Name: Francisella philomiragia 0#319L
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 5748

Type strain:

Species: Francisella philomiragia

Strain Designation: 0#319L

Culture col. no.: DSM 7535, ATCC 25015

Strain history: <- ATCC <- C.D. Owen (strain 0#319L) <- W. Jensen (Yersinia philomiragia)

NCBI tax ID(s): 539329 (strain), 28110 (species)

SI-ID 10840

LMG 7903, ATCC 25015, CCM 5748, CCUG 19700, CCUG 4992, DSM 7535, CIP 82.98

Special Collections

DSMZ

Other strains from Francisella philomiragia

Section

Francisella philomiragia 0#319L is a Gram-negative bacterium that was isolated from moribund muskrat .

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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Beggiatoales*
	Family	*Francisellaceae*
	Genus	*Francisella*
	Species	**Francisella philomiragia**
	Full Scientific Name (LPSN)	Francisella philomiragia (Jensen et al. 1969) Hollis et al. 1990

Synonym

Yersinia philomiragia

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %94.5

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3207]

Culture medium

COLUMBIA-GLUCOSE-CYSTEINE-AGAR (DSMZ Medium 429c)

[Ref.: #3207]

Culture medium growth

[Ref.: #3207]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3207]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #3207]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68368]	amygdalin ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	arginine ChEBI	-	hydrolysis	* from API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68368]	D-glucose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	D-mannitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	gelatin ChEBI	+	hydrolysis	* from API 20E
[Ref.: #68368]	L-arabinose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	tryptophan ChEBI	-	energy source	* from API 20E
[Ref.: #68368]	urea ChEBI	-	hydrolysis	* from API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #68368]	acetoin ChEBI	no	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68368]	indole ChEBI	no	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	-		* from API 20E
[Ref.: #68368]		indole ChEBI		-	* from API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68368]	arginine dihydrolase	-	3.5.3.6	* from API 20E
[Ref.: #68368]	beta-galactosidase	+	3.2.1.23	* from API 20E
[Ref.: #68368]	cytochrome oxidase	-	1.9.3.1	* from API 20E
[Ref.: #68368]	gelatinase	+		* from API 20E
[Ref.: #68368]	lysine decarboxylase	-	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68368]	urease	-	3.5.1.5	* from API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #3207]	16843	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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

[Ref.: #3207]	Sample type/isolated from	moribund muskrat (Ondrata zibethica)
[Ref.: #3207]	Host species	Ondrata zibethica
[Ref.: #3207]	Geographic location (country and/or sea, region)	Utah
[Ref.: #3207]	Country	USA
[Ref.: #3207]	Country ISO 3 Code	USA
[Ref.: #3207]	Continent	North America
* marker position based on {}

Isolation sources categories

#Host

#Mammals

#Rodentia (Other)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY968239 (>99% sequence identity) for Francisella from Microbeatlas

Aquatic Samples	6973
Soil Samples	181
Animal Samples	762
Plant Samples	39
Total Samples	7955

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

[Ref.: #3207]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #3207]	Francisella philomiragia strain ATCC 25015 16S ribosomal RNA gene, partial sequence	AY928394	1518	GenBank ENA	539329 tax ID
[Ref.: #20218]	Francisella philomiragia subsp. philomiragia strain ATCC 25015 16S ribosomal RNA gene, partial sequence; pathogenicity island, complete sequence; anhydro-N acetylmuramic acid kinase (anmK), major facilitator superfamily protein, trehalase (treA), fructose bisphosphate aldolase (fbaA), pyruvate kinase (pyk), and phosphoglycerate kinase (pgk) genes, complete cds; and glyceraldehyde-3-phosphate dehydrogenase (gapA) gene, partial cds	EU489821	30170	GenBank ENA	539329 tax ID	*
[Ref.: #20218]	F.philomiragia (ATCC 25015) 16S rRNA (partial)	Z22900	174	GenBank ENA	539329 tax ID	*
[Ref.: #20218]	F.philomiragia (ATCC 25015) 16S rRNA (partial)	Z22901	240	GenBank ENA	539329 tax ID	*
[Ref.: #20218]	Francisella philomiragia partial 16S rRNA gene, type strain ATCC 25015	AJ698862	1463	GenBank ENA	539329 tax ID	*
[Ref.: #20218]	Francisella philomiragia strain DSM 7535 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	EF153479	4518	GenBank ENA	539329 tax ID	*
[Ref.: #20218]	Francisella philomiragia strain FSC 144 16S ribosomal RNA gene, partial sequence	AY968239	1448	GenBank ENA	28110 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Francisella philomiragia subsp. philomiragia ATCC 25015 O#319L	GCA_000833455	complete	GenBank ENA	539329 tax ID	*
[Ref.: #66792]	Francisella philomiragia subsp. philomiragia ATCC 25015	GCA_000156715	scaffold	GenBank ENA	539329 tax ID	*
[Ref.: #66792]	Francisella philomiragia subsp. philomiragia ATCC 25015	539329.3	wgs	PATRIC	539329 tax ID	*
[Ref.: #66792]	Francisella philomiragia subsp. philomiragia ATCC 25015 strain O#319L	539329.6	complete	PATRIC	539329 tax ID	*
[Ref.: #66792]	Francisella philomiragia philomiragia ATCC 25015	2505119037	draft	JGI IMG/M	539329 tax ID	*
[Ref.: #66792]	Francisella philomiragia philomiragia ATCC 25015	2630968846	complete	JGI IMG/M	539329 tax ID	*

[Ref.: #3207]

GC-content

34.0 mol%

thermal denaturation, midpoint method (Tm)

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: Francisella philomiragia subsp. philomiragia ATCC 25015 O#319L NCBI: GCA_000833455.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.5	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	89.944	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	53.192	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.009	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	86.341	no

Availability in culture collections External links

[Ref.: #3207]

Culture collection no.

DSM 7535, ATCC 25015

[Ref.: #75227]

SI-ID 10840

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Proteogenomic biomarkers for identification of Francisella species and subspecies by matrix-assisted laser desorption ionization-time-of-flight mass spectrometry.	Durighello E, Bellanger L, Ezan E, Armengaud J	Anal Chem	10.1021/ac501840g	2014	*
Phylogeny	Francisella halioticida sp. nov., a pathogen of farmed giant abalone (Haliotis gigantea) in Japan.	Brevik OJ, Ottem KF, Kamaishi T, Watanabe K, Nylund A	J Appl Microbiol	10.1111/j.1365-2672.2011.05133.x	2011	*
Phylogeny	Description of Francisella hispaniensis sp. nov., isolated from human blood, reclassification of Francisella novicida (Larson et al. 1955) Olsufiev et al. 1959 as Francisella tularensis subsp. novicida comb. nov. and emended description of the genus Francisella.	Huber B, Escudero R, Busse HJ, Seibold E, Scholz HC, Anda P, Kampfer P, Splettstoesser WD	Int J Syst Evol Microbiol	10.1099/ijs.0.015941-0	2009	*
Phylogeny	Francisella asiatica sp. nov. isolated from farmed tilapia (Oreochromis sp.) and elevation of Francisella philomiragia subsp. noatunensis to species rank as Francisella noatunensis comb. nov., sp. nov.	Mikalsen J, Colquhoun DJ	Int J Syst Evol Microbiol	10.1099/ijs.0.002139-0	2009	*
Phylogeny	Francisella philomiragia subsp. noatunensis subsp. nov., isolated from farmed Atlantic cod (Gadus morhua L.).	Mikalsen J, Olsen AB, Tengs T, Colquhoun DJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64765-0	2007	*

References

#3207

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 7535

#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 )

#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) .

#68368

Automatically annotated from API 20E .

#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) .

#75227

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-ID10840.1 )

* These data were automatically processed and therefore are not curated

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Francisella philomiragia subsp. philomiragia ATCC 25015 O#319L

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