Name: Paenibacillus massiliensis subsp. panacisoli DSM 21345
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11615

Type strain:

Species: Paenibacillus massiliensis subsp. panacisoli

Culture col. no.: DSM 21345, KCTC 13020, LMG 23405, Gsoil 1411

Strain history: <- ST Lee, KAIST

NCBI tax ID(s): 1122922 (strain), 363858 (subspecies)

SI-ID 289691

LMG 23405, KCTC 13020, DSM 21345

Section

Paenibacillus massiliensis subsp. panacisoli DSM 21345 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms irregular colonies and was isolated from soil, ginseng field.

colony-forming
Gram-positive
rod-shaped
spore-forming
facultative anaerobe
mesophilic
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Paenibacillaceae*
	Genus	*Paenibacillus*
	Species	**Paenibacillus massiliensis subsp. panacisoli**
	Full Scientific Name (LPSN)	Paenibacillus massiliensis subsp. panacisoli (Ten et al. 2006) Tonial et al. 2020

Synonym

Paenibacillus panacisoli

Information on morphological and physiological properties Morphology

[Ref.: #43394]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #43394]	Cell length	2-5 µm

[Ref.: #43394]	Cell width	0.4-0.6 µm

[Ref.: #43394]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #43394]	Motility	no
[Ref.: #67771]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.893

[Ref.: #43394]	Colony size	0.5-1 mm
[Ref.: #43394]	Colony color	slightly yellowish
[Ref.: #43394]	Colony shape	irregular
[Ref.: #43394]	Incubation period	1 day
[Ref.: #43394]	Cultivation medium used	R2A-Agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15631]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #15631]

Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #15631]

Culture medium composition

expand / minimize

[Ref.: #43394]

Culture medium

R2A-Agar

[Ref.: #43394]

Culture medium growth

[Ref.: #43394]

Culture medium

TSA agar

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

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Culture medium

Nutrient agar (NA)

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Culture medium growth

		Temperature
[Ref.: #15631]	growth	35 °C
[Ref.: #43394]	optimum	37 °C
[Ref.: #43394]	growth	20-42 °C
[Ref.: #67771]	growth	37 °C

[Ref.: #15631]	Temperature range	mesophilic
[Ref.: #43394]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43394]			optimum	6.5
[Ref.: #43394]			growth	5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43394]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #43394]	Spore description	oval, subterminal and occur in swollen sporangia
[Ref.: #43394]	Type of spore	spore
[Ref.: #43394]	Ability of spore formation	yes
[Ref.: #67771]	Type of spore	spore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43394]		NaCl		growth	0-5	%(w/v)
[Ref.: #43394]		NaCl	no	growth	7	%(w/v)

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43394]	3-hydroxybenzoate ChEBI	-	growth
[Ref.: #43394]	3-hydroxybutyrate ChEBI	-	growth
[Ref.: #43394]	4-hydroxybenzoate ChEBI	-	growth
[Ref.: #43394]	acetate ChEBI	-	growth
[Ref.: #43394]	adipate ChEBI	-	growth
[Ref.: #43394]	amygdalin ChEBI	-	growth
[Ref.: #43394]	benzoate ChEBI	-	growth
[Ref.: #43394]	casein	+	hydrolysis
[Ref.: #43394]	cellobiose ChEBI	-	growth
[Ref.: #43394]	chitin ChEBI	-	hydrolysis
[Ref.: #43394]	citrate ChEBI	-	growth
[Ref.: #43394]	citrate ChEBI	-	carbon source
[Ref.: #43394]	D-arabinose ChEBI	-	growth
[Ref.: #43394]	D-fructose ChEBI	-	growth
[Ref.: #43394]	D-fucose ChEBI	-	growth
[Ref.: #43394]	D-galactose ChEBI	-	growth
[Ref.: #43394]	D-glucose ChEBI	-	growth
[Ref.: #43394]	D-lyxose ChEBI	-	growth
[Ref.: #43394]	D-mannitol ChEBI	-	growth
[Ref.: #43394]	D-mannitol ChEBI	+	builds acid from
[Ref.: #43394]	D-mannose ChEBI	-	growth
[Ref.: #43394]	D-mannose ChEBI	+	growth
[Ref.: #43394]	D-ribose ChEBI	+	growth
[Ref.: #43394]	D-sorbitol ChEBI	-	growth
[Ref.: #43394]	D-trehalose ChEBI	-	growth
[Ref.: #43394]	D-xylose ChEBI	+	growth
[Ref.: #43394]	decanoate ChEBI	-	growth
[Ref.: #43394]	dextran ChEBI	-	growth
[Ref.: #43394]	dna ChEBI	-	hydrolysis
[Ref.: #43394]	esculin ChEBI	-	hydrolysis
[Ref.: #43394]	ethanol ChEBI	-	growth
[Ref.: #43394]	formate ChEBI	-	growth
[Ref.: #43394]	fumarate ChEBI	-	growth
[Ref.: #43394]	galactitol ChEBI	-	growth
[Ref.: #43394]	gelatin ChEBI	+	hydrolysis
[Ref.: #43394]	gluconate ChEBI	+/-	growth
[Ref.: #43394]	glutaric acid ChEBI	-	growth
[Ref.: #43394]	glycerol ChEBI	+	growth
[Ref.: #43394]	glycine ChEBI	-	growth
[Ref.: #43394]	glycogen ChEBI	-	growth
[Ref.: #43394]	hydroxyethylcellulose ChEBI	-	hydrolysis
[Ref.: #43394]	inulin ChEBI	+	growth
[Ref.: #43394]	itaconate ChEBI	-	growth
[Ref.: #43394]	L-alanine ChEBI	-	growth
[Ref.: #43394]	L-arabinose ChEBI	-	growth
[Ref.: #43394]	L-arabinose ChEBI	+/-
[Ref.: #43394]	L-arginine ChEBI	-	growth
[Ref.: #43394]	L-asparagine ChEBI	-	growth
[Ref.: #43394]	L-aspartate ChEBI	-	growth
[Ref.: #43394]	L-cysteine ChEBI	-	growth
[Ref.: #43394]	L-glutamate ChEBI	-	growth
[Ref.: #43394]	L-glutamine ChEBI	-	growth
[Ref.: #43394]	L-histidine ChEBI	-	growth
[Ref.: #43394]	L-isoleucine ChEBI	-	growth
[Ref.: #43394]	L-leucine ChEBI	-	growth
[Ref.: #43394]	L-lysine ChEBI	-	growth
[Ref.: #43394]	L-methionine ChEBI	-	growth
[Ref.: #43394]	L-phenylalanine ChEBI	-	growth
[Ref.: #43394]	L-proline ChEBI	-	growth
[Ref.: #43394]	L-rhamnose ChEBI	-	growth
[Ref.: #43394]	L-serine ChEBI	-	growth
[Ref.: #43394]	L-sorbose ChEBI	-	growth
[Ref.: #43394]	L-threonine ChEBI	-	growth
[Ref.: #43394]	L-tryptophan ChEBI	-	growth
[Ref.: #43394]	L-tyrosine ChEBI	-	growth
[Ref.: #43394]	L-valine ChEBI	-	growth
[Ref.: #43394]	L-xylose ChEBI	+	growth
[Ref.: #43394]	lactate ChEBI	-	growth
[Ref.: #43394]	lactose ChEBI	+	growth
[Ref.: #43394]	malate ChEBI	-	growth
[Ref.: #43394]	maleic acid ChEBI	-	growth
[Ref.: #43394]	malonate ChEBI	-	growth
[Ref.: #43394]	maltose ChEBI	-	growth
[Ref.: #43394]	melibiose ChEBI	-	growth
[Ref.: #43394]	methanol ChEBI	-	growth
[Ref.: #43394]	myo-inositol ChEBI	-
[Ref.: #43394]	myo-inositol ChEBI	-	growth
[Ref.: #43394]	N-acetylglucosamine ChEBI	-	growth
[Ref.: #43394]	oxalate ChEBI	-	growth
[Ref.: #43394]	phenylacetate ChEBI	-	growth
[Ref.: #43394]	propionate ChEBI	-	growth
[Ref.: #43394]	pyruvate ChEBI	-	growth
[Ref.: #43394]	raffinose ChEBI	-	growth
[Ref.: #43394]	raffinose ChEBI	+	growth
[Ref.: #43394]	ribitol ChEBI	-	growth
[Ref.: #43394]	salicin ChEBI	-	growth
[Ref.: #43394]	starch ChEBI	-	hydrolysis
[Ref.: #43394]	suberic acid ChEBI	-	growth
[Ref.: #43394]	succinate ChEBI	-	growth
[Ref.: #43394]	sucrose ChEBI	-	growth
[Ref.: #43394]	tartrate ChEBI	-	growth
[Ref.: #43394]	valerate ChEBI	-	growth
[Ref.: #43394]	xylan ChEBI	+	hydrolysis
[Ref.: #43394]	xylitol ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43394]	acetoin ChEBI	no
[Ref.: #43394]	hydrogen sulfide ChEBI	no
[Ref.: #43394]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Citrate test
[Ref.: #43394]		acetoin ChEBI	-
[Ref.: #43394]		citrate ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #43394]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43394]	beta-galactosidase	-	3.2.1.23
[Ref.: #43394]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43394]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #43394]	tryptophan deaminase	+	4.1.99.1
[Ref.: #43394]	urease	-	3.5.1.5

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

[Ref.: #15631]	Sample type/isolated from	soil, ginseng field
[Ref.: #15631]	Geographic location (country and/or sea, region)	Pocheon province
[Ref.: #15631]	Country	Republic of Korea
[Ref.: #15631]	Country ISO 3 Code	KOR
[Ref.: #15631]	Continent	Asia

[Ref.: #43394]	Sample type/isolated from	soil of a ginseng field
[Ref.: #43394]	Geographic location (country and/or sea, region)	Pocheon Province
[Ref.: #43394]	Country	Republic of Korea
[Ref.: #43394]	Country ISO 3 Code	KOR
[Ref.: #43394]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From soil of the ginseng field
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB245384 (>99% sequence identity) for Paenibacillus from Microbeatlas

Aquatic Samples	126
Soil Samples	953
Animal Samples	229
Plant Samples	1370
Total Samples	2678

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

[Ref.: #15631]

Biosafety level

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.: #15631]	Paenibacillus panacisoli gene for 16S rRNA, partial sequence, strain: Gsoil 1411	AB245384	1487	ENA	363858 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paenibacillus massiliensis subsp. panacisoli DSM 21345	GCA_000426545	scaffold	GenBank	1122922 tax ID	*
[Ref.: #66792]	Paenibacillus panacisoli DSM 21345	1122922.3	wgs	PATRIC	1122922 tax ID	*
[Ref.: #66792]	Paenibacillus panacisoli DSM 21345	2524614514	draft	JGI IMG/M	1122922 tax ID	*

[Ref.: #15631]	GC-content	53.9 mol%
[Ref.: #43394]	GC-content	53.9 mol%	high performance liquid chromatography (HPLC)

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: Paenibacillus massiliensis subsp. panacisoli DSM 21345 DSM 21345 NCBI: GCA_000426545.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paenibacillus massiliensis subsp. panacisoli DSM 21345 DSM 21345 NCBI: GCA_000426545.1
[Ref.: #69480]	motile	yes	90.321	no
[Ref.: #69480]	flagellated	yes	67.47	yes
[Ref.: #69480]	gram-positive	yes	85.679	yes
[Ref.: #69480]	anaerobic	no	96.015	yes
[Ref.: #69480]	aerobic	yes	73.873	no
[Ref.: #69480]	halophile	no	86.046	no
[Ref.: #69480]	spore-forming	yes	96.122	yes
[Ref.: #69480]	glucose-util	yes	88.688	yes
[Ref.: #69480]	thermophile	no	99.594	yes
[Ref.: #69480]	glucose-ferment	no	78.841	no

Availability in culture collections External links

[Ref.: #15631]

Culture collection no.

DSM 21345, KCTC 13020, LMG 23405, Gsoil 1411

[Ref.: #80841]

SI-ID 289691

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Genome-based reclassification of Paenibacillus panacisoli DSM 21345(T) as Paenibacillus massiliensis subsp. panacisoli subsp. nov. and description of Paenibacillus massiliensis subsp. massiliensis subsp. nov.	Tonial F, Guella F, Passaglia LMP, Sant'Anna FH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004328	2020	*
Phylogeny	Paenibacillus panacisoli sp. nov., a xylanolytic bacterium isolated from soil in a ginseng field in South Korea.	Ten LN, Baek SH, Im WT, Lee M, Oh HW, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.64405-0	2006	*

References

#15631

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21345

#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 )

#43394

Leonid N. Ten, Sang-Hoon Baek, Wan-Taek Im, Myungjin Lee, Hyun Woo Oh and Sung-Taik Lee: Paenibacillus panacisoli sp. nov., a xylanolytic bacterium isolated from soil in a ginseng field in South Korea. IJSEM 2006: 2677 - 2681 56 ( DOI 10.1099/ijs.0.64405-0 , PubMed 17082410 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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) .

#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 )

#80841

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-ID289691.1 )

* These data were automatically processed and therefore are not curated

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Paenibacillus massiliensis subsp. panacisoli DSM 21345 DSM 21345

Paenibacillus massiliensis subsp. panacisoli DSM 21345 DSM 21345

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