Malikia spinosa (DSM 15801, ATCC 14606, 83)

Name: Malikia spinosa (DSM 15801, ATCC 14606, 83)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2977

Type strain

Strain Designation 83

Culture col. no. DSM 15801 ATCC 14606 83 NCIMB 14272 NBRC 103164 3 more

NCBI tax ID(s) 86180

Special Collections DSMZ JCM

Links

Malikia spinosa 83 is a mesophilic prokaryote that was isolated from river water.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 46519

ATCC 14606,LMG 21751,IAM 14918,DSM 15801,BCRC 15834,CCRC 15834,JCM 21400,NBRC 103164

@ref 20215

Last LPSN update 2025-12-16 09:47:26

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Malikia

Species Malikia spinosa

Full scientific name Malikia spinosa (Leifson 1962) Spring et al. 2005

Synonyms (1)

Pseudomonas spinosa

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99
125439	negative	100
125439		93.5

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6111	REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)	Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
6111	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
6111	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
6111	positive	growth	28	mesophilic
67770	positive	growth	25	mesophilic

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125438		91.179
125439		99.8

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	coenzyme A metabolism	100	4 of 4
66794	butanoate fermentation	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	cyanate degradation	100	3 of 3
66794	Entner Doudoroff pathway	100	10 of 10
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	ppGpp biosynthesis	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	methylglyoxal degradation	100	5 of 5
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	gallate degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	resorcinol degradation	100	2 of 2
66794	tetrahydrofolate metabolism	100	14 of 14
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	sulfopterin metabolism	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	phenylalanine metabolism	92.31	12 of 13
66794	lipid A biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	gluconeogenesis	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	citric acid cycle	85.71	12 of 14
66794	leucine metabolism	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	3-chlorocatechol degradation	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	myo-inositol biosynthesis	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	vitamin B12 metabolism	79.41	27 of 34
66794	heme metabolism	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	purine metabolism	75.53	71 of 94
66794	biotin biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	3-phenylpropionate degradation	73.33	11 of 15
66794	flavin biosynthesis	73.33	11 of 15
66794	methionine metabolism	73.08	19 of 26
66794	proline metabolism	72.73	8 of 11
66794	pentose phosphate pathway	72.73	8 of 11
66794	glutathione metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	propanol degradation	71.43	5 of 7
66794	oxidative phosphorylation	70.33	64 of 91
66794	propionate fermentation	70	7 of 10
66794	phenol degradation	70	14 of 20
66794	vitamin B1 metabolism	69.23	9 of 13
66794	alanine metabolism	68.97	20 of 29
66794	tryptophan metabolism	68.42	26 of 38
66794	non-pathway related	68.42	26 of 38
66794	d-mannose degradation	66.67	6 of 9
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	allantoin degradation	66.67	6 of 9
66794	pyrimidine metabolism	66.67	30 of 45
66794	acetoin degradation	66.67	2 of 3
66794	polyamine pathway	65.22	15 of 23
66794	glycolysis	64.71	11 of 17
66794	lipid metabolism	64.52	20 of 31
66794	tyrosine metabolism	64.29	9 of 14
66794	vitamin B6 metabolism	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	sulfate reduction	61.54	8 of 13
66794	urea cycle	61.54	8 of 13
66794	glycogen metabolism	60	3 of 5
66794	arginine metabolism	58.33	14 of 24
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	cysteine metabolism	55.56	10 of 18
66794	4-hydroxymandelate degradation	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	lysine metabolism	52.38	22 of 42
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	glycine metabolism	50	5 of 10
66794	selenocysteine biosynthesis	50	3 of 6
66794	ribulose monophosphate pathway	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	pantothenate biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	toluene degradation	50	2 of 4
66794	nitrate assimilation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	glycine betaine biosynthesis	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	cholesterol biosynthesis	36.36	4 of 11
66794	degradation of pentoses	35.71	10 of 28
66794	sulfoquinovose degradation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	glycolate and glyoxylate degradation	33.33	2 of 6
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	chlorophyll metabolism	27.78	5 of 18
66794	degradation of hexoses	27.78	5 of 18
66794	metabolism of disaccharids	27.27	3 of 11
66794	d-xylose degradation	27.27	3 of 11
66794	carnitine metabolism	25	2 of 8
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	glycogen biosynthesis	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	degradation of sugar acids	24	6 of 25
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	carotenoid biosynthesis	22.73	5 of 22
66794	arachidonic acid metabolism	22.22	4 of 18

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6111	river water	Illinois, Du Page	USA	USA	North America
67770	River water

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6111	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
67770	ASM298062v1 assembly for Malikia spinosa 83	contig	GCA_002980625	86180.3	86180	54.74

Genome browser: GCA_002980625

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Malikia spinosa gene for 16S rRNA, strain: ATCC 14606	AB021387	1497	86180
20218	Malikia spinosa gene for 16S rRNA, partial sequence	AB077038	1508	86180
20218	Malikia spinosa gene for 16S rRNA, partial sequence, strain: NBRC 103164	AB681972	1456	86180

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Malikia spinosa 83
NCBI: GCA_002980625

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.80	no
125439	motility	BacteriaNetⓘ	yes	93.50	no
125439	gram_stain	BacteriaNetⓘ	negative	100.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	75.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Malikia spinosa strain 83
PATRIC: 86180.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	94.23	no
125438	aerobic	aerobicⓘ	yes	75.76	no
125438	spore-forming	spore-formingⓘ	no	91.18	no
125438	thermophilic	thermophileⓘ	no	96.00	yes
125438	flagellated	motile2+ⓘ	yes	79.91	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Evaluation of matrix-assisted laser desorption ionization-time-of-flight mass spectrometry in comparison to 16S rRNA gene sequencing for species identification of nonfermenting bacteria.	Mellmann A, Cloud J, Maier T, Keckevoet U, Ramminger I, Iwen P, Dunn J, Hall G, Wilson D, Lasala P, Kostrzewa M, Harmsen D.	J Clin Microbiol	10.1128/jcm.00157-08	2008
Phylogeny	Malikia granosa gen. nov., sp. nov., a novel polyhydroxyalkanoate- and polyphosphate-accumulating bacterium isolated from activated sludge, and reclassification of Pseudomonas spinosa as Malikia spinosa comb. nov.	Spring S, Wagner M, Schumann P, Kampfer P	Int J Syst Evol Microbiol	10.1099/ijs.0.63356-0	2005

References

#6111	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15801
#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 )
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 )

Rate our new design

Content

About us

Malikia spinosa (DSM 15801, ATCC 14606, 83)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_002980625

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media