Kosakonia arachidis (DSM 25165, KCTC 22375, LMG 26131)

Name: Kosakonia arachidis (DSM 25165, KCTC 22375, LMG 26131)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4383

Type strain

Strain Designation Ah-143

Culture col. no. DSM 25165 KCTC 22375 LMG 26131 NCIMB 14469 CCUG 66539 2 more

NCBI tax ID(s) 551989

Special Collections DSMZ CCUG KCTC Literature strains CIP

Links

Kosakonia arachidis Ah-143 is an aerobe, Gram-negative, motile prokaryote that was isolated from rhizosphere soil of groundnut from experimental plots.

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 370181

KCTC 22375,NCIMB 14469,LMG 26131,CCUG 66539

@ref 20215

Last LPSN update 2025-12-16 09:47:48

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Enterobacteriaceae

Genus Kosakonia

Species Kosakonia arachidis

Full scientific name Kosakonia arachidis (Madhaiyan et al. 2010) Brady et al. 2013

Synonyms (1)

Enterobacter arachidis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29467	negative	2-3.7 µm	0.5-0.7 µm	rod-shaped
67771	negative
116468	negative			rod-shaped
125438	negative				100
125439	negative				97.4

Pigmentation

29467

Productionno

Multimedia

@ref:	17926
multimedia content:	DSM_25165.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_25165.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Composition	Medium link
41604	MEDIUM 328- for nutrient agar	Distilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
116468	CIP Medium 328		Medium recipe at CIP
116468	CIP Medium 566		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
29467	positive	growth	20-30
29467	positive	optimum	28	mesophilic
41604	positive	growth	30	mesophilic
63346	positive	growth	30	mesophilic
67771	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
29467	positive	optimum	7
29467	positive	growth	04-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
29467	aerobe
63346	aerobe
67771	aerobe
125439	aerobe	94.2

Spore formation

@ref	Spore formation	Confidence
29467
125438		90.504
125439		95.4

Compound production

@ref	Compound
17926	indole-3-acetic acid
17926	1 aminocyclopropane-1-carboxylate deaminase
17926	nitrogenase

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29467	NaCl	positive	growth	0-5 %
29467	NaCl	positive	optimum	0-5 %

Observation

29467

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68374	29016 ChEBI	arginine	-	hydrolysis	from API ID32E
68374	17057 ChEBI	cellobiose	+	builds acid from	from API ID32E
29467	16947 ChEBI	citrate	+	carbon source
68374	18333 ChEBI	D-arabitol	-	builds acid from	from API ID32E
68374	18024 ChEBI	D-galacturonic acid	+	builds acid from	from API ID32E
68374	17634 ChEBI	D-glucose	+	builds acid from	from API ID32E
68374	16899 ChEBI	D-mannitol	+	builds acid from	from API ID32E
29467	33984 ChEBI	fucose	+	carbon source
68374	30849 ChEBI	L-arabinose	+	builds acid from	from API ID32E
29467	18403 ChEBI	L-arabitol	+	carbon source
68374	18403 ChEBI	L-arabitol	-	builds acid from	from API ID32E
68374	62345 ChEBI	L-rhamnose	+	builds acid from	from API ID32E
68374	25094 ChEBI	lysine	-	degradation	from API ID32E
68374	15792 ChEBI	malonate	+	assimilation	from API ID32E
68374	17306 ChEBI	maltose	+	builds acid from	from API ID32E
68374	17268 ChEBI	myo-inositol	-	builds acid from	from API ID32E
29467	17632 ChEBI	nitrate	+	reduction
68374	18257 ChEBI	ornithine	-	degradation	from API ID32E
68374	18394 ChEBI	palatinose	-	builds acid from	from API ID32E
68374		Potassium 5-ketogluconate	-	builds acid from	from API ID32E
29467	26546 ChEBI	rhamnose	+	carbon source
68374	15963 ChEBI	ribitol	-	builds acid from	from API ID32E
29467	30911 ChEBI	sorbitol	+	carbon source
68374	30911 ChEBI	sorbitol	+	builds acid from	from API ID32E
29467	30031 ChEBI	succinate	+	carbon source
29467	17992 ChEBI	sucrose	+	carbon source
68374	17992 ChEBI	sucrose	+	builds acid from	from API ID32E
68374	27082 ChEBI	trehalose	+	builds acid from	from API ID32E
68374	27897 ChEBI	tryptophan	-	energy source	from API ID32E
68374	16199 ChEBI	urea	-	hydrolysis	from API ID32E

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68374	35581 ChEBI	indole		from API ID32E

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68374	35581 ChEBI	indole	-	from API ID32E

Enzymes

@ref	Value	Activity	Ec
68374	alpha-galactosidase	-	3.2.1.22	from API ID32E
68374	alpha-glucosidase	-	3.2.1.20	from API ID32E
68374	alpha-maltosidase	-		from API ID32E
68374	arginine dihydrolase	-	3.5.3.6	from API ID32E
68374	beta-galactosidase	+	3.2.1.23	from API ID32E
68374	beta-glucosidase	+	3.2.1.21	from API ID32E
68374	beta-glucuronidase	-	3.2.1.31	from API ID32E
29467	catalase	+	1.11.1.6
29467	cytochrome oxidase	+	1.9.3.1
68374	L-aspartate arylamidase	-	3.4.11.21	from API ID32E
68374	lipase	-		from API ID32E
68374	lysine decarboxylase	-	4.1.1.18	from API ID32E
68374	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API ID32E
68374	ornithine decarboxylase	-	4.1.1.17	from API ID32E
68374	urease	-	3.5.1.5	from API ID32E

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	starch degradation	100	10 of 10
66794	cyanate degradation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	vitamin B6 metabolism	100	11 of 11
66794	adipate degradation	100	2 of 2
66794	acetoin degradation	100	3 of 3
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	lipoate biosynthesis	100	5 of 5
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	enterobactin biosynthesis	100	3 of 3
66794	aspartate and asparagine metabolism	100	9 of 9
66794	L-lactaldehyde degradation	100	3 of 3
66794	ethanol fermentation	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	palmitate biosynthesis	100	22 of 22
66794	formaldehyde oxidation	100	3 of 3
66794	tetrahydrofolate metabolism	100	14 of 14
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ppGpp biosynthesis	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ubiquinone biosynthesis	100	7 of 7
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	gluconeogenesis	100	8 of 8
66794	methylglyoxal degradation	100	5 of 5
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	NAD metabolism	94.44	17 of 18
66794	heme metabolism	92.86	13 of 14
66794	citric acid cycle	92.86	13 of 14
66794	photosynthesis	92.86	13 of 14
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	pentose phosphate pathway	90.91	10 of 11
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	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	alanine metabolism	86.21	25 of 29
66794	glutathione metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	degradation of aromatic, nitrogen containing compounds	83.33	10 of 12
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	glycogen metabolism	80	4 of 5
66794	pyrimidine metabolism	80	36 of 45
66794	peptidoglycan biosynthesis	80	12 of 15
66794	cellulose degradation	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	lipid A biosynthesis	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	purine metabolism	77.66	73 of 94
66794	methionine metabolism	76.92	20 of 26
66794	butanoate fermentation	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	arginine metabolism	75	18 of 24
66794	flavin biosynthesis	73.33	11 of 15
66794	metabolism of disaccharids	72.73	8 of 11
66794	degradation of sugar acids	72	18 of 25
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	non-pathway related	71.05	27 of 38
66794	propionate fermentation	70	7 of 10
66794	urea cycle	69.23	9 of 13
66794	leucine metabolism	69.23	9 of 13
66794	oxidative phosphorylation	68.13	62 of 91
66794	degradation of pentoses	67.86	19 of 28
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	glycolysis	64.71	11 of 17
66794	lipid metabolism	64.52	20 of 31
66794	proline metabolism	63.64	7 of 11
66794	ascorbate metabolism	63.64	14 of 22
66794	d-xylose degradation	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	ketogluconate metabolism	62.5	5 of 8
66794	histidine metabolism	62.07	18 of 29
66794	phenylpropanoid biosynthesis	61.54	8 of 13
66794	degradation of hexoses	61.11	11 of 18
66794	cysteine metabolism	61.11	11 of 18
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	hydrogen production	60	3 of 5
66794	factor 420 biosynthesis	60	3 of 5
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	tyrosine metabolism	57.14	8 of 14
66794	sulfate reduction	53.85	7 of 13
66794	ribulose monophosphate pathway	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	coenzyme M biosynthesis	50	5 of 10
66794	glycine metabolism	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	3-phenylpropionate degradation	46.67	7 of 15
66794	nitrate assimilation	44.44	4 of 9
66794	polyamine pathway	43.48	10 of 23
66794	3-chlorocatechol degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	myo-inositol biosynthesis	40	4 of 10
66794	glycine betaine biosynthesis	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	phenol degradation	35	7 of 20
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	androgen and estrogen metabolism	31.25	5 of 16
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cyclohexanol degradation	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	bile acid biosynthesis, neutral pathway	23.53	4 of 17
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13

API ID32E

@ref	ODC	ADH (Arg)	LDC (Lys)	URE	LARL	GAT	5KG	LipaseLIP	Phenol red (Acidification)RP	beta GLU	MAN	MAL	ADO	PLE	beta GUR	MNT	IND	N-Acetyl-beta-Glucosaminidasebeta NAG	beta GAL	GLU	SAC	LARA	DARL	alpha GLU	alpha GAL	TRE	RHA	INO	CEL	SOR	alpha-MaltosidasealphaMAL	L-aspartic acid arylamidaseAspA
63346	-	-	-	-	-	+	-	-	-	+	+	+	-	-	-	+	-	+	+	+	+	+	-	-	-	+	+	-	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
17926	rhizosphere soil of groundnut (Arachis hypogaea) from experimental plots	Arachis hypogaea	Tamilnadu University	India	IND	Asia
63346	Peanut root (Arachis hypogaea)			India	IND	Asia
67771	From groundnut root (`Arachis hypogaea` L)			India	IND	Asia
116468	Environment, Rhizosphere soil of groundnut, Arachis hypogaea, from experimental plots		Tamilnadu	India	IND	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
17926	1	Risk group (German classification) According to TRBA 466
116468	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	IMG-taxon 2651870175 annotated assembly for Kosakonia arachidis Ah-143	scaffold	GCA_900116535	551989.4	2651870175	551989	72.71

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17926	Enterobacter arachidis strain Ah-143 16S ribosomal RNA gene, partial sequence	EU672801	1426		551989

GC content

29467

GC-content (mol%)53.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Kosakonia arachidis Ah-143
NCBI: GCA_900116535

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	95.40	no
125439	motility	BacteriaNetⓘ	yes	69.00	no
125439	gram_stain	BacteriaNetⓘ	negative	97.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	94.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Kosakonia arachidis Ah-143
NCBI: GCA_900116535.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	100.00	yes
125438	anaerobic	anaerobicⓘ	no	95.70	yes
125438	aerobic	aerobicⓘ	no	73.38	no
125438	spore-forming	spore-formingⓘ	no	90.50	yes
125438	thermophilic	thermophileⓘ	no	99.50	no
125438	flagellated	motile2+ⓘ	yes	74.94	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Precise Species Identification for Enterobacter: a Genome Sequence-Based Study with Reporting of Two Novel Species, Enterobacter quasiroggenkampii sp. nov. and Enterobacter quasimori sp. nov.	Wu W, Feng Y, Zong Z.	mSystems	10.1128/msystems.00527-20	2020
Phylogeny	Enterobacter arachidis sp. nov., a plant-growth-promoting diazotrophic bacterium isolated from rhizosphere soil of groundnut.	Madhaiyan M, Poonguzhali S, Lee JS, Saravanan VS, Lee KC, Santhanakrishnan P	Int J Syst Evol Microbiol	10.1099/ijs.0.013664-0	2009

References

#17926	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25165
#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 )
#29467	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 #25870 (see below)
#41604	; Curators of the CIP;
#63346	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 66539
#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 )
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68374	Automatically annotated from API ID32E .
#116468	Collection of Institut Pasteur ; Curators of the CIP; CIP 110809
#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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Kosakonia arachidis (DSM 25165, KCTC 22375, LMG 26131)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API ID32E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900116535

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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