Pantoea coffeiphila (DSM 28482, CIP 110718, Ca04)

BacDive ID 130309

Type strain

Strain Designation Ca04

Culture col. no. DSM 28482 CIP 110718 Ca04

NCBI tax ID(s) 1465635

Special Collections DSMZ CIP

History DSMZ <- A. Le Flèche-Matéos, CIP; Ca04 <- D. Gueule, CIRAD, Montpellier, France CIP <- 2014, A. Le Flèche, Inst. Pasteur, Paris, France <- D. Gueule, Cirad, Montpellier, France: strain Ca04

Links

Pantoea coffeiphila Ca04 is a Gram-negative plant pathogen that was isolated from coffee seeds with "potato taste".

Gram-negative plant pathogen 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402408

DSM 28482,CIP 110718

@ref 20215

Last LPSN update 2026-05-29 08:37:20

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Enterobacterales

Family Erwiniaceae

Genus Pantoea

Species Pantoea coffeiphila

Full scientific name Pantoea coffeiphila Gueule et al. 2015

BacDive ID	Other strains from **Pantoea coffeiphila** (3)	Type strain
172316	P. coffeiphila Ca02, CIP 110759
172317	P. coffeiphila Ca05, CIP 110760
172318	P. coffeiphila Ca08, CIP 110761

Morphology

Cell morphology

@ref	Gram stain	Motility
118325	negative

Multimedia

@ref:	21720
multimedia content:	DSM_28482.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_28482.jpg
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21720	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
118325	CIP Medium 72		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
21720	positive	growth	28

Physiology and metabolism

Compound production

21720

Compound2 isopropyl-3-methoxypyrazine

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	27613 ChEBI	amygdalin	+	fermentation	from API 20E
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	-	assimilation	from API 20E
68368	17634 ChEBI	D-glucose	+	fermentation	from API 20E
68368	16899 ChEBI	D-mannitol	-	fermentation	from API 20E
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68368	30849 ChEBI	L-arabinose	-	fermentation	from API 20E
68368	62345 ChEBI	L-rhamnose	+	fermentation	from API 20E
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68368	28053 ChEBI	melibiose	-	fermentation	from API 20E
68368	17268 ChEBI	myo-inositol	+	fermentation	from API 20E
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68368	30911 ChEBI	sorbitol	-	fermentation	from API 20E
68368	17992 ChEBI	sucrose	+	fermentation	from API 20E
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Indole test
68368	15688 ChEBI	acetoin	+		from API 20E
68368	35581 ChEBI	indole		-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68368	cytochrome oxidase	-	1.9.3.1	from API 20E
68368	gelatinase	-		from API 20E
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
68368	urease	-	3.5.1.5	from API 20E

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
21720	-	-	-	-	-	-	-	-	-	+	-	+	-	+	-	+	+	-	+	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
21720	-	-	-	-	-	-	-	-	-	+	-	+	-	+	-	+	+	-	+	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Shrub (Scrub)
#Host Body-Site	#Plant	#Fruit (Seed)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
21720	coffee seeds with "potato taste"		Burundi	BDI	Africa
118325	Coffee cherries, Burundi (15/10/1992)	Montpellier	France	FRA	Europe	1993

Interaction and safety

Risk assessment

@ref	Pathogenicity plant	Biosafety level	Biosafety level comment
21720		1	Risk group (German classification)
118325		1	Risk group (French classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21720	Pantoea coffeiphila strain Ca04 16S ribosomal RNA gene, partial sequence	KJ427829	1453		1465635

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pantoea coffeiphila sp. nov., cause of the 'potato taste' of Arabica coffee from the African Great Lakes region.	Gueule D, Fourny G, Ageron E, Le Fleche-Mateos A, Vandenbogaert M, Grimont PAD, Cilas C	Int J Syst Evol Microbiol	10.1099/ijs.0.063545-0	2014

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 )
#21720	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28482
#68368	Automatically annotated from API 20E .
#118325	Collection of Institut Pasteur ; Curators of the CIP; CIP 110718
#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

Pantoea coffeiphila (DSM 28482, CIP 110718, Ca04)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Compound production

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20E

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

16S sequences

Genome-based predictions

Literature

Literature

References

BacDive

Help

Social Media