Flavobacterium oncorhynchi (CCUG 59446, CECT 7678)

Name: Flavobacterium oncorhynchi (CCUG 59446, CECT 7678)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 155836

Type strain

Culture col. no. CCUG 59446 CECT 7678

NCBI tax ID(s) 728056

Special Collections CCUG

Links

Flavobacterium oncorhynchi CCUG 59446 is an aerobe bacterium that was isolated from Trout,diseased .

aerobe genome sequence Bacteria

Name and taxonomic classification

SI-ID 379801

CCUG 59446,CECT 7678

@ref 20215

Last LPSN update 2026-05-29 08:43:22

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium oncorhynchi

Full scientific name Flavobacterium oncorhynchi Zamora et al. 2012

BacDive ID	Other strains from **Flavobacterium oncorhynchi** (3)	Type strain
155781	F. oncorhynchi CCUG 59310
156014	F. oncorhynchi CCUG 60101, CECT 7792
156015	F. oncorhynchi CCUG 60102, CECT 7848

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.119
125438		94
125438	negative	96.727

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
61960	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
61960	aerobe
125439	obligate aerobe	95.604

Spore formation

@ref	Spore formation	Confidence
125439		99.816

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ppGpp biosynthesis	100	4 of 4
66794	glycine betaine biosynthesis	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	vitamin K metabolism	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	ceramide biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	NAD metabolism	94.44	17 of 18
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	vitamin B1 metabolism	84.62	11 of 13
66794	proline metabolism	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	starch degradation	80	8 of 10
66794	Entner Doudoroff pathway	80	8 of 10
66794	cellulose degradation	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	heme metabolism	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	pyrimidine metabolism	73.33	33 of 45
66794	peptidoglycan biosynthesis	73.33	11 of 15
66794	flavin biosynthesis	73.33	11 of 15
66794	methionine metabolism	73.08	19 of 26
66794	alanine metabolism	72.41	21 of 29
66794	degradation of hexoses	72.22	13 of 18
66794	tyrosine metabolism	71.43	10 of 14
66794	citric acid cycle	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	glutamate and glutamine metabolism	71.43	20 of 28
66794	tryptophan metabolism	71.05	27 of 38
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	acetoin degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	formaldehyde oxidation	66.67	2 of 3
66794	histidine metabolism	65.52	19 of 29
66794	vitamin B6 metabolism	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	degradation of sugar alcohols	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	arginine metabolism	62.5	15 of 24
66794	lipid metabolism	61.29	19 of 31
66794	non-pathway related	60.53	23 of 38
66794	arachidonate biosynthesis	60	3 of 5
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	degradation of pentoses	57.14	16 of 28
66794	mevalonate metabolism	57.14	4 of 7
66794	glutathione metabolism	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	degradation of sugar acids	56	14 of 25
66794	carotenoid biosynthesis	54.55	12 of 22
66794	sulfate reduction	53.85	7 of 13
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	quinate degradation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	isoprenoid biosynthesis	50	13 of 26
66794	glycine metabolism	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	oxidative phosphorylation	48.35	44 of 91
66794	nitrate assimilation	44.44	4 of 9
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	myo-inositol biosynthesis	40	4 of 10
66794	gallate degradation	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	urea cycle	38.46	5 of 13
66794	ascorbate metabolism	36.36	8 of 22
66794	polyamine pathway	34.78	8 of 23
66794	enterobactin biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	octane oxidation	33.33	1 of 3
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	vitamin B12 metabolism	29.41	10 of 34
66794	arachidonic acid metabolism	27.78	5 of 18
66794	metabolism of disaccharids	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	lactate fermentation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Host	#Fishes
#Infection	#Disease

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
61960	Trout,diseased (Oncorhynchus mykiss)	2008-06-01	Madrid	Spain	ESP	Europe

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM221735v1 assembly for Flavobacterium oncorhynchi CCUG 59446	scaffold	GCA_002217355	728056.4	2916300131	728056	67.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM221735v1 assembly for Flavobacterium oncorhynchi CCUG 59446
BV-BRC: 728056.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.12	no
125439	spore_formation	BacteriaNetⓘ	no	99.82	no
125439	motility	BacteriaNetⓘ	no	73.65	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium oncorhynchi CCUG 59446
NCBI: GCA_002217355.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.73	no
125438	anaerobic	anaerobicⓘ	no	97.89	yes
125438	aerobic	aerobicⓘ	yes	88.62	yes
125438	spore-forming	spore-formingⓘ	no	88.00	no
125438	thermophilic	thermophileⓘ	no	98.86	no
125438	flagellated	motile2+ⓘ	no	94.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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
Phylogeny	Flavobacterium oncorhynchi sp. nov., a new species isolated from rainbow trout (Oncorhynchus mykiss).	Zamora L, Fernandez-Garayzabal JF, Svensson-Stadler LA, Palacios MA, Dominguez L, Moore ER, Vela AI	Syst Appl Microbiol	10.1016/j.syapm.2011.11.007	2012

References

#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 )
#61960	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59446
#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) .
#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 )
#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 )

Rate our new design

Content

About us

Flavobacterium oncorhynchi (CCUG 59446, CECT 7678)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002217355

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media