Paenibacillus wynnii (DSM 18334, CIP 108306, LMG 22176)

Name: Paenibacillus wynnii (DSM 18334, CIP 108306, LMG 22176)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11601

Type strain

Strain Designation R-16776, B2517

Culture col. no. DSM 18334 CIP 108306 LMG 22176 R-16776 KCTC 3997 1 more

NCBI tax ID(s) 268407

Special Collections DSMZ CIP Literature strains KCTC

History DSMZ <- CIP <- N. A. Logan; R-16776 CIP <- 2004, NA. Logan, Caledonian Univ., Glasgow, Scotland, UK: strain R-16776

Links

Paenibacillus wynnii R-16776 is a facultative anaerobe, spore-forming, Gram-negative bacterium that was isolated from soil sample.

spore-forming Gram-negative motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 128241

LMG 22176,CIP 108306,DSM 18334,KCTC 3997

@ref 20215

Last LPSN update 2026-05-29 08:27:36

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Paenibacillaceae

Genus Paenibacillus

Species Paenibacillus wynnii

Full scientific name Paenibacillus wynnii Rodríguez-Díaz et al. 2005

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31357	negative	4 µm	0.6 µm	rod-shaped
123966

Colony morphology

123966

Hemolysis ability0

Pigmentation

31357

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7511	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
7511	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
33939	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123966	CIP Medium 72	Medium recipe at CIP
123966	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
7511	positive	growth	22
31357	positive	growth	20-37
31357	positive	optimum	20
33939	positive	growth	22
123966	positive	growth	10-30
123966	negative	growth	37
123966	negative	growth	45
123966	negative	growth	55

Culture pH

@ref	Ability	Type	PH	PH range
31357	positive	optimum	7.5
31357	positive	growth	6.0-10.0	alkaliphile
123966	positive	growth	6

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31357	facultative anaerobe
123966	facultative anaerobe
125439	facultative anaerobe	94.495

Spore formation

@ref	Spore formation	Confidence
31357
125438		92.721
125439		91.973
123966

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123966	NaCl	positive	growth	0-2 %
123966	NaCl		growth	4 %
123966	NaCl		growth	6 %
123966	NaCl		growth	8 %
123966	NaCl		growth	10 %

Observation

31357

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
31357	22599 ChEBI	arabinose	+	carbon source
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
31357	17057 ChEBI	cellobiose	+	carbon source
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
123966	16947 ChEBI	citrate	-	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	+	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	+	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
31357	4853 ChEBI	esculin	+	hydrolysis
123966	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
31357	28757 ChEBI	fructose	+	carbon source
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
31357	28260 ChEBI	galactose	+	carbon source
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
31357	17234 ChEBI	glucose	+	carbon source
31357	17754 ChEBI	glycerol	+	carbon source
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
31357	28087 ChEBI	glycogen	+	carbon source
68371	28087 ChEBI	glycogen	+	builds acid from	from API 50CH acid
123966	606565 ChEBI	hippurate	+	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	+	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
31357	17716 ChEBI	lactose	+	carbon source
68371	17716 ChEBI	lactose	+	builds acid from	from API 50CH acid
31357	17306 ChEBI	maltose	+	carbon source
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
31357	29864 ChEBI	mannitol	+	carbon source
31357	37684 ChEBI	mannose	+	carbon source
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
31357	28053 ChEBI	melibiose	+	carbon source
68371	28053 ChEBI	melibiose	+	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
31357	506227 ChEBI	N-acetylglucosamine	+	carbon source
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
31357	17632 ChEBI	nitrate	+	reduction
123966	17632 ChEBI	nitrate	+	reduction
123966	17632 ChEBI	nitrate	+	respiration
123966	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
31357	16634 ChEBI	raffinose	+	carbon source
68371	16634 ChEBI	raffinose	+	builds acid from	from API 50CH acid
31357	26546 ChEBI	rhamnose	+	carbon source
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
31357	33942 ChEBI	ribose	+	carbon source
31357	17814 ChEBI	salicin	+	carbon source
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
31357	30911 ChEBI	sorbitol	+	carbon source
68371	28017 ChEBI	starch	+	builds acid from	from API 50CH acid
31357	17992 ChEBI	sucrose	+	carbon source
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
31357	27082 ChEBI	trehalose	+	carbon source
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	+	builds acid from	from API 50CH acid
31357	17151 ChEBI	xylitol	+	carbon source
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid
31357	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123966	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
123966	15688 ChEBI	acetoin	-
123966	17234 ChEBI	glucose		+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
123966	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	+	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
123966	amylase	+
68382	beta-galactosidase	+	3.2.1.23	from API zym
123966	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123966	caseinase	+	3.4.21.50
31357	catalase	+	1.11.1.6
123966	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
123966	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123966	gamma-glutamyltransferase	-	2.3.2.2
123966	gelatinase	-
123966	lecithinase	-
68382	leucine arylamidase	-	3.4.11.1	from API zym
123966	lipase	-
68382	lipase (C 14)	-		from API zym
123966	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
123966	ornithine decarboxylase	-	4.1.1.17
123966	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
123966	tween esterase	-
123966	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	threonine metabolism	100	10 of 10
66794	adipate degradation	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	cardiolipin biosynthesis	100	7 of 7
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	tetrahydrofolate metabolism	100	14 of 14
66794	L-lactaldehyde degradation	100	3 of 3
66794	folate polyglutamylation	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	heme metabolism	92.86	13 of 14
66794	vitamin B1 metabolism	92.31	12 of 13
66794	starch degradation	90	9 of 10
66794	NAD metabolism	88.89	16 of 18
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	pyrimidine metabolism	84.44	38 of 45
66794	1,4-dihydroxy-6-naphthoate biosynthesis	83.33	5 of 6
66794	alanine metabolism	82.76	24 of 29
66794	pentose phosphate pathway	81.82	9 of 11
66794	degradation of sugar alcohols	81.25	13 of 16
66794	glycogen metabolism	80	4 of 5
66794	flavin biosynthesis	80	12 of 15
66794	lipoate biosynthesis	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	Entner Doudoroff pathway	80	8 of 10
66794	glycine betaine biosynthesis	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	valine metabolism	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	purine metabolism	77.66	73 of 94
66794	degradation of sugar acids	76	19 of 25
66794	glutamate and glutamine metabolism	75	21 of 28
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	degradation of aromatic, nitrogen containing compounds	75	9 of 12
66794	non-pathway related	71.05	27 of 38
66794	methionine metabolism	69.23	18 of 26
66794	degradation of pentoses	67.86	19 of 28
66794	cyanate degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	oxidative phosphorylation	65.93	60 of 91
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	glycolysis	64.71	11 of 17
66794	glutathione metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of hexoses	61.11	11 of 18
66794	methylglyoxal degradation	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	propanol degradation	57.14	4 of 7
66794	citric acid cycle	57.14	8 of 14
66794	cysteine metabolism	55.56	10 of 18
66794	phenol degradation	55	11 of 20
66794	metabolism of disaccharids	54.55	6 of 11
66794	proline metabolism	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	polyamine pathway	52.17	12 of 23
66794	histidine metabolism	51.72	15 of 29
66794	lipid metabolism	51.61	16 of 31
66794	quinate degradation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	biotin biosynthesis	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	propionate fermentation	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	tryptophan metabolism	50	19 of 38
66794	ribulose monophosphate pathway	50	1 of 2
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	arginine metabolism	50	12 of 24
66794	selenocysteine biosynthesis	50	3 of 6
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	sulfate reduction	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	lysine metabolism	45.24	19 of 42
66794	nitrate assimilation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	tyrosine metabolism	42.86	6 of 14
66794	ascorbate metabolism	40.91	9 of 22
66794	gallate degradation	40	2 of 5
66794	4-hydroxyphenylacetate degradation	40	4 of 10
66794	coenzyme M biosynthesis	40	4 of 10
66794	myo-inositol biosynthesis	40	4 of 10
66794	bacilysin biosynthesis	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	vitamin B12 metabolism	38.24	13 of 34
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	urea cycle	30.77	4 of 13
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	carotenoid biosynthesis	27.27	6 of 22
66794	cyclohexanol degradation	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	vitamin E metabolism	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
123966	-	-	+	+	-	-	-	-	-	-	-	-	+	+	-	+	+	-	-	-

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
123966	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
123966	not determinedn.d.	-	-	-	+	-	-	+	+	-	+	+	+	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
7511	soil sample	Mars Oasis			Australia and Oceania
123966	Environment, Soil, Antarctica	Alexander Island	Antarctica	ATA	Antarctica	2001

Taxonmaps

69479

Global distribution of 16S sequence AJ633647 (>99% sequence identity) for Paenibacillus wynnii subclade from Microbeatlas

Aquatic Samples	87
Soil Samples	414
Animal Samples	91
Plant Samples	66
Total Samples	658

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7511	1	Risk group (German classification) According to TRBA 466
123966	1	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	Pwynnii072014 assembly for Paenibacillus wynnii DSM 18334	contig	GCA_000757885	268407.5	2617271335	268407	77.87

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7511	Paenibacillus wynnii partial 16S rRNA gene, type strain LMG 22176T	AJ633647	1526		268407

GC content

7511

GC-content (mol%)44.6

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pwynnii072014 assembly for Paenibacillus wynnii DSM 18334
NCBI: GCA_000757885

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	94.50	no
125439	motility	BacteriaNetⓘ	yes	83.20	no
125439	gram_stain	BacteriaNetⓘ	variable	71.55	no
125439	spore_formation	BacteriaNetⓘ	yes	91.97	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Paenibacillus wynnii DSM 18334
PATRIC: 268407.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	66.22	no
125438	anaerobic	anaerobicⓘ	no	96.41	yes
125438	spore-forming	spore-formingⓘ	yes	92.72	no
125438	aerobic	aerobicⓘ	no	61.07	yes
125438	thermophilic	thermophileⓘ	no	94.35	yes
125438	flagellated	motile2+ⓘ	yes	86.67	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus donghaensis sp. nov., a xylan-degrading and nitrogen-fixing bacterium isolated from East Sea sediment.	Choi JH, Im WT, Yoo JS, Lee SM, Moon DS, Kim HJ, Rhee SK, Roh DH	J Microbiol Biotechnol	7155	2008
Phylogeny	Paenibacillus wynnii sp. nov., a novel species harbouring the nifH gene, isolated from Alexander Island, Antarctica.	Rodriguez-Diaz M, Lebbe L, Rodelas B, Heyrman J, De Vos P, Logan NA	Int J Syst Evol Microbiol	10.1099/ijs.0.63395-0	2005

References

#7511	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18334
#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 )
#27670	IJSEM 2093 2005 ( DOI 10.1099/ijs.0.63395-0 , PubMed 16166715 )
#31357	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 #27670
#33939	; Curators of the CIP;
#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 )
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#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 .
#123966	Collection of Institut Pasteur ; Curators of the CIP; CIP 108306
#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 )

Content

About us

Paenibacillus wynnii (DSM 18334, CIP 108306, LMG 22176)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000757885

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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