Bordetella trematum (DSM 11334, CCUG 32381, LMG 13506)

Name: Bordetella trematum (DSM 11334, CCUG 32381, LMG 13506)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 379

Type strain

Strain Designation 1779, 22-93

Culture col. no. DSM 11334 CCUG 32381 LMG 13506 1779 22-93 1 more

NCBI tax ID(s) 123899

Special Collections DSMZ CCUG Literature strains CIP

History <- LMG <- K.H. Hinz, poultry hospital Hannover (Bordetella avium-like strain 22-39) <- E. Becker-Boost, Krefeld CIP <- 1997, CCUG <- 1993, P. Vandamme, Ghent Univ., Ghent, Belgium <- 1993, K.H. Hinz: strain 22-93 <- C.H. Wirsing von Konig <- E. Becker-Boost, Krefeld, Germany

Links

Bordetella trematum 1779 is a microaerophile, mesophilic, Gram-negative prokaryote that forms circular colonies and was isolated from ear swab of patient suffering from chronic otitis media.

Gram-negative motile rod-shaped colony-forming microaerophile mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 386955

LMG 13506,CCUG 32381,CIP 105351,DSM 11334,NCTC12995,ATCC 700309

@ref 20215

Last LPSN update 2026-02-09 11:17:51

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Alcaligenaceae

Genus Bordetella

Species Bordetella trematum

Full scientific name Bordetella trematum Vandamme et al. 1996

BacDive ID	Other strains from **Bordetella trematum** (13)	Type strain
136403	B. trematum GLG 3926, CIP 105307, CCUG 13905, LMG 5254, ...
139416	B. trematum GLG 4604, CIP 105306, CCUG 24727, LMG 14523
142316	B. trematum CCUG 11632
142682	B. trematum CCUG 13902, LMG 14446, LMG 5251
142683	B. trematum CCUG 13904, LMG 14993, LMG 5253
142803	B. trematum CCUG 14939, LMG 15543
146485	B. trematum CCUG 31299 A, LMG 14448
152317	B. trematum CCUG 46414
152389	B. trematum CCUG 46644
154669	B. trematum CCUG 54793
154795	B. trematum CCUG 55220
175025	B. trematum 114691, DSM 114691
175026	B. trematum 116519, DSM 116519

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
22905	negative	1-1.8 µm	0.5-0.6 µm	rod-shaped	peritrichous
123579	negative			rod-shaped
125439	negative					99.1
125439						90.9
125438	negative					96.959

Colony morphology

@ref	Colony color	Colony shape	Incubation period	Medium used
22905	greyish cream white	circular	1 day	blood agar
123579

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4304	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
32670	MEDIUM 21 - for Bordetella		Distilled water make up to (1000.000 ml);Horse blood (250.000 ml);Bordetgengou agar (30.000 g)
22905	blood agar
22905	MacConkey agar
123579	CIP Medium 21	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
4304	positive	growth	37	mesophilic
22905	positive	growth	42	thermophilic
22905	inconsistent	growth	25
22905	positive	optimum	37	mesophilic
32670	positive	growth	30	mesophilic
123579	positive	growth	25-41
123579	negative	growth	5
123579	negative	growth	15
123579	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
22905	microaerophile
123579	obligate aerobe

Spore formation

@ref	Spore formation	Confidence
22905
125439		98.8

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123579	NaCl	positive	growth	0-8 %
123579	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
22905	16808 ChEBI	2-dehydro-D-gluconate	-	assimilation
22905	17426 ChEBI	5-dehydro-D-gluconate	-	builds acid from
22905	17426 ChEBI	5-dehydro-D-gluconate	+/-	assimilation
22905	27856 ChEBI	acetamide	+/-	builds base from
22905	17128 ChEBI	adipate	+	assimilation
22905	17128 ChEBI	adipate	+	builds base from
68369	17128 ChEBI	adipate	+	assimilation	from API 20NE
22905	27613 ChEBI	amygdalin	-	assimilation
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
22905	18305 ChEBI	arbutin	-	assimilation
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
22905	17057 ChEBI	cellobiose	-	assimilation
22905	17057 ChEBI	cellobiose	-	builds acid from
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
123579	16947 ChEBI	citrate	-	carbon source
22905	17108 ChEBI	D-arabinose	-	assimilation
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
22905	18333 ChEBI	D-arabitol	-	assimilation
22905	18333 ChEBI	D-arabitol	-	builds acid from
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
22905	28847 ChEBI	D-fucose	-	assimilation
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
22905	8391 ChEBI	D-gluconate	-	assimilation
22905	17634 ChEBI	D-glucose	-	assimilation
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
22905	62318 ChEBI	D-lyxose	-	assimilation
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
22905	16443 ChEBI	D-tagatose	-	assimilation
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
22905	65327 ChEBI	D-xylose	-	assimilation
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
22905	27689 ChEBI	decanoate	-	assimilation
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
22905	17113 ChEBI	erythritol	-	assimilation
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
22905	4853 ChEBI	esculin	-	hydrolysis
22905	4853 ChEBI	esculin	+	assimilation
123579	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
22905	28757 ChEBI	fructose	-	assimilation
22905	16813 ChEBI	galactitol	-	assimilation
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
22905	28260 ChEBI	galactose	-	assimilation
22905	24175 ChEBI	galacturonate	-	builds acid from
22905	5291 ChEBI	gelatin	-	hydrolysis
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
22905	28066 ChEBI	gentiobiose	-	assimilation
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
22905	17234 ChEBI	glucose	-	builds acid from
22905	17234 ChEBI	glucose	-	fermentation
123579	17234 ChEBI	glucose	-	degradation
22905	17754 ChEBI	glycerol	-	assimilation
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
22905	15428 ChEBI	glycine	-	builds base from
22905	28087 ChEBI	glycogen	-	assimilation
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
123579	606565 ChEBI	hippurate	+	hydrolysis
22905	15443 ChEBI	inulin	-	assimilation
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
22905	30849 ChEBI	L-arabinose	-	assimilation
22905	30849 ChEBI	L-arabinose	-	builds acid from
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
22905	18403 ChEBI	L-arabitol	-	assimilation
22905	18403 ChEBI	L-arabitol	-	builds acid from
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
22905	18287 ChEBI	L-fucose	-	assimilation
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
22905	15589 ChEBI	L-malate	+	assimilation
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
22905	65328 ChEBI	L-xylose	-	assimilation
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
22905	17716 ChEBI	lactose	-	assimilation
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
22905	48537 ChEBI	malonamide	+	builds base from
22905	15792 ChEBI	malonate	+	builds base from
123579	15792 ChEBI	malonate	+	assimilation
22905	17306 ChEBI	maltose	-	assimilation
22905	17306 ChEBI	maltose	-	builds acid from
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
22905	29864 ChEBI	mannitol	-	assimilation
22905	29864 ChEBI	mannitol	-	builds acid from
22905	37684 ChEBI	mannose	-	assimilation
22905	6731 ChEBI	melezitose	-	assimilation
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
22905	28053 ChEBI	melibiose	-	assimilation
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
22905	320061 ChEBI	methyl alpha-D-glucopyranoside	-	assimilation
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
22905	43943 ChEBI	methyl alpha-D-mannoside	-	assimilation
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
22905	74863 ChEBI	methyl beta-D-xylopyranoside	-	assimilation
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
22905	17268 ChEBI	myo-inositol	-	assimilation
22905	17268 ChEBI	myo-inositol	-	builds acid from
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
22905	506227 ChEBI	N-acetylglucosamine	-	assimilation
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
22905	17632 ChEBI	nitrate	+/-	reduction
123579	17632 ChEBI	nitrate	-	builds gas from
123579	17632 ChEBI	nitrate	-	reduction
123579	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
123579	16301 ChEBI	nitrite	-	builds gas from
123579	16301 ChEBI	nitrite	-	reduction
22905	18394 ChEBI	palatinose	-	builds acid from
22905	18401 ChEBI	phenylacetate	+	assimilation
22905	28044 ChEBI	phenylalanine	+/-	assimilation
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
22905	45422 ChEBI	propionamide	+	builds base from
22905	16634 ChEBI	raffinose	-	assimilation
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
22905	26546 ChEBI	rhamnose	-	assimilation
22905	26546 ChEBI	rhamnose	-	builds acid from
22905	15963 ChEBI	ribitol	-	assimilation
22905	15963 ChEBI	ribitol	-	builds acid from
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
22905	33942 ChEBI	ribose	-	assimilation
22905	17814 ChEBI	salicin	-	assimilation
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
22905	30911 ChEBI	sorbitol	-	assimilation
22905	30911 ChEBI	sorbitol	-	builds acid from
22905	27922 ChEBI	sorbose	-	assimilation
22905	28017 ChEBI	starch	-	assimilation
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
22905	17992 ChEBI	sucrose	-	assimilation
22905	17992 ChEBI	sucrose	-	builds acid from
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
22905	78021 ChEBI	tetrazolium	+	reduction
22905	27082 ChEBI	trehalose	-	assimilation
22905	27082 ChEBI	trehalose	-	builds acid from
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
22905	32528 ChEBI	turanose	-	assimilation
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
22905	31011 ChEBI	valerate	+/-	builds base from
22905	17151 ChEBI	xylitol	-	assimilation
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
123579	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
22905	15688 ChEBI	acetoin
22905	35581 ChEBI	indole
68369	35581 ChEBI	indole	from API 20NE
123579	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test	Voges-proskauer-test	Methylred-test
22905	15688 ChEBI	acetoin		-
123579	15688 ChEBI	acetoin		-
123579	17234 ChEBI	glucose			-
68369	35581 ChEBI	indole	-			from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
123579	alcohol dehydrogenase	-	1.1.1.1
22905	alkaline phosphatase	+	3.1.3.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
22905	alpha-fucosidase	-	3.2.1.51
68382	alpha-fucosidase	-	3.2.1.51	from API zym
22905	alpha-galactosidase	-	3.2.1.22
68382	alpha-galactosidase	-	3.2.1.22	from API zym
22905	alpha-glucosidase	-	3.2.1.20
68382	alpha-glucosidase	+	3.2.1.20	from API zym
22905	alpha-mannosidase	-	3.2.1.24
68382	alpha-mannosidase	-	3.2.1.24	from API zym
123579	amylase	-
22905	arginine dihydrolase	-	3.5.3.6
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
22905	beta-galactosidase	-	3.2.1.23
68382	beta-galactosidase	-	3.2.1.23	from API zym
123579	beta-galactosidase	-	3.2.1.23
22905	beta-glucosidase	-	3.2.1.21
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
22905	beta-glucuronidase	-	3.2.1.31
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123579	caseinase	-	3.4.21.50
123579	catalase	+	1.11.1.6
22905	chymotrypsin	+/-	3.4.4.5
22905	cystine arylamidase	-	3.4.11.3
68382	cystine arylamidase	-	3.4.11.3	from API zym
22905	cytochrome oxidase	-	1.9.3.1
123579	DNase	-
68382	esterase (C 4)	+		from API zym
22905	esterase lipase (C 8)	+
68382	esterase lipase (C 8)	+		from API zym
123579	gamma-glutamyltransferase	-	2.3.2.2
123579	gelatinase	-
68369	gelatinase	-		from API 20NE
22905	glutamyl-glutamate arylamidase	+/-
22905	histidine arylamidase	-
22905	L-arginine arylamidase	+/-
22905	L-aspartate arylamidase	+	3.4.11.21
123579	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
22905	leucyl glycin arylamidase	+	3.4.11.1
123579	lipase	-
22905	lipase (C 14)	+/-
68382	lipase (C 14)	-		from API zym
22905	lysine decarboxylase	-	4.1.1.18
123579	lysine decarboxylase	-	4.1.1.18
22905	N-acetyl-beta-glucosaminidase	-	3.2.1.52
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
22905	naphthol-AS-BI-phosphohydrolase	+
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
22905	ornithine decarboxylase	-	4.1.1.17
123579	ornithine decarboxylase	-	4.1.1.17
123579	oxidase	-
123579	phenylalanine ammonia-lyase	-	4.3.1.24
22905	proline-arylamidase	-	3.4.11.5
123579	protease	-
22905	pyroglutamic acid arylamidase	-
22905	serine arylamidase	+
22905	trypsin	-	3.4.21.4
68382	trypsin	-	3.4.21.4	from API zym
123579	tryptophan deaminase	-
123579	tween esterase	-
22905	tyrosine arylamidase	+/-
22905	urease	-	3.5.1.5
123579	urease	-	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
22905	valine arylamidase	+
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	cyanate degradation	100	3 of 3
66794	gallate degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	valine metabolism	100	9 of 9
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	biotin biosynthesis	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	threonine metabolism	100	10 of 10
66794	ppGpp biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	ubiquinone biosynthesis	100	7 of 7
66794	palmitate biosynthesis	100	22 of 22
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	taurine degradation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ethanol fermentation	100	2 of 2
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	citric acid cycle	92.86	13 of 14
66794	leucine metabolism	92.31	12 of 13
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	propanol degradation	85.71	6 of 7
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	NAD metabolism	83.33	15 of 18
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	proline metabolism	81.82	9 of 11
66794	vitamin B6 metabolism	81.82	9 of 11
66794	methionine metabolism	80.77	21 of 26
66794	propionate fermentation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	lipoate biosynthesis	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	alanine metabolism	79.31	23 of 29
66794	glutathione metabolism	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	tryptophan metabolism	76.32	29 of 38
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	phenol degradation	75	15 of 20
66794	lactate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	flavin biosynthesis	73.33	11 of 15
66794	histidine metabolism	72.41	21 of 29
66794	tyrosine metabolism	71.43	10 of 14
66794	Entner Doudoroff pathway	70	7 of 10
66794	oxidative phosphorylation	67.03	61 of 91
66794	octane oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	arginine metabolism	66.67	16 of 24
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	sulfoquinovose degradation	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	pentose phosphate pathway	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	lysine metabolism	61.9	26 of 42
66794	urea cycle	61.54	8 of 13
66794	isoprenoid biosynthesis	61.54	16 of 26
66794	lipid metabolism	61.29	19 of 31
66794	non-pathway related	60.53	23 of 38
66794	cellulose degradation	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	glycolysis	58.82	10 of 17
66794	polyamine pathway	56.52	13 of 23
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	pyrimidine metabolism	55.56	25 of 45
66794	sulfate reduction	53.85	7 of 13
66794	pantothenate biosynthesis	50	3 of 6
66794	carnitine metabolism	50	4 of 8
66794	ribulose monophosphate pathway	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	phenylmercury acetate degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	allantoin degradation	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	degradation of sugar acids	44	11 of 25
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	glycogen metabolism	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	degradation of pentoses	39.29	11 of 28
66794	degradation of sugar alcohols	37.5	6 of 16
66794	metabolism of disaccharids	36.36	4 of 11
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	sphingosine metabolism	33.33	2 of 6
66794	arachidonic acid metabolism	33.33	6 of 18
66794	IAA biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	carotenoid biosynthesis	31.82	7 of 22
66794	coenzyme M biosynthesis	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	mevalonate metabolism	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	d-xylose degradation	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
123579	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	+	-	-	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
4304	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	+	+	+	+	+
4304	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	+/-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
123579	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

API biotype100

@ref	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
123579	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	+	+	+	-	-	+	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	+	-	-	-	+	+	+	-	-	-	-	-	+	+	+	+	+	+	+	+	+	+	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Disease	-
#Infection	#Patient	-
#Host Body-Site	#Organ	#Ear

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
4304	ear swab of patient suffering from chronic otitis media	Germany	DEU	Europe
50983	Human otitis media,chronic	Germany	DEU	Europe
123579	Human, Otitis	Germany	DEU	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4304	2	Risk group (German classification) According to TRBA 466
123579	2	Risk group (French 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	7642_7#39 assembly for Bordetella trematum NCTC12995	scaffold	GCA_900078335	123899.5	8113325620	123899	62.75

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Bordetella trematum partial 16S rRNA gene, strain DSM 11334 (T)	AJ277798	1521		123899
20218	Bordetella trematum strain LMG 13506 16S ribosomal RNA gene, partial sequence	KF601906	1376		123899

GC content

@ref	GC-content (mol%)	Method
22905	65.00	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bordetella trematum LMG 13506
NCBI: GCA_900078335

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	yes	90.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	76.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bordetella trematum strain NCTC12995
PATRIC: 123899.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.96	yes
125438	anaerobic	anaerobicⓘ	no	98.19	yes
125438	spore-forming	spore-formingⓘ	no	89.69	no
125438	aerobic	aerobicⓘ	yes	82.60	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	88.57	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Functional Enrichment and Sequence-Based Discovery Identify Promiscuous and Efficient Poly Lactic Acid Degrading Enzymes.	Stojanovski G, Bawn M, Locks A, Ambrose-Dempster E, Ward JM, Jeffries JWE, Hailes HC.	Environ Sci Technol	10.1021/acs.est.4c07279	2025
Phylogeny	Detection and differentiation of Bordetella spp. by real-time PCR.	Koidl C, Bozic M, Burmeister A, Hess M, Marth E, Kessler HH.	J Clin Microbiol	10.1128/jcm.01303-06	2007
Pathogenicity	Environmental Origin of the Genus Bordetella.	Hamidou Soumana I, Linz B, Harvill ET.	Front Microbiol	10.3389/fmicb.2017.00028	2017
Phylogeny	Pusillimonas ginsengisoli sp. nov., isolated from soil of a ginseng field.	Srinivasan S, Kim MK, Sathiyaraj G, Kim YJ, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.018358-0	2009

References

#4304	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11334
#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 )
#22905	P. VANDAMME, M. HEYNDRICKX, M. VANCANNEYT, B. HOSTE, P. DE VOS, E. FALSEN, K. KERSTERS, K.-H. HINZ: Bordetella trematum sp. nov., Isolated from Wounds and Ear Infections in Humans, and Reassessment of Alcaligenes denitrificans Rüger and Tan 1983. IJSEM 46: 849 - 858 1996 ( DOI 10.1099/00207713-46-4-849 , PubMed 8863408 )
#32670	; Curators of the CIP;
#50983	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 32381
#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 )
#68369	Automatically annotated from API 20NE .
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#123579	Collection of Institut Pasteur ; Curators of the CIP; CIP 105351
#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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Bordetella trematum (DSM 11334, CCUG 32381, LMG 13506)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

API 20NE

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900078335

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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