Name: Paenibacillus elymi KUDC 6143
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158407

Type strain:

Species: Paenibacillus elymi

Strain Designation: KUDC 6143, 17A

Culture col. no.: DSM 106581, KCTC 33853

Strain history: <- Gim Sa-Youl, Kyungpook national Univ.

NCBI tax ID(s): 2259011 (species)

SI-ID 399079

DSM 106581

Section

Paenibacillus elymi KUDC 6143 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms circular colonies and was isolated from Rhizosphere soil of Elymus tsukushiensis.

colony-forming
Gram-positive
motile
rod-shaped
spore-forming
facultative anaerobe
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 elymi**
	Full Scientific Name (LPSN)	Paenibacillus elymi Hwang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #66629]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #66629]	Cell length	2.0-2.7 µm

[Ref.: #66629]	Cell width	0.5-0.6 µm

[Ref.: #66629]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #66629]	Motility	yes
[Ref.: #67771]	Motility	yes

[Ref.: #66629]	Colony size	2-3 mm
[Ref.: #66629]	Colony color	creamy white
[Ref.: #66629]	Colony shape	circular
[Ref.: #66629]	Incubation period	2 days
[Ref.: #66629]	Cultivation medium used	Trypticase Soy Agar (TSA)

Information on culture and growth conditions Culture and growth conditions

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Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

[Ref.: #65083]

Culture medium composition

expand / minimize

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

tryptic soy agar (TSA)

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Culture medium growth

		Temperature
[Ref.: #65083]	growth	30 °C
[Ref.: #66629]	optimum	30 °C
[Ref.: #66629]	growth	25-45 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #65083]	Temperature range	mesophilic
[Ref.: #66629]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #66629]			optimum	7
[Ref.: #66629]			growth	6-7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #66629]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	facultative anaerobe

[Ref.: #66629]	Spore description	endospore
[Ref.: #66629]	Ability of spore formation	yes
[Ref.: #67771]	Type of spore	endospore
[Ref.: #67771]	Ability of spore formation	yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #66629]		NaCl		growth	0-4	%(w/v)
[Ref.: #66629]		NaCl		optimum	0.5	%(w/v)

[Ref.: #67771]

Observation

quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66629]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #66629]	4-nitrophenyl beta-D-galactopyranoside ChEBI	-	hydrolysis
[Ref.: #66629]	5-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #66629]	adipate ChEBI	-	carbon source
[Ref.: #66629]	amygdalin ChEBI	+	builds acid from
[Ref.: #66629]	arabinose ChEBI	+	carbon source
[Ref.: #66629]	arbutin ChEBI	+	builds acid from
[Ref.: #66629]	casein	-	hydrolysis
[Ref.: #66629]	cellobiose ChEBI	+	builds acid from
[Ref.: #66629]	D-arabinose ChEBI	-	builds acid from
[Ref.: #66629]	D-arabitol ChEBI	-	builds acid from
[Ref.: #66629]	D-fucose ChEBI	-	builds acid from
[Ref.: #66629]	D-lyxose ChEBI	-	builds acid from
[Ref.: #66629]	D-tagatose ChEBI	-	builds acid from
[Ref.: #66629]	D-xylose ChEBI	+	builds acid from
[Ref.: #66629]	decanoate ChEBI	-	carbon source
[Ref.: #66629]	dna ChEBI	-	hydrolysis
[Ref.: #66629]	erythritol ChEBI	-	builds acid from
[Ref.: #66629]	esculin ChEBI	+	builds acid from
[Ref.: #66629]	esculin ChEBI	+	hydrolysis
[Ref.: #66629]	fructose ChEBI	+	builds acid from
[Ref.: #66629]	galactitol ChEBI	-	builds acid from
[Ref.: #66629]	galactose ChEBI	+	builds acid from
[Ref.: #66629]	gelatin ChEBI	+	hydrolysis
[Ref.: #66629]	gentiobiose ChEBI	+	builds acid from
[Ref.: #66629]	gluconate ChEBI	-	builds acid from
[Ref.: #66629]	glucose ChEBI	+	builds acid from
[Ref.: #66629]	glucose ChEBI	+	carbon source
[Ref.: #66629]	glycerol ChEBI	-	builds acid from
[Ref.: #66629]	glycogen ChEBI	+	builds acid from
[Ref.: #66629]	hypoxanthine ChEBI	-	hydrolysis
[Ref.: #66629]	inulin ChEBI	+	builds acid from
[Ref.: #66629]	L-arabinose ChEBI	+	builds acid from
[Ref.: #66629]	L-arabitol ChEBI	-	builds acid from
[Ref.: #66629]	L-fucose ChEBI	-	builds acid from
[Ref.: #66629]	L-tyrosine ChEBI	-	hydrolysis
[Ref.: #66629]	L-xylose ChEBI	-	builds acid from
[Ref.: #66629]	lactose ChEBI	+	builds acid from
[Ref.: #66629]	malate ChEBI	-	carbon source
[Ref.: #66629]	maltose ChEBI	+	builds acid from
[Ref.: #66629]	maltose ChEBI	+	carbon source
[Ref.: #66629]	mannitol ChEBI	+	builds acid from
[Ref.: #66629]	mannitol ChEBI	+	carbon source
[Ref.: #66629]	mannose ChEBI	+	builds acid from
[Ref.: #66629]	mannose ChEBI	+	carbon source
[Ref.: #66629]	melezitose ChEBI	+	builds acid from
[Ref.: #66629]	melibiose ChEBI	+	builds acid from
[Ref.: #66629]	methyl alpha-D-glucopyranoside ChEBI	+	builds acid from
[Ref.: #66629]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #66629]	methyl beta-D-xylopyranoside ChEBI	+	builds acid from
[Ref.: #66629]	myo-inositol ChEBI	-	builds acid from
[Ref.: #66629]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #66629]	N-acetylglucosamine ChEBI	-	carbon source
[Ref.: #66629]	nitrate ChEBI	-	reduction
[Ref.: #66629]	phenylacetate ChEBI	-	carbon source
[Ref.: #66629]	potassium gluconate ChEBI	-	carbon source
[Ref.: #66629]	raffinose ChEBI	+	builds acid from
[Ref.: #66629]	rhamnose ChEBI	+	builds acid from
[Ref.: #66629]	ribitol ChEBI	-	builds acid from
[Ref.: #66629]	ribose ChEBI	+	builds acid from
[Ref.: #66629]	salicin ChEBI	+	builds acid from
[Ref.: #66629]	sodium citrate ChEBI	-	carbon source
[Ref.: #66629]	sorbitol ChEBI	-	builds acid from
[Ref.: #66629]	sorbose ChEBI	-	builds acid from
[Ref.: #66629]	starch ChEBI	+	builds acid from
[Ref.: #66629]	starch ChEBI	+	hydrolysis
[Ref.: #66629]	sucrose ChEBI	+	builds acid from
[Ref.: #66629]	trehalose ChEBI	+	builds acid from
[Ref.: #66629]	turanose ChEBI	+	builds acid from
[Ref.: #66629]	tween 20 ChEBI	-	hydrolysis
[Ref.: #66629]	tween 40 ChEBI	+	hydrolysis
[Ref.: #66629]	tween 60 ChEBI	+	hydrolysis
[Ref.: #66629]	tween 80 ChEBI	-	hydrolysis
[Ref.: #66629]	xanthine ChEBI	-	hydrolysis
[Ref.: #66629]	xylitol ChEBI	-	builds acid from
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #66629]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #66629]	acid phosphatase	-	3.1.3.2
[Ref.: #66629]	alkaline phosphatase	-	3.1.3.1
[Ref.: #66629]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #66629]	alpha-fucosidase	-	3.2.1.51
[Ref.: #66629]	alpha-galactosidase	-	3.2.1.22
[Ref.: #66629]	alpha-glucuronidase	-	3.2.1.139
[Ref.: #66629]	alpha-mannosidase	-	3.2.1.24
[Ref.: #66629]	arginine dihydrolase	-	3.5.3.6
[Ref.: #66629]	beta-galactosidase	-	3.2.1.23
[Ref.: #66629]	beta-glucosidase	-	3.2.1.21
[Ref.: #66629]	beta-glucuronidase	-	3.2.1.31
[Ref.: #66629]	catalase	-	1.11.1.6
[Ref.: #66629]	cystine arylamidase	+	3.4.11.3
[Ref.: #66629]	cytochrome oxidase	+	1.9.3.1
[Ref.: #66629]	esterase	+
[Ref.: #66629]	esterase Lipase (C 8)	+
[Ref.: #66629]	leucine arylamidase	+	3.4.11.1
[Ref.: #66629]	lipase	-
[Ref.: #66629]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #66629]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #66629]	trypsin	-	3.4.21.4
[Ref.: #66629]	urease	-	3.5.1.5
[Ref.: #66629]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #66629]

Fatty acid	Percentage
C15:0 anteiso	42
C16:0	15.6
C16:0 iso	12
C15:0 iso	7.3
C17:0 anteiso	3.8
C14:0 iso	2.8
C14:0	2.6
C11:0 anteiso	2.4
C17:0 iso	2
C16:1 w11c	1.8
C13:0 anteiso	1.8
C12:0 iso	1.4

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

[Ref.: #65083]	Sample type/isolated from	Rhizosphere soil of Elymus tsukushiensis
[Ref.: #65083]	Geographic location (country and/or sea, region)	Dokdo Island
[Ref.: #65083]	Country	Republic of Korea
[Ref.: #65083]	Country ISO 3 Code	KOR
[Ref.: #65083]	Continent	Asia

[Ref.: #66629]	Sample type/isolated from	rhizosphere soil of Elymus tsukushiensis
[Ref.: #66629]	Sampling date	2015-09
[Ref.: #66629]	Geographic location (country and/or sea, region)	Dong-do, Ulleung-gun, Gyeongsangbuk-Do, Dokdo Islands, East Sea
[Ref.: #66629]	Country	Republic of Korea
[Ref.: #66629]	Country ISO 3 Code	KOR
[Ref.: #66629]	Continent	Asia
[Ref.: #66629]	Geographic location	37.2401°/131.8700°
[Ref.: #66629]	Enrichment culture	TSA
[Ref.: #66629]	Enrichment culture duration	7 days
[Ref.: #66629]	Enrichment culture temperature	25 ̊C
[Ref.: #66629]	Isolation/enrichment procedure	samples were suspended in saline solution containing 0.85 % NaCl and serial dilutions were spread on TSA

[Ref.: #67771]	Sample type/isolated from	From rhizospheric soil of `Elymus tsukushiensis`
[Ref.: #67771]	Geographic location (country and/or sea, region)	Dokdo Island
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
[Ref.: #67771]	Geographic location	37.2401°/131.8700°
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizosphere
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

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.: #65083]	Paenibacillus sp. strain KUDC6143 16S ribosomal RNA gene, partial sequence	KX858537	1481	ENA	2259011 tax ID

[Ref.: #65083]	GC-content	50.3 mol%
[Ref.: #66629]	GC-content	50.30 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #65083]

Culture collection no.

DSM 106581, KCTC 33853

[Ref.: #111210]

SI-ID 399079

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paenibacillus elymi sp. nov., isolated from the rhizosphere of Elymus tsukushiensis, a plant native to the Dokdo Islands, Republic of Korea.	Hwang YJ, Son JS, Ghim SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002892	2018	*

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 )

#65083

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 106581

#66629

Ye-Ji Hwang, Jin-Soo Son and Sa-Youl Ghim: Paenibacillus elymi sp. nov., isolated from the rhizosphere of Elymus tsukushiensis, a plant native to the Dokdo Islands, Republic of Korea. IJSEM 68: 2615 - 2621 2018 ( DOI 10.1099/ijsem.0.002892 , PubMed 29957168 )

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

#111210

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-ID399079.1 )

* These data were automatically processed and therefore are not curated

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