Name: Fluviicola taffensis RW262
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 3249

Type strain:

Species: Fluviicola taffensis

Strain Designation: RW262

Culture col. no.: DSM 16823, NCIMB 13979

Strain history: <- L. A. O'Sullivan; RW262

NCBI tax ID(s): 755732 (strain), 191579 (species)

SI-ID 237150

NCIMB 13979, DSM 16823

Section

Fluviicola taffensis RW262 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from river taff water.

Gram-negative
motile
rod-shaped
aerobe
psychrophilic
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	*Crocinitomicaceae*
	Genus	*Fluviicola*
	Species	**Fluviicola taffensis**
	Full Scientific Name (LPSN)	Fluviicola taffensis O'Sullivan et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31522]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #31522]	Cell length	1.6 µm

[Ref.: #31522]	Cell width	0.45 µm

[Ref.: #31522]	Cell shape	rod-shaped

[Ref.: #31522]	Motility	yes

[Ref.: #31522]	Flagellum arrangement	gliding

[Ref.: #31522]

Pigment production

yes

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6615]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #6615]

Culture medium growth

[Ref.: #6615]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6615]

Culture medium composition

expand / minimize

[Ref.: #6615]

Culture medium

OXOID NUTRIENT BROTH (DSMZ Medium 948)

[Ref.: #6615]

Culture medium growth

[Ref.: #6615]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6615]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6615]	growth	20 °C
[Ref.: #6615]	growth	28 °C
[Ref.: #31522]	growth	04-25 °C
[Ref.: #31522]	optimum	20 °C

[Ref.: #6615]	Temperature range	psychrophilic
[Ref.: #6615]	Temperature range	mesophilic
[Ref.: #31522]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6615]	Oxygen tolerance	aerobe
[Ref.: #31522]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.99

[Ref.: #31522]

Observation

aggregates in clumps

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31522]		catalase	+	1.11.1.6
[Ref.: #31522]		gelatinase	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	heme metabolism	85.71	12 of 14
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	lipid metabolism	74.19	23 of 31
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	methionine metabolism	73.08	19 of 26
[Ref.: #66794]	isoprenoid biosynthesis	73.08	19 of 26
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	67.86	19 of 28
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	lysine metabolism	66.67	28 of 42
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	tryptophan metabolism	65.79	25 of 38
[Ref.: #66794]	histidine metabolism	65.52	19 of 29
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	non-pathway related	57.89	22 of 38
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	carotenoid biosynthesis	54.55	12 of 22
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	coenzyme M biosynthesis	50	5 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	46.15	6 of 13
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	45.45	5 of 11
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	cholesterol biosynthesis	45.45	5 of 11
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	oxidative phosphorylation	43.96	40 of 91
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	starch degradation	40	4 of 10
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	glycine betaine biosynthesis	40	2 of 5
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	arginine metabolism	29.17	7 of 24
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6615]	Sample type/isolated from	river taff water
[Ref.: #6615]	Geographic location (country and/or sea, region)	Cardiff, River Taff
[Ref.: #6615]	Country	United Kingdom
[Ref.: #6615]	Country ISO 3 Code	GBR
[Ref.: #6615]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#River (Creek)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF493694 (>99% sequence identity) for Fluviicola taffensis subclade from Microbeatlas

Aquatic Samples	4015
Soil Samples	799
Animal Samples	347
Plant Samples	155
Total Samples	5316

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

[Ref.: #6615]

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:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #6615]	Fluviicola taffensis strain RW262 16S ribosomal RNA gene, partial sequence	AF493694	1484	ENA	755732 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Fluviicola taffensis DSM 16823	GCA_000194605	complete	GenBank	755732 tax ID	*
[Ref.: #66792]	Fluviicola taffensis DSM 16823	755732.3	complete	PATRIC	755732 tax ID	*
[Ref.: #66792]	Fluviicola taffensis RW262, DSM 16823	2503707007	complete	JGI IMG/M	755732 tax ID	*

[Ref.: #6615]	GC-content	37.2 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31522]	GC-content	37.2 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: Fluviicola taffensis DSM 16823 DSM 16823 NCBI: GCA_000194605.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Fluviicola taffensis DSM 16823 DSM 16823 NCBI: GCA_000194605.1
[Ref.: #69480]	motile	no	90.534	no
[Ref.: #69480]	flagellated	no	94.708	no
[Ref.: #69480]	gram-positive	no	98.185	no
[Ref.: #69480]	anaerobic	no	99.233	yes
[Ref.: #69480]	aerobic	yes	89.498	yes
[Ref.: #69480]	halophile	no	94.006	no
[Ref.: #69480]	spore-forming	no	92.68	no
[Ref.: #69480]	glucose-util	yes	80.955	no
[Ref.: #69480]	thermophile	no	98.975	yes
[Ref.: #69480]	glucose-ferment	no	92.608	no

Availability in culture collections External links

[Ref.: #6615]

Culture collection no.

DSM 16823, NCIMB 13979

[Ref.: #72762]

SI-ID 237150

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Taishania pollutisoli gen. nov., sp. nov., Isolated from Tetrabromobisphenol A-Contaminated Soil.	Lan M, Yang T, Song Y, Lv L, Wang H, Chen Q, Chen K	Curr Microbiol	10.1007/s00284-021-02522-9	2021	*
Phylogeny	Fluviicola chungangensis sp. nov., a bacterium isolated from rice field.	Akter S, Huq MA	Arch Microbiol	10.1007/s00203-019-01746-5	2019	*
Phylogeny	Fluviicola kyonggii sp. nov., a bacterium isolated from forest soil and emended description of the genus Fluviicola.	Dahal RH, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002759	2018	*
Genetics	Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262).	Woyke T, Chertkov O, Lapidus A, Nolan M, Lucas S, Del Rio TG, Tice H, Cheng JF, Tapia R, Han C, Goodwin L, Pitluck S, Liolios K, Pagani I, Ivanova N, Huntemann M, Mavromatis K, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Hauser L, Brambilla EM, Rohde M, Mwirichia R, Sikorski J, Tindall BJ, Goker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides NC	Stand Genomic Sci	10.4056/sigs.2124912	2011	*
Phylogeny	Wandonia haliotis gen. nov., sp. nov., a marine bacterium of the family Cryomorphaceae, phylum Bacteroidetes.	Lee DH, Choi EK, Moon SR, Ahn S, Lee YS, Jung JS, Jeon CO, Whang KS, Kahng HY	Int J Syst Evol Microbiol	10.1099/ijs.0.012674-0	2009	*
Phylogeny	Fluviicola taffensis gen. nov., sp. nov., a novel freshwater bacterium of the family Cryomorphaceae in the phylum 'Bacteroidetes'.	O'Sullivan LA, Rinna J, Humphreys G, Weightman AJ, Fry JC	Int J Syst Evol Microbiol	10.1099/ijs.0.63736-0	2005	*

References

#6615

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16823

#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 )

#31522

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 #27816 (see below)

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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 )

#72762

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-ID237150.1 )

#27816

IJSEM 2189 2005 ( DOI 10.1099/ijs.0.63736-0 , PubMed 16166730 )

* These data were automatically processed and therefore are not curated

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Fluviicola taffensis DSM 16823 DSM 16823

Fluviicola taffensis DSM 16823 DSM 16823

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