Azomonas agilis (DSM 375, ATCC 7494, CCUG 53669)

Name: Azomonas agilis (DSM 375, ATCC 7494, CCUG 53669)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 12717

Type strain

Culture col. no. DSM 375 ATCC 7494 CCUG 53669 LMG 3842 IAM 15039 3 more

NCBI tax ID(s) 1121031 116849

Special Collections DSMZ CCUG

History <- ATCC <- N.R. Smith <- D. Burk <- H.W. Reuszer <- A.J. Kluyver (Azotobacter agilis)

Links

Azomonas agilis DSM 375 is a bacterium of the family Pseudomonadaceae.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 1012

LMG 3842,ATCC 7494,DSM 375,LMG 14901,NCIB 11693,LMG 8754,NCIMB 11693,NCIMB12097,IAM 15039,CCUG 53669,JCM 21502,NBRC 102607

@ref 20215

Last LPSN update 2026-02-09 11:20:55

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Azomonas

Species Azomonas agilis

Full scientific name Azomonas agilis (Beijerinck 1901) Winogradsky 1938 (Approved Lists 1980)

Synonyms (1)

"Azotobacter agilis"

BacDive ID	Other strains from **Azomonas agilis** (1)	Type strain
12718	A. agilis 132, Johnstone 132, DSM 89, ATCC 12838

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98
125439	negative	99.4
125439		90.4

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
163	DIAZOTROPHIC MEDIUM (RBA) (DSMZ Medium 441)		Medium recipe at MediaDive	Name: DIAZOTROPHIC MEDIUM (RBA) (DSMZ Medium 441) Composition: Agar 14.881 g/l DL-Malate 1.98413 g/l D-Glucose 1.98413 g/l D-Mannitol 1.98413 g/l Na-pyruvate 0.992063 g/l Disodium succinate 0.992063 g/l K2HPO4 0.892857 g/l KH2PO4 0.0992065 g/l NaCl 0.0992065 g/l CaCl2 x 2 H2O 0.0992065 g/l MgSO4 x 7 H2O 0.0992065 g/l Yeast extract 0.0496032 g/l FeSO4 x 7 H2O 0.00992065 g/l MnSO4 x H2O 0.00496032 g/l NaVO3 x H2O 0.00496032 g/l Nicotinic acid 0.00248016 g/l Pyridoxine hydrochloride 0.00248016 g/l Calcium pantothenate 0.00248016 g/l Thiamine-HCl x 2 H2O 0.00248016 g/l H3BO3 0.000892857 g/l CoCl2 x 6 H2O 0.000595238 g/l Riboflavin 0.000496032 g/l ZnSO4 x 7 H2O 0.000297619 g/l MnCl2 x 4 H2O 8.92857e-05 g/l Na2MoO4 x 2 H2O 8.92857e-05 g/l NiCl2 x 6 H2O 5.95238e-05 g/l Vitamin B12 4.96032e-05 g/l CuCl2 x 2 H2O 2.97619e-05 g/l Folic acid 9.92063e-06 g/l Biotin 4.96032e-06 g/l Distilled water
163	AZOTOBACTER MEDIUM (DSMZ Medium 3)		Medium recipe at MediaDive	Name: AZOTOBACTER MEDIUM (DSMZ Medium 3) Composition: Agar 15.0 g/l CaCO3 5.0 g/l Glucose 5.0 g/l Mannitol 5.0 g/l K2HPO4 0.9 g/l KH2PO4 0.1 g/l MgSO4 x 7 H2O 0.1 g/l CaCl2 x 2 H2O 0.1 g/l FeSO4 x 7 H2O 0.01 g/l Na2MoO4 x 2 H2O 0.005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
163	positive	growth	26

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		93.795
125439		99.8

Compound production

@ref	Compound
163	fluorescent pigment
163	polyhydroxyalkanoic acids

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	gluconeogenesis	100	8 of 8
66794	valine metabolism	100	9 of 9
66794	formaldehyde oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	enterobactin biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	sulfopterin metabolism	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ubiquinone biosynthesis	100	7 of 7
66794	methylglyoxal degradation	100	5 of 5
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	taurine degradation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	tetrahydrofolate metabolism	100	14 of 14
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	glutathione metabolism	85.71	12 of 14
66794	propanol degradation	85.71	6 of 7
66794	vitamin B6 metabolism	81.82	9 of 11
66794	peptidoglycan biosynthesis	80	12 of 15
66794	flavin biosynthesis	80	12 of 15
66794	gallate degradation	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	photosynthesis	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	citric acid cycle	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	serine metabolism	77.78	7 of 9
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	phenylalanine metabolism	76.92	10 of 13
66794	butanoate fermentation	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	methionine metabolism	73.08	19 of 26
66794	pentose phosphate pathway	72.73	8 of 11
66794	proline metabolism	72.73	8 of 11
66794	alanine metabolism	72.41	21 of 29
66794	NAD metabolism	72.22	13 of 18
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	sulfate reduction	69.23	9 of 13
66794	cysteine metabolism	66.67	12 of 18
66794	3-phenylpropionate degradation	66.67	10 of 15
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	purine metabolism	65.96	62 of 94
66794	non-pathway related	65.79	25 of 38
66794	lipid metabolism	64.52	20 of 31
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	leucine metabolism	61.54	8 of 13
66794	Entner Doudoroff pathway	60	6 of 10
66794	phenylacetate degradation (aerobic)	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	glycolysis	58.82	10 of 17
66794	tryptophan metabolism	57.89	22 of 38
66794	pyrimidine metabolism	57.78	26 of 45
66794	tyrosine metabolism	57.14	8 of 14
66794	polyamine pathway	56.52	13 of 23
66794	oxidative phosphorylation	56.04	51 of 91
66794	d-mannose degradation	55.56	5 of 9
66794	metabolism of disaccharids	54.55	6 of 11
66794	histidine metabolism	51.72	15 of 29
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	selenocysteine biosynthesis	50	3 of 6
66794	arginine metabolism	50	12 of 24
66794	isoprenoid biosynthesis	50	13 of 26
66794	ketogluconate metabolism	50	4 of 8
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	glycogen biosynthesis	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	lysine metabolism	47.62	20 of 42
66794	vitamin B12 metabolism	47.06	16 of 34
66794	phenol degradation	45	9 of 20
66794	degradation of sugar acids	40	10 of 25
66794	factor 420 biosynthesis	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	vitamin K metabolism	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	degradation of pentoses	39.29	11 of 28
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	carnitine metabolism	37.5	3 of 8
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	nitrate assimilation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	degradation of hexoses	33.33	6 of 18
66794	ascorbate metabolism	31.82	7 of 22
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	arachidonic acid metabolism	27.78	5 of 18
66794	cholesterol biosynthesis	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	degradation of sugar alcohols	25	4 of 16
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Taxonmaps

69479

Global distribution of 16S sequence AB681882 (>99% sequence identity) for Azomonas agilis subclade from Microbeatlas

Aquatic Samples	13
Soil Samples	6
Animal Samples	9
Plant Samples	4
Total Samples	32

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
163	1	Risk group (German 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	ASM783025v1 assembly for Azomonas agilis DSM 375	scaffold	GCA_007830255	116849.3	2596583523	116849	68.14

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Azomonas agilis gene for 16S rRNA, partial sequence, strain: NBRC 102607	AB681882	1462		116849
20218	Azomonas agilis gene for 16S rRNA, partial sequence	AB175652	1451		116849

GC content

163

GC-content (mol%)51.9

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Azomonas agilis DSM 375
NCBI: GCA_007830255

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.80	no
125439	motility	BacteriaNetⓘ	yes	90.40	no
125439	gram_stain	BacteriaNetⓘ	negative	99.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	89.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Azomonas agilis DSM 375
NCBI: GCA_007830255.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	no
125438	anaerobic	anaerobicⓘ	no	83.19	no
125438	aerobic	aerobicⓘ	yes	64.06	no
125438	spore-forming	spore-formingⓘ	no	93.80	no
125438	thermophilic	thermophileⓘ	no	98.48	yes
125438	flagellated	motile2+ⓘ	yes	79.14	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Biodiversity of denitrifying and dinitrogen-fixing bacteria in an acid forest soil.	Rosch C, Mergel A, Bothe H.	Appl Environ Microbiol	10.1128/aem.68.8.3818-3829.2002	2002
	Molecular analysis of diazotroph diversity in the rhizosphere of the smooth cordgrass, Spartina alterniflora.	Lovell CR, Piceno YM, Quattro JM, Bagwell CE.	Appl Environ Microbiol	10.1128/aem.66.9.3814-3822.2000	2000
Metabolism	Detection and quantification of methyl tert-butyl ether-degrading strain PM1 by real-time TaqMan PCR.	Hristova KR, Lutenegger CM, Scow KM.	Appl Environ Microbiol	10.1128/aem.67.11.5154-5160.2001	2001
Enzymology	Detection of alternative nitrogenases in aerobic gram-negative nitrogen-fixing bacteria.	Fallik E, Chan YK, Robson RL	J Bacteriol	10.1128/jb.173.1.365-371.1991	1991

References

#163	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 375
#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 )
#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 .
#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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Azomonas agilis (DSM 375, ATCC 7494, CCUG 53669)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Compound production

Pathway annotation

Isolation, sampling and environmental information

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_007830255

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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