Fluviicola taffensis (DSM 16823, NCIMB 13979, RW262)

Name: Fluviicola taffensis (DSM 16823, NCIMB 13979, RW262)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3249

Type strain

Strain Designation RW262

Culture col. no. DSM 16823 NCIMB 13979 RW262

NCBI tax ID(s) 755732 191579

Special Collections DSMZ Literature strains

History DSMZ <- L. A. O'Sullivan; RW262

Links

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

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 237150

NCIMB 13979,DSM 16823

@ref 20215

Last LPSN update 2026-05-29 08:25:40

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Crocinitomicaceae

Genus Fluviicola

Species Fluviicola taffensis

Full scientific name Fluviicola taffensis O'Sullivan et al. 2005

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
31522	negative	1.6 µm	0.45 µm	rod-shaped	gliding
125439	negative					98.663
125438						90.25
125438	negative					97.981

Pigmentation

31522

Productionyes

Multimedia

@ref:	66793
multimedia content:	EM_DSM_16823_1.jpg
multimedia.multimedia content:	EM_DSM_16823_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6615	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
6615	OXOID NUTRIENT BROTH (DSMZ Medium 948)		Medium recipe at MediaDive	Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6615	positive	growth	20
31522	positive	growth	04-25
31522	positive	optimum	20

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6615	aerobe
31522	aerobe
125439	obligate aerobe	99.236

Spore formation

@ref	Spore formation	Confidence
125439		98.791
125438		91.303

Observation

31522

Observationaggregates in clumps

Enzymes

@ref	Value	Activity	Ec
31522	catalase	+	1.11.1.6
31522	gelatinase	+

Pathway annotation

Computationally determined by

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

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6615	river taff water	Cardiff, River Taff	United Kingdom	GBR	Europe

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6615	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM19460v1 assembly for Fluviicola taffensis DSM 16823	complete	GCA_000194605	755732.3	2503707007	755732	99.42

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6615	Fluviicola taffensis strain RW262 16S ribosomal RNA gene, partial sequence	AF493694	1484		755732

GC content

@ref	GC-content (mol%)	Method
6615	37.2	high performance liquid chromatography (HPLC)
31522	37.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM19460v1 assembly for Fluviicola taffensis DSM 16823
BV-BRC: 755732.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.24	no
125439	gram_stain	BacteriaNetⓘ	negative	98.66	no
125439	motility	BacteriaNetⓘ	no	73.16	no
125439	spore_formation	BacteriaNetⓘ	no	98.79	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Fluviicola taffensis DSM 16823 DSM 16823
NCBI: GCA_000194605.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.98	yes
125438	anaerobic	anaerobicⓘ	no	96.60	yes
125438	aerobic	aerobicⓘ	yes	82.74	no
125438	spore-forming	spore-formingⓘ	no	91.30	no
125438	thermophilic	thermophileⓘ	no	94.58	yes
125438	flagellated	motile2+ⓘ	no	90.25	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	T9GPred: A Comprehensive Computational Tool for the Prediction of Type 9 Secretion System, Gliding Motility, and the Associated Secreted Proteins.	Sahoo AK, Vivek-Ananth RP, Chivukula N, Rajaram SV, Mohanraj K, Khare D, Acharya C, Samal A.	ACS Omega	10.1021/acsomega.3c05155	2023
	Complete 4.55-Megabase-Pair Genome of "Candidatus Fluviicola riflensis," Curated from Short-Read Metagenomic Sequences.	Banfield JF, Anantharaman K, Williams KH, Thomas BC.	Genome Announc	10.1128/genomea.01299-17	2017
	Nanopore Sequencing of Amoebophrya Species Reveals Novel Collection of Bacteria Putatively Associated With Karlodinium veneficum.	Tizabi D, Hill RT, Bachvaroff T.	Genome Biol Evol	10.1093/gbe/evaf022	2025
	First Case Report of Detection of Multidrug-Resistant Enterobacter hormaechei in Clinical Sample from an Aborted Ruminant.	Zaitsev SS, Khizhnyakova MA, Feodorova VA.	Microorganisms	10.3390/microorganisms10051036	2022
	Phylogenetic comparison between Type IX Secretion System (T9SS) protein components suggests evidence of horizontal gene transfer.	Emrizal R, Nor Muhammad NA.	PeerJ	10.7717/peerj.9019	2020
	Sterol Synthesis in Diverse Bacteria.	Wei JH, Yin X, Welander PV.	Front Microbiol	10.3389/fmicb.2016.00990	2016
Metabolism	Dynamics of Heterotrophic Bacterial Assemblages within Synechococcus Cultures.	Zheng Q, Wang Y, Xie R, Lang AS, Liu Y, Lu J, Zhang X, Sun J, Suttle CA, Jiao N.	Appl Environ Microbiol	10.1128/aem.01517-17	2018
Phylogeny	Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat.	Lee JZ, Everroad RC, Karaoz U, Detweiler AM, Pett-Ridge J, Weber PK, Prufert-Bebout L, Bebout BM.	PLoS One	10.1371/journal.pone.0202792	2018
	Safety evaluation of the food enzyme chymosin from the genetically modified Aspergillus niger strain DSM 29544.	EFSA Panel on Food Contact Materials, Enzymes and Processing Aids (CEP), Silano V, Barat Baviera JM, Bolognesi C, Cocconcelli PS, Crebelli R, Gott DM, Grob K, Lambre C, Lampi E, Mengelers M, Mortensen A, Riviere G, Steffensen IL, Tlustos C, Van Loveren H, Vernis L, Zorn H, Aguilera J, Andryszkiewicz M, di Piazza G, de Sousa RF, Kovalkovikova N, Liu Y, Chesson A.	EFSA J	10.2903/j.efsa.2022.7464	2022
Metabolism	The Carboxy-Terminal Region of Flavobacterium johnsoniae SprB Facilitates Its Secretion by the Type IX Secretion System and Propulsion by the Gliding Motility Machinery.	Kulkarni SS, Johnston JJ, Zhu Y, Hying ZT, McBride MJ.	J Bacteriol	10.1128/jb.00218-19	2019
Phylogeny	Coral and macroalgal exudates vary in neutral sugar composition and differentially enrich reef bacterioplankton lineages.	Nelson CE, Goldberg SJ, Wegley Kelly L, Haas AF, Smith JE, Rohwer F, Carlson CA.	ISME J	10.1038/ismej.2012.161	2013
Phylogeny	Related giant viruses in distant locations and different habitats: Acanthamoeba polyphaga moumouvirus represents a third lineage of the Mimiviridae that is close to the megavirus lineage.	Yoosuf N, Yutin N, Colson P, Shabalina SA, Pagnier I, Robert C, Azza S, Klose T, Wong J, Rossmann MG, La Scola B, Raoult D, Koonin EV.	Genome Biol Evol	10.1093/gbe/evs109	2012
Metabolism	Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean.	Orsi WD, Smith JM, Liu S, Liu Z, Sakamoto CM, Wilken S, Poirier C, Richards TA, Keeling PJ, Worden AZ, Santoro AE.	ISME J	10.1038/ismej.2016.20	2016
	metaBEETL: high-throughput analysis of heterogeneous microbial populations from shotgun DNA sequences.	Ander C, Schulz-Trieglaff OB, Stoye J, Cox AJ.	BMC Bioinformatics	10.1186/1471-2105-14-s5-s2	2013
Metabolism	Microspatial gene expression patterns in the Amazon River Plume.	Satinsky BM, Crump BC, Smith CB, Sharma S, Zielinski BL, Doherty M, Meng J, Sun S, Medeiros PM, Paul JH, Coles VJ, Yager PL, Moran MA.	Proc Natl Acad Sci U S A	10.1073/pnas.1402782111	2014
	Composition and Activity of Microbial Communities along the Redox Gradient of an Alkaline, Hypersaline, Lake.	Edwardson CF, Edwardson CF, Hollibaugh JT.	Front Microbiol	10.3389/fmicb.2018.00014	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	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
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 )
#27816	IJSEM 2189 2005 ( DOI 10.1099/ijs.0.63736-0 , PubMed 16166730 )
#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
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Fluviicola taffensis (DSM 16823, NCIMB 13979, RW262)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000194605

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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