Name: Pantoea allii BD390
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5017

Type strain:

Species: Pantoea allii

Strain Designation: BD390

Culture col. no.: DSM 25133, LMG 24248

Strain history: <- LMG <- I. Cleenwerck, Univ. Ghent, Belgium <- T. Coutinho, Forestry and Agricultural Biotechnology Inst., Univ. Pretoria, South Africa <- T. Goszczynska, Plant Protection Research Institute, Agricultural Research Council, Pretoria, South Africa

NCBI tax ID(s): 574096 (species)

SI-ID 281218

LMG 24248

Section

Pantoea allii BD390 is a facultative anaerobe, mesophilic, Gram-negative plant pathogen that was isolated from onion seed.

Gram-negative
motile
rod-shaped
facultative anaerobe
mesophilic
plant pathogen
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	*Enterobacterales*
	Family	*Erwiniaceae*
	Genus	*Pantoea*
	Species	**Pantoea allii**
	Full Scientific Name (LPSN)	Pantoea allii Brady et al. 2011

Information on morphological and physiological properties Morphology

[Ref.: #29859]	Gram stain	negative

[Ref.: #29859]	Cell shape	rod-shaped

[Ref.: #29859]	Motility	yes

[Ref.: #29859]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17915]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #17915]

Culture medium growth

[Ref.: #17915]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17915]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #17915]			growth	28 °C
[Ref.: #29859]			growth	30-40 °C

[Ref.: #17915]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29859]

Oxygen tolerance

facultative anaerobe

[Ref.: #29859]

Ability of spore formation

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29859]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #29859]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #29859]	acetate ChEBI	+	carbon source
[Ref.: #29859]	alanine ChEBI	+	carbon source
[Ref.: #29859]	arabinose ChEBI	+	carbon source
[Ref.: #29859]	asparagine ChEBI	+	carbon source
[Ref.: #29859]	aspartate ChEBI	+	carbon source
[Ref.: #29859]	cellobiose ChEBI	+	carbon source
[Ref.: #29859]	citrate ChEBI	+	carbon source
[Ref.: #29859]	dextrin ChEBI	+	carbon source
[Ref.: #29859]	fructose ChEBI	+	carbon source
[Ref.: #29859]	galactose ChEBI	+	carbon source
[Ref.: #29859]	galacturonate ChEBI	+	carbon source
[Ref.: #29859]	gluconate ChEBI	+	carbon source
[Ref.: #29859]	glucosamine ChEBI	+	carbon source
[Ref.: #29859]	glucose ChEBI	+	carbon source
[Ref.: #29859]	glutamate ChEBI	+	carbon source
[Ref.: #29859]	glycerol ChEBI	+	carbon source
[Ref.: #29859]	L-arabitol ChEBI	+	carbon source
[Ref.: #29859]	lactate ChEBI	+	carbon source
[Ref.: #29859]	lactose ChEBI	+	carbon source
[Ref.: #29859]	malate ChEBI	+	carbon source
[Ref.: #29859]	maltose ChEBI	+	carbon source
[Ref.: #29859]	mannose ChEBI	+	carbon source
[Ref.: #29859]	melibiose ChEBI	+	carbon source
[Ref.: #29859]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #29859]	myo-inositol ChEBI	+	carbon source
[Ref.: #29859]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #29859]	proline ChEBI	+	carbon source
[Ref.: #29859]	quinate ChEBI	+	carbon source
[Ref.: #29859]	raffinose ChEBI	+	carbon source
[Ref.: #29859]	rhamnose ChEBI	+	carbon source
[Ref.: #29859]	ribitol ChEBI	+	carbon source
[Ref.: #29859]	ribose ChEBI	+	carbon source
[Ref.: #29859]	serine ChEBI	+	carbon source
[Ref.: #29859]	sorbitol ChEBI	+	carbon source
[Ref.: #29859]	succinate ChEBI	+	carbon source
[Ref.: #29859]	sucrose ChEBI	+	carbon source
[Ref.: #29859]	trehalose ChEBI	+	carbon source
[Ref.: #29859]	tween 40 ChEBI	+	carbon source
[Ref.: #29859]	tween 80 ChEBI	+	carbon source
[Ref.: #29859]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29859]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #29859]		indole ChEBI	+

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29859]		catalase	+	1.11.1.6

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #17915]	Sample type/isolated from	onion seed
[Ref.: #17915]	Country	South Africa
[Ref.: #17915]	Country ISO 3 Code	ZAF
[Ref.: #17915]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Host

#Plants

#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY530795 (>99% sequence identity) for Pantoea ananatis from Microbeatlas

Aquatic Samples	764
Soil Samples	845
Animal Samples	5045
Plant Samples	2149
Total Samples	8803

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #17915]	Pathogenicity (plant)	yes
[Ref.: #17915]	Biosafety level	1	Risk group (German classification) According to TRBA 466

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.: #17915]	Pantoea allii strain BD 390 16S ribosomal RNA gene, partial sequence	AY530795	1533	ENA	574096 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pantoea allii LMG 24248	GCA_002307475	contig	GenBank	574096 tax ID	*
[Ref.: #66792]	Pantoea allii LMG 24248	GCA_002095545	contig	GenBank	574096 tax ID	*
[Ref.: #66792]	Pantoea allii strain LMG 24248	574096.3	wgs	PATRIC	574096 tax ID	*
[Ref.: #66792]	Pantoea allii strain LMG 24248	574096.6	wgs	PATRIC	574096 tax ID	*
[Ref.: #66792]	Pantoea allii LMG 24248	2814123165	draft	JGI IMG/M	574096 tax ID	*

[Ref.: #29859]

GC-content

53.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pantoea allii strain LMG 24248 PATRIC: 574096.3
[Ref.: #69480]	gram-positive	no	97.881	yes
[Ref.: #69480]	anaerobic	no	99.068	yes
[Ref.: #69480]	halophile	no	80.181	no
[Ref.: #69480]	spore-forming	no	93.913	yes
[Ref.: #69480]	glucose-util	yes	95.638	no
[Ref.: #69480]	thermophile	no	99.119	yes
[Ref.: #69480]	flagellated	no	64.844	no
[Ref.: #69480]	aerobic	no	62.678	yes
[Ref.: #69480]	motile	yes	91.399	yes
[Ref.: #69480]	glucose-ferment	yes	89.627	no

Availability in culture collections External links

[Ref.: #17915]

Culture collection no.

DSM 25133, LMG 24248

[Ref.: #74512]

SI-ID 281218

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pantoea allii sp. nov., isolated from onion plants and seed.	Brady CL, Goszczynska T, Venter SN, Cleenwerck I, De Vos P, Gitaitis RD, Coutinho TA	Int J Syst Evol Microbiol	10.1099/ijs.0.022921-0	2010	*

References

#17915

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25133

#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 )

#29859

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 #26233 (see below)

#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) .

#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) .

#74512

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-ID281218.1 )

#26233

IJSEM 932 2011 ( DOI 10.1099/ijs.0.022921-0 , PubMed 20495023 )

* These data were automatically processed and therefore are not curated

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Pantoea allii strain LMG 24248

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