Name: Stenotrophomonas daejeonensis MJ03
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133582

Type strain:

Species: Stenotrophomonas daejeonensis

Strain Designation: MJ03

Culture col. no.: KCTC 22451, JCM 16244, CCUG 59871

Strain history: <- MJ Lee, H-Plus Eco, Korea

NCBI tax ID(s): 659018 (species)

SI-ID 411868

CCUG 59871

Section

Stenotrophomonas daejeonensis MJ03 is an aerobe, Gram-negative, motile bacterium that was isolated from sewage sample.

Gram-negative
motile
aerobe
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Lysobacteraceae*
	Genus	*Stenotrophomonas*
	Species	**Stenotrophomonas daejeonensis**
	Full Scientific Name (LPSN)	Stenotrophomonas daejeonensis Lee et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29646]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #29646]	Cell length	1.45 µm

[Ref.: #29646]	Cell width	0.35 µm

[Ref.: #29646]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.814

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29646]	growth	20-42 °C
[Ref.: #29646]	optimum	30 °C
[Ref.: #62145]	growth	30 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #29646]	Temperature range	mesophilic
[Ref.: #62145]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29646]			optimum	7.3
[Ref.: #29646]			growth	6.0-10.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29646]	Oxygen tolerance	aerobe
[Ref.: #62145]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #29646]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29646]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #29646]	acetate ChEBI	+	carbon source
[Ref.: #29646]	alanine ChEBI	+	carbon source
[Ref.: #29646]	arabinose ChEBI	+	carbon source
[Ref.: #29646]	citrate ChEBI	+	carbon source
[Ref.: #29646]	esculin ChEBI	+	hydrolysis
[Ref.: #29646]	fucose ChEBI	+	carbon source
[Ref.: #29646]	glucose ChEBI	+	carbon source
[Ref.: #29646]	histidine ChEBI	+	carbon source
[Ref.: #29646]	maltose ChEBI	+	carbon source
[Ref.: #29646]	mannitol ChEBI	+	carbon source
[Ref.: #29646]	mannose ChEBI	+	carbon source
[Ref.: #29646]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #29646]	nitrate ChEBI	+	reduction
[Ref.: #29646]	proline ChEBI	+	carbon source
[Ref.: #29646]	propionate ChEBI	+	carbon source
[Ref.: #29646]	rhamnose ChEBI	+	carbon source
[Ref.: #29646]	ribose ChEBI	+	carbon source
[Ref.: #29646]	serine ChEBI	+	carbon source
[Ref.: #29646]	sorbitol ChEBI	+	carbon source
[Ref.: #29646]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #29646]	acid phosphatase	+	3.1.3.2
[Ref.: #29646]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29646]	catalase	+	1.11.1.6
[Ref.: #29646]	gelatinase	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	leucine metabolism	92.31	12 of 13
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	heme metabolism	85.71	12 of 14
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	purine metabolism	84.04	79 of 94
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	lipid A biosynthesis	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	histidine metabolism	75.86	22 of 29
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	coenzyme A metabolism	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	tyrosine metabolism	71.43	10 of 14
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	methionine metabolism	69.23	18 of 26
[Ref.: #66794]	alanine metabolism	68.97	20 of 29
[Ref.: #66794]	tryptophan metabolism	68.42	26 of 38
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	valine metabolism	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	arginine metabolism	62.5	15 of 24
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	60	9 of 15
[Ref.: #66794]	starch degradation	60	6 of 10
[Ref.: #66794]	vitamin K metabolism	60	3 of 5
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	isoprenoid biosynthesis	53.85	14 of 26
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	oxidative phosphorylation	41.76	38 of 91
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	D-cycloserine biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	methane metabolism	33.33	1 of 3
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	degradation of sugar alcohols	31.25	5 of 16
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	vitamin B12 metabolism	29.41	10 of 34
[Ref.: #66794]	degradation of pentoses	28.57	8 of 28
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	daunorubicin biosynthesis	22.22	2 of 9
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
		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.: #29646]	Sample type/isolated from	sewage sample

[Ref.: #62145]	Sample type/isolated from	Water,municipal sewage treatment plant
[Ref.: #62145]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #62145]	Country	Republic of Korea
[Ref.: #62145]	Country ISO 3 Code	KOR
[Ref.: #62145]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sewage sample from a municipal sewage treatment plant
[Ref.: #67770]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Sewage sludge

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GQ241320 (>99% sequence identity) for Stenotrophomonas from Microbeatlas

Aquatic Samples	23
Soil Samples	14
Animal Samples	69
Plant Samples	12
Total Samples	118

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.: #29646]	Stenotrophomonas daejeonensis strain MJ03 16S ribosomal RNA gene, partial sequence	GQ241320	1420	GenBank	659018 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Stenotrophomonas daejeonensis JCM 16244	GCA_001431505	contig	GenBank	659018 tax ID
[Ref.: #66792]	Stenotrophomonas daejeonensis strain JCM 16244	659018.3	wgs	PATRIC	659018 tax ID	*
[Ref.: #66792]	Stenotrophomonas daejeonensis JCM 16244	2713896761	draft	JGI IMG/M	659018 tax ID	*

[Ref.: #29646]	GC-content	64.7 mol%
[Ref.: #67770]	GC-content	64.7 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Stenotrophomonas daejeonensis strain JCM 16244 PATRIC: 659018.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Stenotrophomonas daejeonensis strain JCM 16244 PATRIC: 659018.3
[Ref.: #69480]	gram-positive	no	98.535	yes
[Ref.: #69480]	anaerobic	no	98.757	yes
[Ref.: #69480]	halophile	no	94.361	no
[Ref.: #69480]	spore-forming	no	96.645	no
[Ref.: #69480]	glucose-util	yes	88.02	yes
[Ref.: #69480]	thermophile	no	98.77	yes
[Ref.: #69480]	flagellated	no	82.391	no
[Ref.: #69480]	motile	yes	86.521	no
[Ref.: #69480]	aerobic	yes	89.165	yes
[Ref.: #69480]	glucose-ferment	no	89.961	no

Availability in culture collections External links

[Ref.: #29646]

Culture collection no.

KCTC 22451, JCM 16244, CCUG 59871

[Ref.: #91516]

SI-ID 411868

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Stenotrophomonas daejeonensis sp. nov., isolated from sewage.	Lee M, Woo SG, Chae M, Shin MC, Jung HM, Ten LN	Int J Syst Evol Microbiol	10.1099/ijs.0.017780-0	2010	*

References

#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 )

#29646

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 #26035 (see below)

#62145 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59871

#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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#91516

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID411868.1 )

#26035

IJSEM 598 2011 ( DOI 10.1099/ijs.0.017780-0 , PubMed 20400671 )

* These data were automatically processed and therefore are not curated

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Stenotrophomonas daejeonensis strain JCM 16244

Stenotrophomonas daejeonensis strain JCM 16244

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