Name: Gluconacetobacter diazotrophicus PA 5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 40

Type strain:

Species: Gluconacetobacter diazotrophicus

Strain Designation: PA 5

Culture col. no.: DSM 5601, ATCC 49037, LMG 7603, CCUG 37298

Strain history: <- LMG <- J. Döbereiner, PA 5

NCBI tax ID(s): 272568 (strain), 33996 (species)

Section

Gluconacetobacter diazotrophicus PA 5 is a mesophilic bacterium that was isolated from sugarcane roots.

mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodospirillales*
	Family	*Acetobacteraceae*
	Genus	*Gluconacetobacter*
	Species	**Gluconacetobacter diazotrophicus**
	Full Scientific Name (PNU)	Gluconacetobacter diazotrophicus corrig. (Gillis et al. 1989) Yamada et al. 1998

	Synonym	Acetobacter diazotrophicus
	Synonym	Gluconoacetobacter diazotrophicus

Information on culture and growth conditions Culture and growth conditions

[Ref.: #2248]

Culture medium

SABOURAND GLUCOSE MEDIUM (DSMZ Medium 1429)

[Ref.: #2248]

Culture medium growth

[Ref.: #2248]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #2248]

Culture medium composition

expand / minimize

[Ref.: #40703]

Culture medium

MEDIUM 1 - for Acetobacter, Azotobacter, Gluconobacter, Gluconacetobacter, Mesorhizodium ciceri and Pseudomonas doudoroffii

[Ref.: #40703]

Culture medium growth

[Ref.: #40703]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #2248]			growth	28 °C
[Ref.: #40703]			growth	30 °C

[Ref.: #2248]	Temperature range	mesophilic
[Ref.: #40703]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #22919]	acetylene ChEBI	+	reduction
[Ref.: #22919]	butanol ChEBI	-	growth
[Ref.: #22919]	D-arabinose ChEBI	+	growth
[Ref.: #22919]	D-galactose ChEBI	+	growth
[Ref.: #22919]	D-glucose ChEBI	+	growth
[Ref.: #22919]	D-mannitol ChEBI	+	growth
[Ref.: #22919]	D-sorbitol ChEBI	+	growth
[Ref.: #22919]	D-xylose ChEBI	+/-	growth
[Ref.: #22919]	ethanol ChEBI	+/-	growth
[Ref.: #22919]	galactitol ChEBI	-	growth
[Ref.: #22919]	galactose ChEBI	+	growth
[Ref.: #22919]	gluconate ChEBI	+	growth
[Ref.: #22919]	glycerol ChEBI	+	growth
[Ref.: #22919]	glycine ChEBI	-	growth
[Ref.: #22919]	L-alanine ChEBI	+	nitrogen source
[Ref.: #22919]	L-aspartate ChEBI	+	nitrogen source
[Ref.: #22919]	L-cysteine ChEBI	+	nitrogen source
[Ref.: #22919]	L-fructose ChEBI	+	growth
[Ref.: #22919]	L-glutamate ChEBI	+	nitrogen source
[Ref.: #22919]	L-leucine ChEBI	+/-	growth
[Ref.: #22919]	L-lysine ChEBI	+/-	growth
[Ref.: #22919]	L-methionine ChEBI	-	growth
[Ref.: #22919]	L-proline ChEBI	+	nitrogen source
[Ref.: #22919]	L-rhamnose ChEBI	-	growth
[Ref.: #22919]	L-threonine ChEBI	-	growth
[Ref.: #22919]	L-tryptophan ChEBI	+	nitrogen source
[Ref.: #22919]	lactose ChEBI	-	growth
[Ref.: #22919]	malate ChEBI	-	growth
[Ref.: #22919]	maltose ChEBI	+/-	growth
[Ref.: #22919]	mannose ChEBI	+/-	growth
[Ref.: #22919]	melibiose ChEBI	+/-	growth
[Ref.: #22919]	methanol ChEBI	-	growth
[Ref.: #22919]	myo-inositol ChEBI	-	growth
[Ref.: #22919]	nitrate ChEBI	-	reduction
[Ref.: #22919]	raffinose ChEBI	+	growth
[Ref.: #22919]	sorbitol ChEBI	+	carbon source
[Ref.: #22919]	starch ChEBI	-	growth
[Ref.: #22919]	sucrose ChEBI	+	growth
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #22919]		catalase	+	1.11.1.6
[Ref.: #22919]		cytochrome oxidase	-	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	ketogluconate metabolism	100	8 of 8
[Ref.: #66794]	quinate degradation	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	propanol degradation	100	7 of 7
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	butanoate fermentation	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	taurine degradation	100	1 of 1
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	tetrahydrofolate metabolism	100	14 of 14
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	myo-inositol biosynthesis	90	9 of 10
[Ref.: #66794]	glutamate and glutamine metabolism	89.29	25 of 28
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	methionine metabolism	88.46	23 of 26
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	purine metabolism	81.91	77 of 94
[Ref.: #66794]	vitamin B6 metabolism	81.82	9 of 11
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	allantoin degradation	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	lactate fermentation	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	sulfoquinovose degradation	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[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]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	degradation of pentoses	64.29	18 of 28
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	metabolism of disaccharids	63.64	7 of 11
[Ref.: #66794]	non-pathway related	63.16	24 of 38
[Ref.: #66794]	oxidative phosphorylation	62.64	57 of 91
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	61.54	8 of 13
[Ref.: #66794]	lipid metabolism	61.29	19 of 31
[Ref.: #66794]	tryptophan metabolism	60.53	23 of 38
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	creatinine degradation	60	3 of 5
[Ref.: #66794]	degradation of sugar acids	60	15 of 25
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	arachidonic acid metabolism	55.56	10 of 18
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	3-phenylpropionate degradation	53.33	8 of 15
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	degradation of hexoses	50	9 of 18
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	vitamin B12 metabolism	50	17 of 34
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	ascorbate metabolism	45.45	10 of 22
[Ref.: #66794]	cholesterol biosynthesis	45.45	5 of 11
[Ref.: #66794]	4-hydroxymandelate degradation	44.44	4 of 9
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	41.18	7 of 17
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	carotenoid biosynthesis	27.27	6 of 22
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
		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.: #2248]	Sample type/isolated from	sugarcane roots
[Ref.: #2248]	Geographic location (country and/or sea, region)	Alagoas
[Ref.: #2248]	Country	Brazil
[Ref.: #2248]	Country ISO 3 Code	BRA
[Ref.: #2248]	Continent	Middle and South America

[Ref.: #53588]	Sample type/isolated from	Root,Saccharum officinarum
[Ref.: #53588]	Geographic location (country and/or sea, region)	Alagoas
[Ref.: #53588]	Country	Brazil
[Ref.: #53588]	Country ISO 3 Code	BRA
[Ref.: #53588]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X75618 (>99% sequence identity) for Gluconacetobacter diazotrophicus from Microbeatlas

Aquatic Samples	234
Soil Samples	473
Animal Samples	677
Plant Samples	2281
Total Samples	3665

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

[Ref.: #2248]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #20218]	A.diazotrophicus gene for 16S ribosomal RNA	X75618	1485	ENA	272568 tax ID	*
[Ref.: #20218]	Gluconacetobacter diazotrophicus strain DSM 5601 16S ribosomal RNA gene, partial sequence	JF793977	1356	ENA	33996 tax ID	*
[Ref.: #20218]	Gluconacetobacter diazotrophicus strain LMG 7603 16S ribosomal RNA gene, partial sequence	JF793976	1356	ENA	33996 tax ID	*
[Ref.: #20218]	Mutant Gluconacetobacter diazotrophicus PAL5 substrain B5 16S-23S ribosomal RNA intergenic spacer, partial sequence; and tRNA-Ile (trnI) gene, complete sequence	EF999412	230	ENA	272568 tax ID	*
[Ref.: #20218]	Mutant Gluconacetobacter diazotrophicus PAL5 substrain B9 16S-23S ribosomal RNA intergenic spacer, partial sequence	EF999413	319	ENA	272568 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gluconacetobacter diazotrophicus LMG 7603	GCA_014174315	contig	GenBank	33996 tax ID	*
[Ref.: #66792]	Gluconacetobacter diazotrophicus PA1 5 strain PAl 5	272568.38	plasmid	PATRIC	272568 tax ID	*
[Ref.: #66792]	Gluconacetobacter diazotrophicus PA1 5 strain PAl 5	272568.37	plasmid	PATRIC	272568 tax ID	*
[Ref.: #66792]	Gluconacetobacter diazotrophicus PA1 5 strain PAl 5 strain PAl 5; ATCC 49037	272568.39	plasmid	PATRIC	272568 tax ID	*
[Ref.: #66792]	Gluconacetobacter diazotrophicus PAl 5	272568.12	complete	PATRIC	272568 tax ID	*
[Ref.: #66792]	Gluconacetobacter diazotrophicus PAl 5 (Prj:21071)	272568.11	complete	PATRIC	272568 tax ID	*

[Ref.: #2248]

GC-content

61.0 mol%

Availability in culture collections External links

[Ref.: #2248]

Culture collection no.

DSM 5601, ATCC 49037, LMG 7603, CCUG 37298

[Ref.: #20218]

Associated Passport(s) in StrainInfo

159296, 79, 78

Literature:

	Title	Authors	Journal	DOI	Year
Phylogeny	A putative new endophytic nitrogen-fixing bacterium Pantoea sp. from sugarcane.	Loiret FG, Ortega E, Kleiner D, Ortega-Rodes P, Rodes R, Dong Z	J Appl Microbiol	10.1111/j.1365-2672.2004.02329.x	2004	*
Phylogeny	Effects of the inoculation of Burkholderia vietnamensis and related endophytic diazotrophic bacteria on grain yield of rice.	Govindarajan M, Balandreau J, Kwon SW, Weon HY, Lakshminarasimhan C	Microb Ecol	10.1007/s00248-007-9247-9	2007	*
Genetics	Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAl 5, suggest a new standard in genome sequence submission.	Giongo A, Tyler HL, Zipperer UN, Triplett EW	Stand Genomic Sci	10.4056/sigs.972221	2010	*
	Further observations on the interaction between sugar cane and Gluconacetobacter diazotrophicus under laboratory and greenhouse conditions.	James EK, Olivares FL, de Oliveira AL, dos Reis FB Jr, da Silva LG, Reis VM	J Exp Bot	10.1093/jexbot/52.357.747	2001	*

References

#2248

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5601

#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 )

#22919

L E Fuentes-Ramírez, R Bustillos-Cristales, A Tapia-Hernández, T Jiménez-Salgado, E T Wang, E Martínez-Romero, J Caballero-Mellado: Novel nitrogen-fixing acetic acid bacteria, Gluconacetobacter johannae sp. nov. and Gluconacetobacter azotocaptans sp. nov., associated with coffee plants.. IJSEM 51: 1305 - 1314 2001 ( DOI 10.1099/00207713-51-4-1305 , PubMed 11491326 )

#40703 ; Curators of the CIP;
#53588 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 37298

#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 )

#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) .

* These data were automatically processed and therefore are not curated

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