Stenotrophomonas nitritireducens (CCUG 46888, CIP 107228, LMG 22074)

Name: Stenotrophomonas nitritireducens (CCUG 46888, CIP 107228, LMG 22074)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17555

Type strain

Strain Designation L2

Culture col. no. CCUG 46888 CIP 107228 LMG 22074 DSM 12575 ATCC BAA-12 2 more

NCBI tax ID(s) 83617

Special Collections DSMZ CCUG JCM CIP

History DSMZ <- A. Lipski; L2 CIP <- 2001, A. Lipski, Univ. Osnabrück, Germany: strain L2 JCM <-- CIP 107228 <-- A. Lipski L2. CIP <- 2001, A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain L2

Links

Stenotrophomonas nitritireducens L2 is an aerobe, Gram-negative, motile bacterium that was isolated from laboratory scale biofilter.

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

Name and taxonomic classification

SI-ID 44253

ATCC BAA-12,DSM 12575,CCUG 46888,CIP 107228,LMG 22074,JCM 13311,KCTC 12168,KACC 10891,BCRC 17535,CCRC 17535,VTT E-032352

@ref 20215

Last LPSN update 2026-05-29 08:29:02

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Lysobacteraceae

Genus Stenotrophomonas

Species Stenotrophomonas nitritireducens

Full scientific name Stenotrophomonas nitritireducens Finkmann et al. 2000

Synonyms (1)

"Parastenotrophomonas nitritireducens"

BacDive ID	Other strains from **Stenotrophomonas nitritireducens** (1)	Type strain
17556	S. nitritireducens B1910/29.1, DSM 12576, CCUG 54932

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125439	negative		96.932
125438	negative		98.23
121310	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4680	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
33707	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121310	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
4680	positive	growth	30
33707	positive	growth	30
57385	positive	growth	30
67770	positive	growth	30
121310	positive	growth	25-37
121310	negative	growth	5
121310	negative	growth	10
121310	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
57385	aerobe
121310	obligate aerobe
125439	obligate aerobe	98.187

Spore formation

@ref	Spore formation	Confidence
125439		99.716
125438		91.204

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121310	NaCl	positive	growth	0-4 %
121310	NaCl		growth	6 %
121310	NaCl		growth	8 %
121310	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
121310	16947 ChEBI	citrate	-	carbon source
68369	17634 ChEBI	D-glucose	-	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	-	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	-	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
121310	4853 ChEBI	esculin	+	hydrolysis
68369	4853 ChEBI	esculin	+	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	-	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
121310	17632 ChEBI	nitrate	-	reduction
121310	17632 ChEBI	nitrate	-	respiration
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
121310	16301 ChEBI	nitrite	+	reduction
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121310	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
121310	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121310	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
121310	amylase	-
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	-	3.2.1.23	from API zym
121310	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68369	beta-glucosidase	+	3.2.1.21	from API 20NE
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121310	caseinase	-	3.4.21.50
121310	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
121310	DNase	-
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	+		from API zym
121310	gelatinase	+/-
68369	gelatinase	-		from API 20NE
121310	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
121310	lipase	-
68382	lipase (C 14)	-		from API zym
121310	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121310	ornithine decarboxylase	-	4.1.1.17
121310	oxidase	+
121310	protease	-
68382	trypsin	+	3.4.21.4	from API zym
121310	tryptophan deaminase	-
121310	tween esterase	+
121310	urease	+	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE
68382	valine arylamidase	-		from API zym

Fatty acid profile

Metadata FA analysis

@ref

57385

Fatty acid	Percentage	ECL
C15:0 ISO	35.9	14.621
C11:0 iso	10.2	10.605
C14:0 ISO	9.4	13.618
C17:1 ω9c ISO	7.5	16.416
C15:1 ISO F	5.9	14.414
C15:0 ANTEISO	4.7	14.711
C11:0 ISO 3OH	4	12.09
C16:0 iso	3.3	15.626
C13:0 ISO 3OH	3.3	14.11
C12:0 ISO 3OH	2.9	13.098
C13:0 iso	1.9	12.612
C16:0	1.9	16
C14:0	1.8	14
C15:0	1.5	15
C12:0 3OH	1.2	13.455
C16:1 ω7c	1.1	15.819
C17:0 CYCLO	1.1	16.888
C16:1 ω9c	0.8	15.774
C17:0 iso	0.6	16.629
C13:0 2OH	0.5	14.191
C11:0 ANTEISO	0.4	10.693

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121310	-	+	-	+	-	+	-	-	+	-	+	+	-	-	-	-	-	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
4680	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	-	-	-	+	-	+

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
121310	not determinedn.d.	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	+	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	+	-	+	+	+	+	+	-	+	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioremediation	#Biofilter
#Engineered	#Laboratory	-

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
4680	laboratory scale biofilter		Osnabrück	Germany	DEU	Europe
57385	Biofilter,laboratory scale	1992	Osnabrück	Germany	DEU	Europe
67770	Experimental biofilter supplied with the waste gas of an animal-rendering plant
121310	Laboratory scale biofilter		Osnabrück	Germany	DEU	Europe	1992

Taxonmaps

69479

Global distribution of 16S sequence AJ012229 (>99% sequence identity) for Stenotrophomonas from Microbeatlas

Aquatic Samples	1046
Soil Samples	667
Animal Samples	1355
Plant Samples	293
Total Samples	3361

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4680	1	Risk group (German classification) According to TRBA 466
121310	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
67770	ASM143142v1 assembly for Stenotrophomonas nitritireducens DSM 12575	contig	GCA_001431425	83617.3	2713896755	83617	53.21

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Stenotrophomonas nitritireducens 16S rRNA gene, strain L2	AJ012229	1513		83617

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM143142v1 assembly for Stenotrophomonas nitritireducens DSM 12575
BV-BRC: 83617.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.19	no
125439	gram_stain	BacteriaNetⓘ	negative	96.93	no
125439	motility	BacteriaNetⓘ	yes	82.55	no
125439	spore_formation	BacteriaNetⓘ	no	99.72	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Stenotrophomonas nitritireducens strain DSM 12575
PATRIC: 83617.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.23	no
125438	anaerobic	anaerobicⓘ	no	95.85	yes
125438	aerobic	aerobicⓘ	yes	82.74	yes
125438	spore-forming	spore-formingⓘ	no	91.20	no
125438	thermophilic	thermophileⓘ	no	95.66	yes
125438	flagellated	motile2+ⓘ	yes	61.49	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	A High-Throughput Short Sequence Typing Scheme for Serratia marcescens Pure Culture and Environmental DNA.	Bourdin T, Monnier A, Benoit ME, Bedard E, Prevost M, Quach C, Deziel E, Constant P.	Appl Environ Microbiol	10.1128/aem.01399-21	2021
Enzymology	A specific polymerase chain reaction method to identify Stenotrophomonas maltophilia.	Gallo SW, Ramos PL, Ferreira CA, Oliveira SD.	Mem Inst Oswaldo Cruz	10.1590/s0074-02762013000300020	2013
	Identification and classification of antiviral defence systems in bacteria and archaea with PADLOC reveals new system types.	Payne LJ, Todeschini TC, Wu Y, Perry BJ, Ronson CW, Fineran PC, Nobrega FL, Jackson SA.	Nucleic Acids Res	10.1093/nar/gkab883	2021
Enzymology	Nitrate reductase (15)N discrimination in Arabidopsis thaliana, Zea mays, Aspergillus niger, Pichea angusta, and Escherichia coli.	Carlisle E, Yarnes C, Toney MD, Bloom AJ.	Front Plant Sci	10.3389/fpls.2014.00317	2014
Phylogeny	Stenotrophomonas acidaminiphila sp. nov., a strictly aerobic bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor.	Assih EA, Ouattara AS, Thierry S, Cayol JL, Labat M, Macarie H	Int J Syst Evol Microbiol	10.1099/00207713-52-2-559	2002
Phylogeny	Stenotrophomonas ginsengisoli sp. nov., isolated from a ginseng field.	Kim HB, Srinivasan S, Sathiyaraj G, Quan LH, Kim SH, Bui TPN, Liang ZQ, Kim YJ, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.014662-0	2009
Phylogeny	Characterization of N2O-producing Xanthomonas-like isolates from biofilters as Stenotrophomonas nitritireducens sp. nov., Luteimonas mephitis gen. nov., sp. nov. and Pseudoxanthomonas broegbernensis gen. nov., sp. nov.	Finkmann W, Altendorf K, Stackebrandt E, Lipski A	Int J Syst Evol Microbiol	10.1099/00207713-50-1-273	2000

References

#4680	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12575
#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 )
#33707	; Curators of the CIP;
#57385	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 46888
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68369	Automatically annotated from API 20NE .
#68382	Automatically annotated from API zym .
#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 .
#121310	Collection of Institut Pasteur ; Curators of the CIP; CIP 107228
#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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Stenotrophomonas nitritireducens (CCUG 46888, CIP 107228, LMG 22074)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Fatty acid profile

API zym

API 20NE

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001431425

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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