Pseudomonas graminis (DSM 11363, CCUG 51504, CIP 105897)

Name: Pseudomonas graminis (DSM 11363, CCUG 51504, CIP 105897)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13062

Type strain

Strain Designation P 294/08, P294/08

Culture col. no. DSM 11363 CCUG 51504 CIP 105897 CCM 8843 P 294/08 1 more

NCBI tax ID(s) 158627

Special Collections DSMZ CCUG CIP

Links

Pseudomonas graminis P 294/08 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from surface plant material from a mixed meadow.

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

Name and taxonomic classification

SI-ID 49084

CIP 105897,DSM 11363,NCIMB 13587,LMG 21661,KACC 10803,CCUG 51504,BCRC 17508,CCRC 17508,CFBP 4833,VTT E-991292

@ref 20215

Last LPSN update 2025-12-16 09:50:00

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Species Pseudomonas graminis

Full scientific name Pseudomonas graminis Behrendt et al. 1999

BacDive ID	Other strains from **Pseudomonas graminis** (5)	Type strain
131075	P. graminis C10, DSM 100941
134444	P. graminis P200/02, CIP 105899
137396	P. graminis P294/05, CIP 105898
154781	P. graminis CCUG 55172
156592	P. graminis CCUG 63225

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
119726	negative	rod-shaped
125439	negative		98.8
125438			92.527
125438	negative		99.5

Pigmentation

@ref	Production	Name
119726		Pyocyanin

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
4311	REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a)	Medium recipe at MediaDive	Name: REACTIVATION WITH TRYPTONE SOYA BROTH (DSMZ Medium 220a) Composition: Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
39760	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119726	CIP Medium 72	Medium recipe at CIP
119726	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
4311	positive	growth	28	mesophilic
39760	positive	growth	25	mesophilic
59215	positive	growth	30	mesophilic
119726	positive	growth	5-37
119726	negative	growth	41

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
59215	aerobe
119726	obligate aerobe
125438	aerobe	90.651
125439	obligate aerobe	91.8

Spore formation

@ref	Spore formation	Confidence
125439		96.8

Halophily

@ref	Salt	Growth	Tested relation	Concentration
119726	NaCl	positive	growth	0 %
119726	NaCl		growth	2 %
119726	NaCl		growth	4 %
119726	NaCl		growth	6 %
119726	NaCl		growth	8 %
119726	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
119726	16947 ChEBI	citrate	+	carbon source
119726	4853 ChEBI	esculin	+	hydrolysis
119726	17632 ChEBI	nitrate	-	reduction
119726	17632 ChEBI	nitrate	-	respiration
119726	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is antibiotic	Is sensitive	Is resistant
119726	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119726	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
119726	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
119726	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
119726	beta-galactosidase	-	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119726	caseinase	-	3.4.21.50
119726	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
119726	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
119726	gelatinase	+/-
119726	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
119726	lipase	-
68382	lipase (C 14)	-		from API zym
119726	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
119726	ornithine decarboxylase	-	4.1.1.17
119726	oxidase	-
119726	protease	-
68382	trypsin	-	3.4.21.4	from API zym
119726	tryptophan deaminase	-
119726	tween esterase	+
119726	urease	-	3.5.1.5
68382	valine arylamidase	+		from API zym

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
119726	-	-	+	+	-	+	+	-	-	-	+	+	-	-	-	-	+	-	-	-

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
119726	not determinedn.d.	+	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	+	-	+	+	+	-	-	+	+	+	-	-	+	+	-	+	-	-	-	+	+	-	+	-	+	+	+	+	-	+	+	+	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	+	+	-	+	+	+	+	+	+	+	+	+	+	-	+	+	+	+	+	+	+	+	-	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Meadow
#Host	#Plants	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
4311	surface plant material from a mixed meadow	Brandenburg, Havelländisches Luch	Germany	DEU	Europe
59215	Surface plant material from a mixed meadow		Germany	DEU	Europe
119726	Grasses		Germany	DEU	Europe	1993

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4311	1	Risk group (German classification) According to TRBA 466
119726	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 2671180035 annotated assembly for Pseudomonas graminis DSM 11363	scaffold	GCA_900111735	158627.14	2671180035	158627	54.25

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Pseudomonas graminis strain DSM 11363 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence	DQ023307	598	158627
20218	Pseudomonas graminis 16S rRNA gene	Y11150	1529	158627
124043	Pseudomonas graminis partial 16S rRNA gene, strain DSM 11363	LN551925	1315	158627

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas graminis DSM 11363
NCBI: GCA_900111735

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.80	no
125439	motility	BacteriaNetⓘ	yes	78.60	no
125439	gram_stain	BacteriaNetⓘ	negative	98.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	91.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas graminis DSM 11363
NCBI: GCA_900111735.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.50	no
125438	anaerobic	anaerobicⓘ	no	98.35	no
125438	aerobic	aerobicⓘ	yes	90.65	yes
125438	spore-forming	spore-formingⓘ	no	71.10	no
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	yes	92.53	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Diversity of Cultivable Microbes From Soil of the Fildes Peninsula, Antarctica, and Their Potential Application.	Cong B, Yin X, Deng A, Shen J, Tian Y, Wang S, Yang H.	Front Microbiol	10.3389/fmicb.2020.570836	2020
	High quality draft genome sequence of the type strain of Pseudomonas lutea OK2(T), a phosphate-solubilizing rhizospheric bacterium.	Kwak Y, Park GS, Shin JH.	Stand Genomic Sci	10.1186/s40793-016-0173-7	2016
Phylogeny	A primary assessment of the endophytic bacterial community in a xerophilous moss (Grimmia montana) using molecular method and cultivated isolates.	Liu XL, Liu SL, Liu M, Kong BH, Liu L, Li YH.	Braz J Microbiol	10.1590/s1517-83822014000100022	2014
	Plasmid donor affects host range of promiscuous IncP-1beta plasmid pB10 in an activated-sludge microbial community.	De Gelder L, Vandecasteele FP, Brown CJ, Forney LJ, Top EM.	Appl Environ Microbiol	10.1128/aem.71.9.5309-5317.2005	2005
	Control of bacterial motility by environmental factors in polarly flagellated and peritrichous bacteria isolated from Lake Baikal.	Soutourina OA, Semenova EA, Parfenova VV, Danchin A, Bertin P.	Appl Environ Microbiol	10.1128/aem.67.9.3852-3859.2001	2001
	Pseudomonas petrae sp. nov. isolated from regolith samples in Antarctica.	Novakova D, Koublova V, Sedlar K, Stankova E, Kralova S, Svec P, Neumann-Schaal M, Wolf J, Koudelkova S, Bartak M, Sedlacek I.	Syst Appl Microbiol	10.1016/j.syapm.2023.126424	2023
	Pseudomonas palmensis sp. nov., a Novel Bacterium Isolated From Nicotiana glauca Microbiome: Draft Genome Analysis and Biological Potential for Agriculture.	Gutierrez-Albanchez E, Garcia-Villaraco A, Lucas JA, Horche I, Ramos-Solano B, Gutierrez-Manero FJ.	Front Microbiol	10.3389/fmicb.2021.672751	2021
Phylogeny	Discovery of Phloeophagus Beetles as a Source of Pseudomonas Strains That Produce Potentially New Bioactive Substances and Description of Pseudomonas bohemica sp. nov.	Saati-Santamaria Z, Lopez-Mondejar R, Jimenez-Gomez A, Diez-Mendez A, Vetrovsky T, Igual JM, Velazquez E, Kolarik M, Rivas R, Garcia-Fraile P	Front Microbiol	10.3389/fmicb.2018.00913	2018
Phylogeny	Pseudomonas lutea sp. nov., a novel phosphate-solubilizing bacterium isolated from the rhizosphere of grasses.	Peix A, Rivas R, Santa-Regina I, Mateos PF, Martinez-Molina E, Rodriguez-Barrueco C, Velazquez E	Int J Syst Evol Microbiol	10.1099/ijs.0.02966-0	2004
Phylogeny	Pseudomonas rhizosphaerae sp. nov., a novel species that actively solubilizes phosphate in vitro.	Peix A, Rivas R, Mateos PF, Martinez-Molina E, Rodriguez-Barrueco C, Velazquez E	Int J Syst Evol Microbiol	10.1099/ijs.0.02703-0	2003
Phylogeny	Pseudomonas koreensis sp. nov., Pseudomonas umsongensis sp. nov. and Pseudomonas jinjuensis sp. nov., novel species from farm soils in Korea.	Kwon SW, Kim JS, Park IC, Yoon SH, Park DH, Lim CK, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.02326-0	2003
Phylogeny	A taxonomic study of bacteria isolated from grasses: a proposed new species Pseudomonas graminis sp. nov.	Behrendt U, Ulrich A, Schumann P, Erler W, Burghardt J, Seyfarth W	Int J Syst Bacteriol	10.1099/00207713-49-1-297	1999

References

#4311	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 11363
#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 )
#39760	; Curators of the CIP;
#59215	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 51504
#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) .
#68382	Automatically annotated from API zym .
#119726	Collection of Institut Pasteur ; Curators of the CIP; CIP 105897
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Pseudomonas graminis (DSM 11363, CCUG 51504, CIP 105897)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Antibiotic resistance

Metabolite production

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900111735

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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