Pannonibacter phragmitetus C6/19 | Type strain | DSM 14782, NCAIM B02025, CCUG 54624, CIP 107962 | BacDiveID:13692

Strain identifier

BacDive ID: 13692

Type strain:

Species: Pannonibacter phragmitetus

Strain Designation: C6/19

Culture col. no.: DSM 14782, NCAIM B02025, CCUG 54624, CIP 107962

Strain history: CIP <- 2003, NCAIM <- A.K. Borsodi: strain C6/19

NCBI tax ID(s): 1122929 (strain), 121719 (species)

SI-ID 100841

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

Other strains from Pannonibacter phragmitetus

P. phragmitetus C6/8, DSM 14780, NCAIM B02027
P. phragmitetus C6/17, DSM 14781, NCAIM B02026
P. phragmitetus CCUG 24693, LMG 5431
P. phragmitetus CCUG 30180

Section

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

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Stappiaceae*
	Genus	*Pannonibacter*
	Species	**Pannonibacter phragmitetus**
	Full Scientific Name (LPSN)	Pannonibacter phragmitetus Borsodi et al. 2003

Information on morphological and physiological properties Morphology

[Ref.: #43385]	Gram stain	negative
[Ref.: #121811]	Gram stain	negative

[Ref.: #43385]	Cell length	2-4 µm

[Ref.: #43385]	Cell width	0.3-0.6 µm

[Ref.: #43385]	Cell shape	rod-shaped
[Ref.: #121811]	Cell shape	rod-shaped

[Ref.: #43385]	Motility	yes
[Ref.: #121811]	Motility	no

[Ref.: #43385]	Flagellum arrangement	polar

[Ref.: #43385]	Colony size	2-4 mm
[Ref.: #43385]	Colony color	whitish-beige
[Ref.: #43385]	Colony shape	circular
[Ref.: #43385]	Cultivation medium used	Horikoshi alkaline agar

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

HORIKOSHI ALKALINE (DSMZ Medium 940)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

Culture medium

MEDIUM 72- for trypto casein soja agar

Culture medium growth

Culture medium composition

expand / minimize

Culture medium

Horikoshi alkaline agar

Culture medium growth

[Ref.: #121811]

Culture medium

CIP Medium 72

[Ref.: #121811]

Culture medium growth

[Ref.: #121811]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #121811]

Culture medium

CIP Medium 328

[Ref.: #121811]

Culture medium growth

[Ref.: #121811]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #5536]			growth	28 °C
[Ref.: #39971]			growth	30 °C
[Ref.: #43385]			growth	10-37 °C
[Ref.: #43385]			optimum	22-28 °C
[Ref.: #60266]			growth	37 °C
[Ref.: #121811]			growth	15-41 °C
[Ref.: #121811]		no	growth	5 °C
[Ref.: #121811]		no	growth	45 °C

[Ref.: #5536]	Temperature range	mesophilic
[Ref.: #39971]	Temperature range	mesophilic
[Ref.: #60266]	Temperature range	mesophilic
[Ref.: #121811]	Temperature range	psychrophilic
[Ref.: #121811]	Temperature range	thermophilic

	pH	Kind of pH		pH
[Ref.: #43385]			optimum	9-10
[Ref.: #43385]			growth	7-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43385]	Oxygen tolerance	facultative anaerobe
[Ref.: #60266]	Oxygen tolerance	aerobe
[Ref.: #121811]	Oxygen tolerance	obligate aerobe

Nutrition type

chemoorganotroph

Ability of spore formation

no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43385]		NaCl		growth	0-5	%(w/v)
[Ref.: #121811]		NaCl		growth	0-4	%
[Ref.: #121811]		NaCl	no	growth	6	%
[Ref.: #121811]		NaCl	no	growth	8	%
[Ref.: #121811]		NaCl	no	growth	10	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43385]		2-oxobutanoate ChEBI	+	oxidation
[Ref.: #43385]		2-oxoglutarate ChEBI	+	oxidation
[Ref.: #43385]		4-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #43385]		alpha-D-glucose ChEBI	+	oxidation
[Ref.: #43385]		arginine ChEBI	+	hydrolysis
[Ref.: #43385]		beta-hydroxybutyrate ChEBI	+	oxidation
[Ref.: #43385]		bromosuccinate ChEBI	+	oxidation
[Ref.: #43385]		casein	-	hydrolysis
[Ref.: #43385]		cellobiose ChEBI	+	oxidation
[Ref.: #43385]		cellulose ChEBI	-	hydrolysis
[Ref.: #43385]		cis-aconitate ChEBI	+	oxidation
[Ref.: #43385]		citrate ChEBI	+	carbon source
[Ref.: #43385]		citrate ChEBI	+	oxidation
[Ref.: #121811]		citrate ChEBI	+	carbon source
[Ref.: #43385]		D-fructose ChEBI	+	oxidation
[Ref.: #43385]		D-fucose ChEBI	+	builds acid from
[Ref.: #43385]		D-galactose ChEBI	+	oxidation
[Ref.: #43385]		D-glucuronate ChEBI	+	oxidation
[Ref.: #43385]		D-trehalose ChEBI	+	oxidation
[Ref.: #43385]		D-xylose ChEBI	+	builds acid from
[Ref.: #43385]		dextrin ChEBI	+	oxidation
[Ref.: #43385]		esculin ChEBI	-	hydrolysis
[Ref.: #43385]		esculin ChEBI	+	builds acid from
[Ref.: #121811]		esculin ChEBI	+	hydrolysis
[Ref.: #43385]		formate ChEBI	+	oxidation
[Ref.: #43385]		gelatin ChEBI	-	hydrolysis
[Ref.: #43385]		gentiobiose ChEBI	+	oxidation
[Ref.: #43385]		glucose ChEBI	-	fermentation
[Ref.: #43385]		glycerol ChEBI	+	oxidation
[Ref.: #43385]		glycogen ChEBI	+	oxidation
[Ref.: #43385]		hippurate ChEBI	-	hydrolysis
[Ref.: #121811]		hippurate ChEBI	+	hydrolysis
[Ref.: #43385]		L-arabinose ChEBI	+	oxidation
[Ref.: #43385]		L-arabinose ChEBI	+	builds acid from
[Ref.: #43385]		L-asparagine ChEBI	+	oxidation
[Ref.: #43385]		L-fucose ChEBI	+	oxidation
[Ref.: #43385]		L-fucose ChEBI	+	builds acid from
[Ref.: #43385]		L-glutamate ChEBI	+	oxidation
[Ref.: #43385]		L-pyroglutamic acid ChEBI	+	oxidation
[Ref.: #43385]		L-rhamnose ChEBI	+	oxidation
[Ref.: #43385]		lactate ChEBI	+	oxidation
[Ref.: #43385]		lactulose ChEBI	+	oxidation
[Ref.: #121811]		malonate ChEBI	-	assimilation
[Ref.: #43385]		maltose ChEBI	+	oxidation
[Ref.: #43385]		melibiose ChEBI	+	oxidation
[Ref.: #43385]		monomethyl succinate ChEBI	+	oxidation
[Ref.: #43385]		myo-inositol ChEBI	+	oxidation
[Ref.: #121811]		nitrate ChEBI	+	builds gas from
[Ref.: #121811]		nitrate ChEBI	+	reduction
[Ref.: #121811]		nitrate ChEBI	+	respiration
[Ref.: #121811]		nitrite ChEBI	-	builds gas from
[Ref.: #121811]		nitrite ChEBI	+	reduction
[Ref.: #43385]		quinate ChEBI	+	oxidation
[Ref.: #43385]		starch ChEBI	-	hydrolysis
[Ref.: #43385]		succinate ChEBI	+	oxidation
[Ref.: #43385]		sucrose ChEBI	+	oxidation
[Ref.: #43385]		turanose ChEBI	+	oxidation
[Ref.: #43385]		tween 80 ChEBI	-	hydrolysis
[Ref.: #43385]		urocanic acid ChEBI	+	oxidation
		Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #121811]		0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)	yes	no

	Metabolite production	Metabolite	Production
[Ref.: #43385]		acetoin ChEBI	no
[Ref.: #43385]		hydrogen sulfide ChEBI	no
[Ref.: #43385]		indole ChEBI	no
[Ref.: #121811]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #43385]		acetoin ChEBI	-
[Ref.: #121811]		acetoin ChEBI	-
[Ref.: #43385]		glucose ChEBI		-
[Ref.: #121811]		glucose ChEBI		-

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #68382]		acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #121811]		alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]		alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]		alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]		alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]		alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]		alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]		alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #121811]		amylase	-
[Ref.: #121811]		beta-galactosidase	+	3.2.1.23
[Ref.: #68382]		beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]		beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]		beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #121811]		caseinase	-	3.4.21.50
[Ref.: #121811]		catalase	+	1.11.1.6
[Ref.: #68382]		cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #121811]		DNase	-
[Ref.: #68382]		esterase (C 4)	+		* from API zym
[Ref.: #68382]		esterase lipase (C 8)	+		* from API zym
[Ref.: #121811]		gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #121811]		gelatinase	-
[Ref.: #121811]		lecithinase	-
[Ref.: #68382]		leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #121811]		lipase	-
[Ref.: #68382]		lipase (C 14)	-		* from API zym
[Ref.: #121811]		lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]		N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]		naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #121811]		ornithine decarboxylase	-	4.1.1.17
[Ref.: #121811]		oxidase	+
[Ref.: #121811]		phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #43385]		phenylalanine deaminase	-	4.3.1.5
[Ref.: #43385]		phosphatase	+
[Ref.: #68382]		trypsin	+	3.4.21.4	* from API zym
[Ref.: #121811]		tryptophan deaminase	-
[Ref.: #121811]		tween esterase	-
[Ref.: #43385]		urease	+	3.5.1.5
[Ref.: #121811]		urease	+	3.5.1.5
[Ref.: #68382]		valine arylamidase	-		* from API zym
		Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	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
[Ref.: #121811]	2516	not determinedn.d.	+	+	+	+	+	-	+	-	-	-	-	-	-	-	+	+	+	+	+	+	-	+	+	+	+	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	+	+	+	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #121811]	10780	-	+	+	+	-	+	-	-	+	-	+	+	+	+	-	+	-	-	-	-

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

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #5536]	Sample type/isolated from	surface of decomposing reed rhizomes
[Ref.: #5536]	Geographic location (country and/or sea, region)	Lake Fertó
[Ref.: #5536]	Country	Hungary
[Ref.: #5536]	Country ISO 3 Code	HUN
[Ref.: #5536]	Continent	Europe

[Ref.: #43385]	Sample type/isolated from	surface of decomposing reed rhizomes from Lake Fertö
[Ref.: #43385]	Geographic location (country and/or sea, region)	Lake Fertö
[Ref.: #43385]	Country	Hungary
[Ref.: #43385]	Country ISO 3 Code	HUN
[Ref.: #43385]	Continent	Europe

[Ref.: #60266]	Sample type/isolated from	Surface of decomposing reed rhizomes
[Ref.: #60266]	Geographic location (country and/or sea, region)	Lake Fertö
[Ref.: #60266]	Country	Hungary
[Ref.: #60266]	Country ISO 3 Code	HUN
[Ref.: #60266]	Continent	Europe

[Ref.: #121811]	Sample type/isolated from	Surface of decomposing reed rhizomes
[Ref.: #121811]	Country	Hungary
[Ref.: #121811]	Country ISO 3 Code	HUN
[Ref.: #121811]	Continent	Europe
[Ref.: #121811]	Isolation date	1998
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #5536]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #121811]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #5536]	Pannonibacter phragmitetus partial 16S rRNA gene, type strain C6-19T	AJ400704	1475	ENA	121719 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pannonibacter phragmitetus DSM 14782	GCA_000382365	scaffold	GenBank	1122929 tax ID	*
[Ref.: #66792]	Pannonibacter phragmitetus DSM 14782	1122929.3	wgs	PATRIC	1122929 tax ID	*
[Ref.: #66792]	Pannonibacter phragmitetus DSM 14782	2521172637	draft	JGI IMG/M	1122929 tax ID	*

[Ref.: #5536]	GC-content	64.6 mol%
[Ref.: #43385]	GC-content	64.6 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pannonibacter phragmitetus DSM 14782 DSM 14782 NCBI: GCA_000382365.1
[Ref.: #69480]	motile	yes	87.324	yes
[Ref.: #69480]	flagellated	yes	71.77	yes
[Ref.: #69480]	gram-positive	no	98.868	yes
[Ref.: #69480]	anaerobic	no	97.469	no
[Ref.: #69480]	aerobic	yes	83.897	no
[Ref.: #69480]	halophile	no	73.093	no
[Ref.: #69480]	spore-forming	no	95.311	yes
[Ref.: #69480]	thermophile	no	95.631	yes
[Ref.: #69480]	glucose-util	yes	89.296	no
[Ref.: #69480]	glucose-ferment	no	89.913	yes

Availability in culture collections External links

Culture collection no.

DSM 14782, NCAIM B02025, CCUG 54624, CIP 107962

SI-ID 100841

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#82876

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID100841.1 )

#121811 Collection of Institut Pasteur ; Curators of the CIP; CIP 107962
* These data were automatically processed and therefore are not curated

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