Name: Pantoea rodasii BD 943
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 23003

Type strain:

Species: Pantoea rodasii

Strain Designation: BD 943

Culture col. no.: DSM 26611, LMG 26273, BCC 571

Strain history: <- T. A. Coutinho, Forestry and Agricultural Biotechnology Inst., Univ. Pretoria, South Africa

NCBI tax ID(s): 1076549 (species)

SI-ID 377273

LMG 26273, BCC 581

Section

Pantoea rodasii BD 943 is a facultative anaerobe, mesophilic, Gram-negative plant pathogen that was isolated from Eucalyptus seedlings with symptoms of dieback and bacterial blight.

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 rodasii**
	Full Scientific Name (LPSN)	Pantoea rodasii Brady et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30290]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.992

[Ref.: #30290]	Cell length	2.25 µm

[Ref.: #30290]	Cell width	1 µm

[Ref.: #30290]	Cell shape	rod-shaped

[Ref.: #30290]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.307

[Ref.: #30290]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #19153]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #19153]

Culture medium growth

[Ref.: #19153]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19153]

Culture medium composition

expand / minimize

[Ref.: #19153]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #19153]

Culture medium growth

[Ref.: #19153]

Culture medium link

Medium recipe at MediaDive

[Ref.: #19153]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #19153]			growth	28 °C
[Ref.: #30290]			growth	28 °C

[Ref.: #19153]	Temperature range	mesophilic
[Ref.: #30290]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30290]

Oxygen tolerance

facultative anaerobe

[Ref.: #30290]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.927

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30290]	acetate ChEBI	+	carbon source
[Ref.: #30290]	alanine ChEBI	+	carbon source
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	arabinose ChEBI	+	carbon source
[Ref.: #68371]	arbutin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	asparagine ChEBI	+	carbon source
[Ref.: #30290]	aspartate ChEBI	+	carbon source
[Ref.: #30290]	cellobiose ChEBI	+	carbon source
[Ref.: #68371]	cellobiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fructose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-xylose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	formate ChEBI	+	carbon source
[Ref.: #30290]	fructose ChEBI	+	carbon source
[Ref.: #68371]	galactitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	galactonate ChEBI	+	carbon source
[Ref.: #30290]	galactose ChEBI	+	carbon source
[Ref.: #30290]	galacturonate ChEBI	+	carbon source
[Ref.: #30290]	gluconate ChEBI	+	carbon source
[Ref.: #68371]	gluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	glucose ChEBI	+	carbon source
[Ref.: #30290]	glucuronamide ChEBI	+	carbon source
[Ref.: #30290]	glutamate ChEBI	+	carbon source
[Ref.: #30290]	glycerol ChEBI	+	carbon source
[Ref.: #68371]	glycerol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	histidine ChEBI	+	carbon source
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabinose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	L-arabitol ChEBI	+	carbon source
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	lactate ChEBI	+	carbon source
[Ref.: #30290]	lactose ChEBI	+	carbon source
[Ref.: #68371]	lactose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	maltose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	mannitol ChEBI	+	carbon source
[Ref.: #30290]	mannose ChEBI	+	carbon source
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	melibiose ChEBI	+	carbon source
[Ref.: #68371]	melibiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	methyl D-glucoside ChEBI	+	carbon source
[Ref.: #30290]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #68371]	myo-inositol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68371]	N-acetylglucosamine ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	proline ChEBI	+	carbon source
[Ref.: #30290]	quinate ChEBI	+	carbon source
[Ref.: #68371]	raffinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	rhamnose ChEBI	+	carbon source
[Ref.: #30290]	ribitol ChEBI	+	carbon source
[Ref.: #68371]	ribitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	serine ChEBI	+	carbon source
[Ref.: #30290]	sorbitol ChEBI	+	carbon source
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	succinate ChEBI	+	carbon source
[Ref.: #30290]	sucrose ChEBI	+	carbon source
[Ref.: #68371]	sucrose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #30290]	thymidine ChEBI	+	carbon source
[Ref.: #30290]	trehalose ChEBI	+	carbon source
[Ref.: #68371]	trehalose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #30290]	tween 40 ChEBI	+	carbon source
[Ref.: #30290]	tween 80 ChEBI	+	carbon source
[Ref.: #30290]	uridine ChEBI	+	carbon source
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30290]		catalase	+	1.11.1.6

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #19153]	14965	-	+	+	-	+	+	+	-	+	-	+	+	+	+	-	+	-	+	+	-	-	-	+	-	+	+	+	+	-	-	+	+	+	-	-	-	-	-	-	+/-	-	-	-	+	-	+	-	-	-	-

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

[Ref.: #19153]	Sample type/isolated from	Eucalyptus seedlings with symptoms of dieback and bacterial blight
[Ref.: #19153]	Host species	Eucalyptus
[Ref.: #19153]	Country	Colombia
[Ref.: #19153]	Country ISO 3 Code	COL
[Ref.: #19153]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

#Infection	#Disease	-
#Host	#Plants	#Shrub (Scrub)
#Host	#Plants	#Tree

What are isolation sources categories?

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

[Ref.: #19153]	Pathogenicity (plant)	yes
[Ref.: #19153]	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.: #19153]	Pantoea rodasii strain LMG 26273 16S ribosomal RNA gene, complete sequence	JF295053	1344	ENA	1076549 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pantoea rodasii DSM 26611	GCA_002811195	contig	GenBank	1076549 tax ID	*
[Ref.: #66792]	Pantoea rodasii LMG 26273	GCA_002095465	contig	GenBank	1076549 tax ID	*
[Ref.: #66792]	Pantoea rodasii strain DSM 26611	1076549.5	wgs	PATRIC	1076549 tax ID	*
[Ref.: #66792]	Pantoea rodasii strain LMG 26273	1076549.4	wgs	PATRIC	1076549 tax ID	*
[Ref.: #66792]	Pantoea rodasii DSM 26611	2871765707	draft	JGI IMG/M	1076549 tax ID	*
[Ref.: #66792]	Pantoea rodasii LMG 26273	2802429580	draft	JGI IMG/M	1076549 tax ID	*

[Ref.: #30290]

GC-content

53.2 mol%

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: Pantoea rodasii strain LMG 26273 PATRIC: 1076549.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pantoea rodasii strain DSM 26611 PATRIC: 1076549.5
[Ref.: #69480]	motile	yes	91.033	yes
[Ref.: #69480]	flagellated	no	60.779	no
[Ref.: #69480]	gram-positive	no	97.995	yes
[Ref.: #69480]	anaerobic	no	98.641	yes
[Ref.: #69480]	aerobic	no	53.897	no
[Ref.: #69480]	halophile	no	88.663	no
[Ref.: #69480]	spore-forming	no	94.513	yes
[Ref.: #69480]	thermophile	no	99.365	yes
[Ref.: #69480]	glucose-util	yes	95.787	no
[Ref.: #69480]	glucose-ferment	yes	88.082	no

Availability in culture collections External links

[Ref.: #19153]

Culture collection no.

DSM 26611, LMG 26273, BCC 571

[Ref.: #87248]

SI-ID 377273

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Jinshanibacter, a new genus of Budviciaceae: identification of Jinshanibacter zhutongyuii sp. nov. and Jinshanibacter xujianqingii sp. nov. isolated from cloacal content of snow finch (Montifringilla taczanowskii).	Ge Y, Wang B, Yang J, Lai XH, Zhang G, Lu S, Jin D, Huang Y, Cheng Y, Zhang X, Xu J	Int J Syst Evol Microbiol	10.1099/ijsem.0.004653	2021	*
Phylogeny	Chania multitudinisentens gen. nov., sp. nov., an N-acyl-homoserine-lactone-producing bacterium in the family Enterobacteriaceae isolated from landfill site soil.	Ee R, Madhaiyan M, Ji L, Lim YL, Nor NM, Tee KK, Chen JW, Yin WF	Int J Syst Evol Microbiol	10.1099/ijsem.0.001025	2016	*
Phylogeny	Pantoea rodasii sp. nov., Pantoea rwandensis sp. nov. and Pantoea wallisii sp. nov., isolated from Eucalyptus.	Brady CL, Cleenwerck I, van der Westhuizen L, Venter SN, Coutinho TA, De Vos P	Int J Syst Evol Microbiol	10.1099/ijs.0.032615-0	2011	*
Phylogeny	Pantoea endophytica sp. nov., novel endophytic bacteria isolated from maize planting in different geographic regions of northern China.	Gao JL, Xue J, Yan H, Tong S, Sayyar Khan M, Wang LW, Mao XJ, Zhang X, Sun JG	Syst Appl Microbiol	10.1016/j.syapm.2019.06.001	2019	*

References

#19153

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26611

#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 )

#30290

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 #26631 (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) .

#68371

Automatically annotated from API 50CH acid .

#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 )

#87248

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-ID377273.1 )

#26631

IJSEM 1457 2012 ( DOI 10.1099/ijs.0.032615-0 , PubMed 21841003 )

* These data were automatically processed and therefore are not curated

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Pantoea rodasii strain LMG 26273

Pantoea rodasii strain DSM 26611

Change proposal

Change proposal