Skermanella aerolata (DSM 18479, KACC 11604, 5416T-32)

Name: Skermanella aerolata (DSM 18479, KACC 11604, 5416T-32)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13964

Type strain

Strain Designation 5416T-32

Culture col. no. DSM 18479 KACC 11604 5416T-32

NCBI tax ID(s) 1385368 393310

Special Collections DSMZ Literature strains

History DSMZ <- S.-W. Kwon, KACC; 5416T-32

Links

Skermanella aerolata 5416T-32 is an aerobe, Gram-negative, motile bacterium that was isolated from air sample.

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

Name and taxonomic classification

SI-ID 309491

DSM 18479,KACC 11604,VTT E-072704

@ref 20215

Last LPSN update 2026-05-29 08:28:10

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Rhodospirillales

Family Azospirillaceae

Genus Skermanella

Species Skermanella aerolata

Full scientific name Skermanella aerolata Weon et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Flagellum arrangement	Confidence
31934	negative	rod-shaped
28191	negative	rod-shaped	polar
125438	negative			96.476

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7553	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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

Culture temp

@ref	Growth	Type	Temperature (°C)
7553	positive	growth	28
31934	positive	growth	5.0-35
31934	positive	optimum	27.5

Culture pH

@ref	Ability	Type	PH	PH range
31934	positive	optimum	6.5
31934	positive	growth	4.0-9.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31934	aerobe
28191	obligate aerobe
125439	obligate aerobe	96.398

Spore formation

@ref	Spore formation	Confidence
125439		98.544

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31934	NaCl	positive	growth	0.0-5.0 %
31934	NaCl	positive	optimum	2.5 %
28191	NaCl	positive	growth	0-5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
28191	17879 ChEBI	4-hydroxybenzoate	-	assimilation
28191	27613 ChEBI	amygdalin	-	fermentation
31934	22599 ChEBI	arabinose	+	carbon source
28191	18305 ChEBI	arbutin	-	fermentation
28191	85146 ChEBI	carboxymethylcellulose	+	hydrolysis
28191		casein	-	hydrolysis
28191	17057 ChEBI	cellobiose	-	fermentation
28191	62968 ChEBI	cellulose	+	hydrolysis
28191	17029 ChEBI	chitin	-	hydrolysis
28191	17108 ChEBI	D-arabinose	+	fermentation
28191	18333 ChEBI	D-arabitol	-	fermentation
28191	15824 ChEBI	D-fructose	-	fermentation
28191	28847 ChEBI	D-fucose	-	fermentation
28191	12936 ChEBI	D-galactose	+	fermentation
28191	17634 ChEBI	D-glucose	+	fermentation
28191	62318 ChEBI	D-lyxose	+	fermentation
28191	16899 ChEBI	D-mannitol	-	fermentation
28191	16024 ChEBI	D-mannose	-	fermentation
28191	16988 ChEBI	D-ribose	+	fermentation
28191	17924 ChEBI	D-sorbitol	-	fermentation
28191	16443 ChEBI	D-tagatose	-	fermentation
28191	16551 ChEBI	D-trehalose	-	fermentation
28191	65327 ChEBI	D-xylose	+	fermentation
28191	16991 ChEBI	dna	-	hydrolysis
28191	17113 ChEBI	erythritol	-	fermentation
28191	4853 ChEBI	esculin	-	fermentation
28191	16813 ChEBI	galactitol	-	fermentation
31934	28260 ChEBI	galactose	+	carbon source
28191	28066 ChEBI	gentiobiose	-	fermentation
31934	17234 ChEBI	glucose	+	carbon source
28191	17754 ChEBI	glycerol	-	fermentation
28191	28087 ChEBI	glycogen	-	fermentation
28191	15443 ChEBI	inulin	-	fermentation
28191	30849 ChEBI	L-arabinose	+	fermentation
28191	18403 ChEBI	L-arabitol	-	fermentation
28191	18287 ChEBI	L-fucose	-	fermentation
28191	62345 ChEBI	L-rhamnose	-	assimilation
28191	62345 ChEBI	L-rhamnose	-	fermentation
28191	17266 ChEBI	L-sorbose	-	fermentation
28191	65328 ChEBI	L-xylose	+	fermentation
28191	17716 ChEBI	lactose	-	fermentation
28191	17306 ChEBI	maltose	-	fermentation
28191	6731 ChEBI	melezitose	-	fermentation
31934	28053 ChEBI	melibiose	+	carbon source
28191	28053 ChEBI	melibiose	+	fermentation
28191	320061 ChEBI	methyl alpha-D-glucopyranoside	-	fermentation
28191	43943 ChEBI	methyl alpha-D-mannoside	-	fermentation
28191	74863 ChEBI	methyl beta-D-xylopyranoside	-	fermentation
28191	17268 ChEBI	myo-inositol	-	fermentation
28191	506227 ChEBI	N-acetylglucosamine	-	fermentation
28191	17309 ChEBI	pectin	-	hydrolysis
28191		potassium 2-dehydro-D-gluconate	-	fermentation
28191		potassium 5-dehydro-D-gluconate	-	fermentation
28191	32032 ChEBI	potassium gluconate	-	fermentation
28191	16634 ChEBI	raffinose	-	fermentation
28191	15963 ChEBI	ribitol	-	fermentation
31934	33942 ChEBI	ribose	+	carbon source
28191	17814 ChEBI	salicin	-	fermentation
28191	32954 ChEBI	sodium acetate	-	assimilation
28191	28017 ChEBI	starch	-	fermentation
28191	28017 ChEBI	starch	+	hydrolysis
31934	9300 ChEBI	suberic acid	+	carbon source
28191	9300 ChEBI	suberic acid	+	assimilation
28191	17992 ChEBI	sucrose	-	fermentation
28191	32528 ChEBI	turanose	-	fermentation
31934	53426 ChEBI	tween 80	+	carbon source
28191	53426 ChEBI	tween 80	+	hydrolysis
28191	18186 ChEBI	tyrosine	-	hydrolysis
28191	31011 ChEBI	valerate	-	assimilation
28191	17151 ChEBI	xylitol	-	fermentation
31934	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
28191	15688 ChEBI	acetoin
28191	53388 ChEBI	polyhydroxybutyrate

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
28191	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
28191	alpha-glucosidase	-	3.2.1.20
28191	beta-glucosidase	-	3.2.1.21
31934	catalase	+	1.11.1.6
31934	cytochrome oxidase	+	1.9.3.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	photosynthesis	100	14 of 14
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	cyanate degradation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	resorcinol degradation	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	ketogluconate metabolism	100	8 of 8
66794	quinate degradation	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	starch degradation	100	10 of 10
66794	L-lactaldehyde degradation	100	3 of 3
66794	hydrogen production	100	5 of 5
66794	ethanol fermentation	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	taurine degradation	100	1 of 1
66794	ceramide biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	glycine betaine biosynthesis	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	folate polyglutamylation	100	1 of 1
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	cellulose degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	citric acid cycle	92.86	13 of 14
66794	vitamin B1 metabolism	92.31	12 of 13
66794	degradation of aromatic, nitrogen containing compounds	91.67	11 of 12
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	lipid A biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	NAD metabolism	88.89	16 of 18
66794	isoleucine metabolism	87.5	7 of 8
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	arginine metabolism	83.33	20 of 24
66794	glycolysis	82.35	14 of 17
66794	pentose phosphate pathway	81.82	9 of 11
66794	metabolism of disaccharids	81.82	9 of 11
66794	phenol degradation	80	16 of 20
66794	glycogen metabolism	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	gallate degradation	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	myo-inositol biosynthesis	80	8 of 10
66794	propionate fermentation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	vitamin K metabolism	80	4 of 5
66794	alanine metabolism	79.31	23 of 29
66794	heme metabolism	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	4-hydroxymandelate degradation	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	histidine metabolism	75.86	22 of 29
66794	CMP-KDO biosynthesis	75	3 of 4
66794	carnitine metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	biotin biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	vitamin B12 metabolism	73.53	25 of 34
66794	flavin biosynthesis	73.33	11 of 15
66794	methionine metabolism	73.08	19 of 26
66794	vitamin B6 metabolism	72.73	8 of 11
66794	proline metabolism	72.73	8 of 11
66794	d-xylose degradation	72.73	8 of 11
66794	degradation of sugar acids	72	18 of 25
66794	lysine metabolism	71.43	30 of 42
66794	degradation of pentoses	71.43	20 of 28
66794	glutathione metabolism	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	tyrosine metabolism	71.43	10 of 14
66794	non-pathway related	71.05	27 of 38
66794	tryptophan metabolism	71.05	27 of 38
66794	lipid metabolism	70.97	22 of 31
66794	urea cycle	69.23	9 of 13
66794	oxidative phosphorylation	69.23	63 of 91
66794	pyrimidine metabolism	68.89	31 of 45
66794	degradation of sugar alcohols	68.75	11 of 16
66794	nitrate assimilation	66.67	6 of 9
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	sulfate reduction	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	chlorophyll metabolism	61.11	11 of 18
66794	degradation of hexoses	61.11	11 of 18
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	lipoate biosynthesis	60	3 of 5
66794	O-antigen biosynthesis	60	3 of 5
66794	bile acid biosynthesis, neutral pathway	58.82	10 of 17
66794	allantoin degradation	55.56	5 of 9
66794	toluene degradation	50	2 of 4
66794	lactate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	carotenoid biosynthesis	50	11 of 22
66794	coenzyme M biosynthesis	50	5 of 10
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	androgen and estrogen metabolism	50	8 of 16
66794	kanosamine biosynthesis II	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	ascorbate metabolism	45.45	10 of 22
66794	cholesterol biosynthesis	45.45	5 of 11
66794	daunorubicin biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	factor 420 biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	sphingosine metabolism	33.33	2 of 6
66794	arachidonic acid metabolism	33.33	6 of 18
66794	sulfoquinovose degradation	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	catecholamine biosynthesis	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Environmental	#Air

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7553	air sample	Taean	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ672568 (>99% sequence identity) for Skermanella aerolata subclade from Microbeatlas

Aquatic Samples	241
Soil Samples	1683
Animal Samples	1078
Plant Samples	101
Total Samples	3103

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7553	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	ASM93642v1 assembly for Skermanella aerolata KACC 11604 5416T-32	contig	GCA_000936425	1385368.4	2627853908	1385368	19.39

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7553	Skermanella aerolata strain 5416T-32 16S ribosomal RNA gene, partial sequence	DQ672568	1355		1385368

GC content

@ref	GC-content (mol%)	Method
7553	64
31934	65
28191	65	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM93642v1 assembly for Skermanella aerolata KACC 11604 5416T-32
BV-BRC: 1385368.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.40	no
125439	gram_stain	BacteriaNetⓘ	negative	83.03	no
125439	motility	BacteriaNetⓘ	yes	50.82	no
125439	spore_formation	BacteriaNetⓘ	no	98.54	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Skermanella aerolata KACC 11604 strain 5416T-32
PATRIC: 1385368.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.48	yes
125438	anaerobic	anaerobicⓘ	no	90.06	yes
125438	spore-forming	spore-formingⓘ	no	84.17	no
125438	aerobic	aerobicⓘ	yes	81.02	yes
125438	thermophilic	thermophileⓘ	no	96.50	no
125438	flagellated	motile2+ⓘ	yes	79.07	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Co-occurrence of enzyme domains guides the discovery of an oxazolone synthetase.	de Rond T, Asay JE, Moore BS.	Nat Chem Biol	10.1038/s41589-021-00808-4	2021
Phylogeny	Diversity and Habitat Preferences of Cultivated and Uncultivated Aerobic Methanotrophic Bacteria Evaluated Based on pmoA as Molecular Marker.	Knief C.	Front Microbiol	10.3389/fmicb.2015.01346	2015
Phylogeny	Skermanella mucosa sp. nov., isolated from crude oil contaminated soil.	Subhash Y, Yoon DE, Lee SS	Antonie Van Leeuwenhoek	10.1007/s10482-017-0878-7	2017
Phylogeny	Skermanella rosea sp. nov., isolated from hydrocarbon-contaminated desert sands.	Subhash Y, Lee SS	Int J Syst Evol Microbiol	10.1099/ijsem.0.001293	2016
Phylogeny	Skermanella stibiiresistens sp. nov., a highly antimony-resistant bacterium isolated from coal-mining soil, and emended description of the genus Skermanella.	Luo G, Shi Z, Wang H, Wang G	Int J Syst Evol Microbiol	10.1099/ijs.0.033746-0	2011
Phylogeny	Skermanella xinjiangensis sp. nov., isolated from the desert of Xinjiang, China.	An H, Zhang L, Tang Y, Luo X, Sun T, Li Y, Wang Y, Dai J, Fang C	Int J Syst Evol Microbiol	10.1099/ijs.0.003350-0	2009
Phylogeny	Skermanella aerolata sp. nov., isolated from air, and emended description of the genus Skermanella.	Weon HY, Kim BY, Hong SB, Joa JH, Nam SS, Lee KH, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.64676-0	2007

References

#7553	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18479
#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 )
#28191	IJSEM 1539 2007 ( DOI 10.1099/ijs.0.64676-0 , PubMed 17625190 )
#31934	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 #28191
#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 )

Content

About us

Skermanella aerolata (DSM 18479, KACC 11604, 5416T-32)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000936425

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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