Name: Paenibacillus cucumis AP-115
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132572

Type strain:

Species: Paenibacillus cucumis

Strain Designation: AP-115

Culture col. no.: DSM 101601, CCM 8653, LMG 29222, CCM 8655

Strain history: <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany <- J. A. McInroy, Department of Entomology and Plant Pathology, Auburn University, Alabama, USA; AP-115

NCBI tax ID(s): 1776858 (species)

SI-ID 402596

DSM 101601

Other strains from Paenibacillus cucumis

P. cucumis JCM 19515, KACC 17444 (type strain)
P. cucumis AP-115, CIP 110979 (type strain)

Section

Paenibacillus cucumis AP-115 is an aerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from field-grown cucumber plant.

colony-forming
Gram-positive
rod-shaped
spore-forming
aerobe
mesophilic
16S sequence
Bacteria

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 cucumis**
	Full Scientific Name (LPSN)	Paenibacillus cucumis Kämpfer et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43616]	Gram stain	positive

[Ref.: #43616]	Cell length	2-3 µm

[Ref.: #43616]	Cell width	0.8-1 µm

[Ref.: #43616]	Cell shape	rod-shaped

[Ref.: #43616]	Motility	no

[Ref.: #43616]	Colony size	2-3 mm
[Ref.: #43616]	Colony color	Beige
[Ref.: #43616]	Colony shape	circular
[Ref.: #43616]	Incubation period	2 days
[Ref.: #43616]	Cultivation medium used	TSA agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #41952]

Culture medium

MEDIUM 72- for trypto casein soja agar

[Ref.: #41952]

Culture medium growth

[Ref.: #41952]

Culture medium composition

expand / minimize

[Ref.: #43616]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #43616]

Culture medium growth

[Ref.: #24361]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #24361]

Culture medium growth

[Ref.: #24361]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24361]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24361]	growth	30 °C
[Ref.: #41952]	growth	30 °C
[Ref.: #43616]	growth	10-45 °C
[Ref.: #43616]	optimum	28-30 °C

[Ref.: #24361]	Temperature range	mesophilic
[Ref.: #41952]	Temperature range	mesophilic
[Ref.: #43616]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #43616]			optimum	7-8
[Ref.: #43616]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43616]

Oxygen tolerance

aerobe

[Ref.: #43616]	Spore description	oval endospores are formed in a central position
[Ref.: #43616]	Type of spore	endospore
[Ref.: #43616]	Ability of spore formation	yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43616]		NaCl		growth	1-5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43616]	2-oxoglutarate ChEBI	-	carbon source
[Ref.: #43616]	4-nitrophenyl beta-D-glucuronide ChEBI	+	hydrolysis
[Ref.: #43616]	acetate ChEBI	-	carbon source
[Ref.: #43616]	adipate ChEBI	-	carbon source
[Ref.: #43616]	arbutin ChEBI	+	carbon source
[Ref.: #43616]	azelaate ChEBI	-	carbon source
[Ref.: #43616]	casein	-	hydrolysis
[Ref.: #43616]	cellobiose ChEBI	-	builds acid from
[Ref.: #43616]	cellobiose ChEBI	+	carbon source
[Ref.: #43616]	cis-aconitate ChEBI	-	carbon source
[Ref.: #43616]	citrate ChEBI	-	assimilation
[Ref.: #43616]	citrate ChEBI	-	carbon source
[Ref.: #43616]	D-arabitol ChEBI	-	builds acid from
[Ref.: #43616]	D-fructose ChEBI	+	carbon source
[Ref.: #43616]	D-galactose ChEBI	+	carbon source
[Ref.: #43616]	D-glucose ChEBI	-	builds acid from
[Ref.: #43616]	D-glucose ChEBI	+	carbon source
[Ref.: #43616]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43616]	D-mannitol ChEBI	+	carbon source
[Ref.: #43616]	D-mannose ChEBI	-	builds acid from
[Ref.: #43616]	D-mannose ChEBI	+	carbon source
[Ref.: #43616]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43616]	D-sorbitol ChEBI	+	carbon source
[Ref.: #43616]	D-xylose ChEBI	-	builds acid from
[Ref.: #43616]	D-xylose ChEBI	+	carbon source
[Ref.: #43616]	erythritol ChEBI	-	builds acid from
[Ref.: #43616]	galactitol ChEBI	-	builds acid from
[Ref.: #43616]	gamma-aminobutyric acid ChEBI	-	carbon source
[Ref.: #43616]	gelatin ChEBI	-	hydrolysis
[Ref.: #43616]	gluconate ChEBI	+	carbon source
[Ref.: #43616]	itaconate ChEBI	-	carbon source
[Ref.: #43616]	L-alanine 4-nitroanilide	+	hydrolysis
[Ref.: #43616]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43616]	L-arabinose ChEBI	+	carbon source
[Ref.: #43616]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43616]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43616]	lactose ChEBI	-	builds acid from
[Ref.: #43616]	malate ChEBI	+	carbon source
[Ref.: #43616]	maltitol ChEBI	+	carbon source
[Ref.: #43616]	maltose ChEBI	+	carbon source
[Ref.: #43616]	maltose hydrate	-	builds acid from
[Ref.: #43616]	melibiose ChEBI	-	builds acid from
[Ref.: #43616]	melibiose ChEBI	-	carbon source
[Ref.: #43616]	mesaconate ChEBI	-	carbon source
[Ref.: #43616]	myo-inositol ChEBI	+	carbon source
[Ref.: #43616]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #43616]	propionate ChEBI	-	carbon source
[Ref.: #43616]	putrescine ChEBI	-	carbon source
[Ref.: #43616]	pyruvate ChEBI	+	carbon source
[Ref.: #43616]	raffinose ChEBI	-	builds acid from
[Ref.: #43616]	ribitol ChEBI	-	builds acid from
[Ref.: #43616]	ribitol ChEBI	-	carbon source
[Ref.: #43616]	ribose ChEBI	-	carbon source
[Ref.: #43616]	salicin ChEBI	-	builds acid from
[Ref.: #43616]	salicin ChEBI	+	carbon source
[Ref.: #43616]	starch ChEBI	-	hydrolysis
[Ref.: #43616]	sucrose ChEBI	-	builds acid from
[Ref.: #43616]	sucrose ChEBI	+	carbon source
[Ref.: #43616]	trans-aconitate ChEBI	-	carbon source
[Ref.: #43616]	trehalose ChEBI	-	builds acid from
[Ref.: #43616]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43616]		indole ChEBI	no
[Ref.: #43616]		sulfide ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43616]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43616]	beta-galactosidase	-	3.2.1.23
[Ref.: #43616]	catalase	+	1.11.1.6
[Ref.: #43616]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43616]	gelatinase	-
[Ref.: #43616]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43616]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #43616]	tryptophan deaminase	-	4.1.99.1
[Ref.: #43616]	urease	+/-	3.5.1.5

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43616]

Fatty acid	Percentage
C16:1ω7c / C16:1ω6c	28
C16:0	27.8
C18:1ω7c / C18:1ω6c	18.4
C12:0	7.3
C14:0	4.8
C10:0 3OH	3.5
C12:0 3OH	3.4
C17:1ω6c	1.5
C17:0	1.3
C12:0 2OH	1

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

[Ref.: #24361]	Sample type/isolated from	field-grown cucumber plant
[Ref.: #24361]	Geographic location (country and/or sea, region)	Alabama, Auburn
[Ref.: #24361]	Country	USA
[Ref.: #24361]	Country ISO 3 Code	USA
[Ref.: #24361]	Continent	North America

[Ref.: #43616]	Sample type/isolated from	field-grown cucumber plant
[Ref.: #43616]	Geographic location (country and/or sea, region)	Auburn, AL
[Ref.: #43616]	Country	USA
[Ref.: #43616]	Country ISO 3 Code	USA
[Ref.: #43616]	Continent	North America
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KU201962 (>99% sequence identity) for Paenibacillus from Microbeatlas

Aquatic Samples	18
Soil Samples	93
Animal Samples	40
Plant Samples	728
Total Samples	879

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

[Ref.: #24361]

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.: #24361]	Paenibacillus cucumis Kampfer et al. 2016 strain AP-115 16S ribosomal RNA gene, partial sequence	KU201962	1480	ENA	1776858 tax ID

[Ref.: #43616]	GC-content	51.4 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #24361]	GC-content	51.4 mol%	fluorimetric

Availability in culture collections External links

[Ref.: #24361]

Culture collection no.

DSM 101601, CCM 8653, LMG 29222, CCM 8655

[Ref.: #90889]

SI-ID 402596

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus silvae sp. nov., isolated from a tropical rainforest soil.	Huang H, Zhang F, Liu M, Cui Y, Sun Q, Zhu J, Zou X, Bao S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001608	2017	*
Phylogeny	Paenibacillus cucumis sp. nov., isolated from a cucumber plant.	Kampfer P, Busse HJ, Kloepper JW, Hu CH, McInroy JA, Glaeser SP	Int J Syst Evol Microbiol	10.1099/ijsem.0.001087	2016	*

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 )

#24361

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 101601

#41952 ; Curators of the CIP;

#43616

Peter Kämpfer, Hans-Jürgen Busse, Joseph W. Kloepper, Chia-Hui Hu, John A. McInroy, Stefanie P. Glaeser: Paenibacillus cucumis sp. nov., isolated from a cucumber plant. IJSEM 66: 2599 - 2603 2016 ( DOI 10.1099/ijsem.0.001087 , PubMed 27089462 )

#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 .

#90889

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-ID402596.1 )

* These data were automatically processed and therefore are not curated

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