #119348]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #119348]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #119348]		acetoin ChEBI	-
[Ref.: #119348]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119348]	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.: #119348]	amylase	+
[Ref.: #119348]	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.: #119348]	caseinase	+	3.4.21.50
[Ref.: #119348]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #119348]	DNase	-
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #119348]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #119348]	gelatinase	+
[Ref.: #119348]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #119348]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #119348]	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.: #119348]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119348]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #119348]	protease	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #119348]	tryptophan deaminase	-
[Ref.: #119348]	tween esterase	-
[Ref.: #119348]	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.: #119348]	1670	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.: #119348]	9469	-	+	-	-	-	+	+	+	+	-	+	+	-	+	-	+	+	+	-	+

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

[Ref.: #125]	Sample type/isolated from	soil
[Ref.: #125]	Geographic location (country and/or sea, region)	Samoa, Upolu, Apia

[Ref.: #45832]	Sample type/isolated from	Soil
[Ref.: #45832]	Geographic location (country and/or sea, region)	Apia,Upolu
[Ref.: #45832]	Country	Samoa
[Ref.: #45832]	Country ISO 3 Code	WSM
[Ref.: #45832]	Continent	Australia and Oceania

[Ref.: #67770]	Sample type/isolated from	Soil on the island of Upolu
[Ref.: #67770]	Country	Samoa
[Ref.: #67770]	Country ISO 3 Code	WSM
[Ref.: #67770]	Continent	Australia and Oceania

[Ref.: #119348]	Sample type/isolated from	Environment, Soil
[Ref.: #119348]	Geographic location (country and/or sea, region)	Upolu, Apia
[Ref.: #119348]	Country	Samoa
[Ref.: #119348]	Country ISO 3 Code	WSM
[Ref.: #119348]	Continent	Australia and Oceania
[Ref.: #119348]	Isolation date	1966
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB680761 (>99% sequence identity) for Chitinophaga from Microbeatlas

Aquatic Samples	4
Soil Samples	315
Animal Samples	15
Plant Samples	58
Total Samples	392

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

[Ref.: #125]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119348]	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.: #20218]	Flexibacter elegans 16S ribosomal RNA	M58782	1481	ENA	997 tax ID	*
[Ref.: #20218]	Flexibacter filiformis gene for 16S rRNA, strain:IFO 15056	AB078049	1481	ENA	104663 tax ID	*
[Ref.: #20218]	Chitinophaga filiformis gene for 16S rRNA, partial sequence, strain: NBRC 15056	AB680761	1451	ENA	104663 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Chitinophaga filiformis DSM 527	GCA_900102545	scaffold	GenBank	104663 tax ID
[Ref.: #66792]	Chitinophaga filiformis strain DSM 527	104663.4	wgs	PATRIC	104663 tax ID	*
[Ref.: #66792]	Chitinophaga filiformis DSM 527	2634166296	draft	JGI IMG/M	104663 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: Chitinophaga filiformis DSM 527 NCBI: GCA_900102545.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chitinophaga filiformis strain DSM 527 PATRIC: 104663.4
[Ref.: #69480]	motile	no	91.975	no
[Ref.: #69480]	flagellated	no	97.111	no
[Ref.: #69480]	gram-positive	no	97.202	no
[Ref.: #69480]	anaerobic	no	99.227	no
[Ref.: #69480]	aerobic	yes	87.806	no
[Ref.: #69480]	halophile	no	96.695	no
[Ref.: #69480]	spore-forming	no	85.52	no
[Ref.: #69480]	thermophile	no	99.279	no
[Ref.: #69480]	glucose-util	yes	87.066	no
[Ref.: #69480]	glucose-ferment	no	83.457	no

Availability in culture collections External links

[Ref.: #125]

Culture collection no.

CCUG 12809, CIP 106401, DSM 527, ATCC 29495, IAM 14320, IFO 15056, NBRC 15056, JCM 21160, HAMBI 1966, LMG 23482, NCIMB 13250, VKM B-1400

[Ref.: #86735]

SI-ID 10279

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Chitinophaga agri sp. nov., a bacterium isolated from soil of reclaimed land.	Lee SA, Heo J, Kim TW, Sang MK, Song J, Kwon SW, Weon HY	Arch Microbiol	10.1007/s00203-020-02066-9	2020	*
Phylogeny	Chitinophaga oryziterrae sp. nov., isolated from the rhizosphere soil of rice (Oryza sativa L.).	Chung EJ, Park TS, Jeon CO, Chung YR	Int J Syst Evol Microbiol	10.1099/ijs.0.036442-0	2012	*

References

#125	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 527

#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 )

#40297 ; Curators of the CIP;
#45832 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 12809

#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) .

#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 )

#86735

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-ID10279.1 )

#119348 Collection of Institut Pasteur ; Curators of the CIP; CIP 106401
* These data were automatically processed and therefore are not curated

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Chitinophaga filiformis DSM 527

Chitinophaga filiformis strain DSM 527

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