Pannonibacter phragmitetus (DSM 14782, NCAIM B02025, CCUG 54624)

Name: Pannonibacter phragmitetus (DSM 14782, NCAIM B02025, CCUG 54624)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13692

Type strain

Strain Designation C6/19

Culture col. no. DSM 14782 NCAIM B02025 CCUG 54624 C6/19 CIP 107962

NCBI tax ID(s) 1122929 121719

Special Collections DSMZ CCUG Literature strains CIP

History <- A. K. Borsodi; C6/19 CIP <- 2003, NCAIM <- A.K. Borsodi: strain C6/19

Links

Pannonibacter phragmitetus C6/19 is a facultative anaerobe, chemoorganotroph, Gram-negative bacterium that forms circular colonies and was isolated from surface of decomposing reed rhizomes.

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

Name and taxonomic classification

SI-ID 100841

NCTC 13350,DSM 14782,LMG 22736,NCAIM B.02025,CCUG 54624,VTT E-072697,CIP 107962

@ref 20215

Last LPSN update 2026-02-09 11:21:13

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Stappiaceae

Genus Pannonibacter

Species Pannonibacter phragmitetus

Full scientific name Pannonibacter phragmitetus Borsodi et al. 2003

BacDive ID	Other strains from **Pannonibacter phragmitetus** (4)	Type strain
13690	P. phragmitetus C6/8, DSM 14780, NCAIM B02027
13691	P. phragmitetus C6/17, DSM 14781, NCAIM B02026
144349	P. phragmitetus CCUG 24693, LMG 5431
146025	P. phragmitetus CCUG 30180

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
43385	negative	2-4 µm	0.3-0.6 µm	rod-shaped	polar
121811	negative			rod-shaped
125438	negative					99
125439	negative					99.5

Colony morphology

@ref	Colony size	Colony color	Colony shape	Medium used
43385	2-4 mm	whitish-beige	circular	Horikoshi alkaline agar
121811

Multimedia

@ref:	66793
multimedia content:	EM_DSM_14782_1.jpg
multimedia.multimedia content:	EM_DSM_14782_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_2.jpg
multimedia.multimedia content:	EM_DSM_14782_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_3.jpg
multimedia.multimedia content:	EM_DSM_14782_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_4.jpg
multimedia.multimedia content:	EM_DSM_14782_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_5.jpg
multimedia.multimedia content:	EM_DSM_14782_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_6.jpg
multimedia.multimedia content:	EM_DSM_14782_6.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_7.jpg
multimedia.multimedia content:	EM_DSM_14782_7.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_14782_8.jpg
multimedia.multimedia content:	EM_DSM_14782_8.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5536	HORIKOSHI ALKALINE (DSMZ Medium 940)	Medium recipe at MediaDive	Name: HORIKOSHI ALKALINE (DSMZ Medium 940) Composition: Agar 15.0 g/l D-Glucose 10.0 g/l Na2CO3 5.0 g/l Yeast extract 5.0 g/l Peptone 5.0 g/l KH2PO4 1.0 g/l MgSO4 x 7 H2O 0.2 g/l Distilled water
39971	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
43385	Horikoshi alkaline agar
121811	CIP Medium 72	Medium recipe at CIP
121811	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
5536	positive	growth	28
39971	positive	growth	30
43385	positive	growth	10-37
43385	positive	optimum	22-28
60266	positive	growth	37
121811	positive	growth	15-41
121811	negative	growth	5
121811	negative	growth	45

Culture pH

@ref	Ability	Type	PH	PH range
43385	positive	optimum	9-10
43385	positive	growth	7-11	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
43385	facultative anaerobe
60266	aerobe
121811	obligate aerobe

Nutrition type

43385

Typechemoorganotroph

Spore formation

@ref	Spore formation	Confidence
43385
125438		92.36
125439		98.8

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43385	NaCl	positive	growth	0-5 %(w/v)
121811	NaCl	positive	growth	0-4 %
121811	NaCl		growth	6 %
121811	NaCl		growth	8 %
121811	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43385	16763 ChEBI	2-oxobutanoate	+	oxidation
43385	30916 ChEBI	2-oxoglutarate	+	oxidation
43385	16724 ChEBI	4-hydroxybutyrate	+	oxidation
43385	17925 ChEBI	alpha-D-glucose	+	oxidation
43385	29016 ChEBI	arginine	+	hydrolysis
43385	8295 ChEBI	beta-hydroxybutyrate	+	oxidation
43385	73706 ChEBI	bromosuccinate	+	oxidation
43385		casein	-	hydrolysis
43385	17057 ChEBI	cellobiose	+	oxidation
43385	62968 ChEBI	cellulose	-	hydrolysis
43385	16383 ChEBI	cis-aconitate	+	oxidation
43385	16947 ChEBI	citrate	+	carbon source
43385	16947 ChEBI	citrate	+	oxidation
121811	16947 ChEBI	citrate	+	carbon source
43385	15824 ChEBI	D-fructose	+	oxidation
43385	28847 ChEBI	D-fucose	+	builds acid from
43385	12936 ChEBI	D-galactose	+	oxidation
43385	15748 ChEBI	D-glucuronate	+	oxidation
43385	16551 ChEBI	D-trehalose	+	oxidation
43385	65327 ChEBI	D-xylose	+	builds acid from
43385	23652 ChEBI	dextrin	+	oxidation
43385	4853 ChEBI	esculin	-	hydrolysis
43385	4853 ChEBI	esculin	+	builds acid from
121811	4853 ChEBI	esculin	+	hydrolysis
43385	15740 ChEBI	formate	+	oxidation
43385	5291 ChEBI	gelatin	-	hydrolysis
43385	28066 ChEBI	gentiobiose	+	oxidation
43385	17234 ChEBI	glucose	-	fermentation
43385	17754 ChEBI	glycerol	+	oxidation
43385	28087 ChEBI	glycogen	+	oxidation
43385	606565 ChEBI	hippurate	-	hydrolysis
121811	606565 ChEBI	hippurate	+	hydrolysis
43385	30849 ChEBI	L-arabinose	+	oxidation
43385	30849 ChEBI	L-arabinose	+	builds acid from
43385	17196 ChEBI	L-asparagine	+	oxidation
43385	18287 ChEBI	L-fucose	+	oxidation
43385	18287 ChEBI	L-fucose	+	builds acid from
43385	29985 ChEBI	L-glutamate	+	oxidation
43385	18183 ChEBI	L-pyroglutamic acid	+	oxidation
43385	62345 ChEBI	L-rhamnose	+	oxidation
43385	24996 ChEBI	lactate	+	oxidation
43385	6359 ChEBI	lactulose	+	oxidation
121811	15792 ChEBI	malonate	-	assimilation
43385	17306 ChEBI	maltose	+	oxidation
43385	28053 ChEBI	melibiose	+	oxidation
43385	75146 ChEBI	monomethyl succinate	+	oxidation
43385	17268 ChEBI	myo-inositol	+	oxidation
121811	17632 ChEBI	nitrate	+	builds gas from
121811	17632 ChEBI	nitrate	+	reduction
121811	17632 ChEBI	nitrate	+	respiration
121811	16301 ChEBI	nitrite	-	builds gas from
121811	16301 ChEBI	nitrite	+	reduction
43385	26490 ChEBI	quinate	+	oxidation
43385	28017 ChEBI	starch	-	hydrolysis
43385	30031 ChEBI	succinate	+	oxidation
43385	17992 ChEBI	sucrose	+	oxidation
43385	32528 ChEBI	turanose	+	oxidation
43385	53426 ChEBI	tween 80	-	hydrolysis
43385	27248 ChEBI	urocanic acid	+	oxidation

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121811	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
43385	15688 ChEBI	acetoin
43385	16136 ChEBI	hydrogen sulfide
43385	35581 ChEBI	indole
121811	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
43385	15688 ChEBI	acetoin	-
121811	15688 ChEBI	acetoin	-
43385	17234 ChEBI	glucose		-
121811	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121811	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
121811	amylase	-
68382	beta-galactosidase	+	3.2.1.23	from API zym
121811	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
121811	caseinase	-	3.4.21.50
121811	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
121811	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
121811	gamma-glutamyltransferase	-	2.3.2.2
121811	gelatinase	-
121811	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
121811	lipase	-
68382	lipase (C 14)	-		from API zym
121811	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
121811	ornithine decarboxylase	-	4.1.1.17
121811	oxidase	+
121811	phenylalanine ammonia-lyase	-	4.3.1.24
43385	phenylalanine deaminase	-	4.3.1.5
43385	phosphatase	+
68382	trypsin	+	3.4.21.4	from API zym
121811	tryptophan deaminase	-
121811	tween esterase	-
43385	urease	+	3.5.1.5
121811	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	butanoate fermentation	100	4 of 4
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	gallate degradation	100	5 of 5
66794	cyanate degradation	100	3 of 3
66794	formaldehyde oxidation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	resorcinol degradation	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	quinate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	aerobactin biosynthesis	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	lactate fermentation	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	tetrahydrofolate metabolism	100	14 of 14
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	suberin monomers biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	photosynthesis	92.86	13 of 14
66794	vitamin B1 metabolism	92.31	12 of 13
66794	phenylalanine metabolism	92.31	12 of 13
66794	vitamin B12 metabolism	91.18	31 of 34
66794	pentose phosphate pathway	90.91	10 of 11
66794	4-hydroxyphenylacetate degradation	90	9 of 10
66794	alanine metabolism	89.66	26 of 29
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	d-mannose degradation	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	serine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	4-hydroxymandelate degradation	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	ketogluconate metabolism	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	leucine metabolism	84.62	11 of 13
66794	pyrimidine metabolism	84.44	38 of 45
66794	degradation of sugar acids	84	21 of 25
66794	purine metabolism	81.91	77 of 94
66794	proline metabolism	81.82	9 of 11
66794	tryptophan metabolism	81.58	31 of 38
66794	degradation of sugar alcohols	81.25	13 of 16
66794	hydrogen production	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	creatinine degradation	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	phenol degradation	80	16 of 20
66794	peptidoglycan biosynthesis	80	12 of 15
66794	3-chlorocatechol degradation	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	tyrosine metabolism	78.57	11 of 14
66794	glutathione metabolism	78.57	11 of 14
66794	degradation of pentoses	78.57	22 of 28
66794	allantoin degradation	77.78	7 of 9
66794	oxidative phosphorylation	76.92	70 of 91
66794	urea cycle	76.92	10 of 13
66794	CMP-KDO biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	3-phenylpropionate degradation	73.33	11 of 15
66794	vitamin B6 metabolism	72.73	8 of 11
66794	histidine metabolism	72.41	21 of 29
66794	lysine metabolism	71.43	30 of 42
66794	heme metabolism	71.43	10 of 14
66794	non-pathway related	71.05	27 of 38
66794	arginine metabolism	70.83	17 of 24
66794	phosphatidylethanolamine bioynthesis	69.23	9 of 13
66794	lipid metabolism	67.74	21 of 31
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	nitrate assimilation	66.67	6 of 9
66794	glycolysis	64.71	11 of 17
66794	d-xylose degradation	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	sulfate reduction	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	degradation of hexoses	61.11	11 of 18
66794	glycogen metabolism	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	O-antigen biosynthesis	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	myo-inositol biosynthesis	60	6 of 10
66794	methionine metabolism	57.69	15 of 26
66794	propanol degradation	57.14	4 of 7
66794	isoprenoid biosynthesis	53.85	14 of 26
66794	phenylmercury acetate degradation	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycogen biosynthesis	50	2 of 4
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	biotin biosynthesis	50	2 of 4
66794	glycine metabolism	50	5 of 10
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	ascorbate metabolism	50	11 of 22
66794	coenzyme M biosynthesis	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	ribulose monophosphate pathway	50	1 of 2
66794	metabolism of disaccharids	45.45	5 of 11
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	vitamin K metabolism	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	arachidonic acid metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	sphingosine metabolism	33.33	2 of 6
66794	pantothenate biosynthesis	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	carotenoid biosynthesis	31.82	7 of 22
66794	starch degradation	30	3 of 10
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	methanogenesis from CO2	25	3 of 12
66794	catecholamine biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	phenylpropanoid biosynthesis	23.08	3 of 13
66794	daunorubicin biosynthesis	22.22	2 of 9

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
121811	-	+	+	+	-	+	-	-	+	-	+	+	+	+	-	+	-	-	-	-

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
121811	not determinedn.d.	+	+	+	+	+	-	+	-	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	+	+	+	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Decomposing plant
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
5536	surface of decomposing reed rhizomes	Lake Fertó	Hungary	HUN	Europe
43385	surface of decomposing reed rhizomes from Lake Fertö	Lake Fertö	Hungary	HUN	Europe
60266	Surface of decomposing reed rhizomes	Lake Fertö	Hungary	HUN	Europe
121811	Surface of decomposing reed rhizomes		Hungary	HUN	Europe	1998

Taxonmaps

69479

Global distribution of 16S sequence AJ400704 (>99% sequence identity) for Pannonibacter from Microbeatlas

Aquatic Samples	5053
Soil Samples	2317
Animal Samples	4774
Plant Samples	650
Total Samples	12794

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5536	1	Risk group (German classification) According to TRBA 466
121811	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	ASM38236v1 assembly for Pannonibacter phragmitetus DSM 14782	scaffold	GCA_000382365	1122929.3	2521172637	1122929	70.39

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5536	Pannonibacter phragmitetus partial 16S rRNA gene, type strain C6-19T	AJ400704	1475		121719

GC content

@ref	GC-content (mol%)	Method
5536	64.6
43385	64.6	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pannonibacter phragmitetus DSM 14782
NCBI: GCA_000382365

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.80	no
125439	motility	BacteriaNetⓘ	yes	81.20	no
125439	gram_stain	BacteriaNetⓘ	negative	99.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	79.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pannonibacter phragmitetus DSM 14782 DSM 14782
NCBI: GCA_000382365.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	yes
125438	anaerobic	anaerobicⓘ	no	94.93	yes
125438	aerobic	aerobicⓘ	yes	83.75	no
125438	spore-forming	spore-formingⓘ	no	92.36	yes
125438	thermophilic	thermophileⓘ	no	97.99	yes
125438	flagellated	motile2+ⓘ	yes	72.71	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Genomic insights of Pannonibacter phragmitetus strain 31801 isolated from a patient with a liver abscess.	Zhou Y, Jiang T, Hu S, Wang M, Ming D, Chen S.	Microbiologyopen	10.1002/mbo3.515	2017
	Draft Genome Sequence of Pannonibacter phragmitetus Strain CGMCC9175, a Halotolerant Polycyclic Aromatic Hydrocarbon-Degrading Bacterium.	Wang X, Jin D, Zhou L, Zhang Z.	Genome Announc	10.1128/genomea.01675-15	2016
Genetics	Pannonibacter anstelovis sp. nov. Isolated from Two Cases of Bloodstream Infections in Paediatric Patients.	Castellana S, De Laurentiis V, Bianco A, Del Sambro L, Grassi M, De Leonardis F, Derobertis AM, De Carlo C, Sparapano E, Mosca A, Stolfa S, Ronga L, Santacroce L, Chironna M, Parisi M, Capozzi L, Parisi A.	Microorganisms	10.3390/microorganisms12040799	2024
Phylogeny	Pannonibacter carbonis sp. nov., isolated from coal mine water.	Xi L, Qiao N, Liu D, Li J, Zhang J, Liu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002794	2018
Phylogeny	Pannonibacter indica sp. nov., a highly arsenate-tolerant bacterium isolated from a hot spring in India.	Bandyopadhyay S, Schumann P, Das SK	Arch Microbiol	10.1007/s00203-012-0840-z	2012
Phylogeny	Pannonibacter phragmitetus gen. nov., sp. nov., a novel alkalitolerant bacterium isolated from decomposing reed rhizomes in a Hungarian soda lake.	Borsodi AK, Micsinai A, Kovacs G, Toth E, Schumann P, Kovacs AL, Boddi B, Marialigeti K	Int J Syst Evol Microbiol	10.1099/ijs.0.02356-0	2003

References

#5536	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14782
#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 )
#39971	; Curators of the CIP;
#43385	Andrea K. Borsodi, Adrienn Micsinai, Gábor Kovács, Erika Tóth, Peter Schumann, Attila L. Kovács, Béla Böddi and Károly Márialigeti: Pannonibacter phragmitetus gen. nov., sp. nov., a novel alkalitolerant bacterium isolated from decomposing reed rhizomes in a Hungarian soda lake. IJSEM 53: 555 - 561 2003 ( DOI 10.1099/ijs.0.02356-0 , PubMed 12710626 )
#60266	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 54624
#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 )
#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 .
#121811	Collection of Institut Pasteur ; Curators of the CIP; CIP 107962
#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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Pannonibacter phragmitetus (DSM 14782, NCAIM B02025, CCUG 54624)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000382365

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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