Name: Lysobacter yangpyeongensis GH19-3
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17485

Type strain:

Species: Lysobacter yangpyeongensis

Strain Designation: GH19-3

Culture col. no.: DSM 17635, CIP 109293, CCUG 55493, KACC 11407

Strain history: CIP <- 2006, DSMZ <- S.W. Kwon, KACC <- H.Y. Weon, RDA, Suwon, Korea: strain GH19-3

NCBI tax ID(s): 346182 (species)

SI-ID 290983

DSM 17635, KACC 11407, CIP 109293

Special Collections

Section

Lysobacter yangpyeongensis GH19-3 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from greenhouse soil.

Gram-negative
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Lysobacteraceae*
	Genus	*Lysobacter*
	Species	**Lysobacter yangpyeongensis**
	Full Scientific Name (LPSN)	Lysobacter yangpyeongensis Weon et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31709]	Gram stain	negative
[Ref.: #124009]	Gram stain	negative

[Ref.: #31709]	Cell length	03-04 µm

[Ref.: #31709]	Cell width	0.4-0.6 µm

[Ref.: #31709]	Cell shape	rod-shaped
[Ref.: #124009]	Cell shape	rod-shaped

[Ref.: #31709]	Motility	no
[Ref.: #124009]	Motility	yes

[Ref.: #60611]

Incubation period

2 days

[Ref.: #31709]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7099]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #7099]

Culture medium growth

[Ref.: #7099]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7099]

Culture medium composition

expand / minimize

[Ref.: #33288]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #33288]

Culture medium growth

[Ref.: #33288]

Culture medium composition

expand / minimize

[Ref.: #124009]

Culture medium

CIP Medium 566

[Ref.: #124009]

Culture medium growth

[Ref.: #124009]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #7099]	growth	28 °C
[Ref.: #31709]	growth	15-40 °C
[Ref.: #31709]	optimum	30-40 °C
[Ref.: #33288]	growth	30 °C
[Ref.: #60611]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #31709]			optimum	07-08
[Ref.: #31709]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31709]	Oxygen tolerance	aerobe
[Ref.: #60611]	Oxygen tolerance	aerobe

[Ref.: #31709]

Ability of spore formation

[Ref.: #31709]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31709]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #31709]	glycogen ChEBI	+	carbon source
[Ref.: #124009]	nitrate ChEBI	-	reduction
[Ref.: #124009]	nitrite ChEBI	+	reduction

	Metabolite production	Metabolite	Production
[Ref.: #124009]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #124009]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31709]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #124009]	gelatinase	+
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #124009]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #124009]	tween esterase	+
[Ref.: #124009]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #124009]	11773	-	+	+	+	-	+	+	-	+	-	+	+	-	-	-	+	-	+	-	-

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

[Ref.: #7099]	Sample type/isolated from	greenhouse soil
[Ref.: #7099]	Geographic location (country and/or sea, region)	Daejeon
[Ref.: #7099]	Country	Republic of Korea
[Ref.: #7099]	Country ISO 3 Code	KOR
[Ref.: #7099]	Continent	Asia

[Ref.: #60611]	Sample type/isolated from	Greenhouse soil
[Ref.: #60611]	Country	Republic of Korea
[Ref.: #60611]	Country ISO 3 Code	KOR
[Ref.: #60611]	Continent	Asia

[Ref.: #124009]	Sample type/isolated from	Environment, Greenhouse soil cultivated with lettuce
[Ref.: #124009]	Geographic location (country and/or sea, region)	Suwon
[Ref.: #124009]	Country	Republic of Korea
[Ref.: #124009]	Country ISO 3 Code	KOR
[Ref.: #124009]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Greenhouse
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ191179 (>99% sequence identity) for Lysobacter yangpyeongensis from Microbeatlas

Aquatic Samples	77
Soil Samples	1148
Animal Samples	64
Plant Samples	153
Total Samples	1442

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

[Ref.: #7099]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #124009]	Biosafety level	1	Risk group (French classification)

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.: #7099]	Lysobacter yangpyeongensis strain GH19-3 16S ribosomal RNA gene, partial sequence	DQ191179	1463	GenBank ENA	346182 tax ID

[Ref.: #7099]	GC-content	67.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31709]	GC-content	67.3 mol%

Availability in culture collections External links

[Ref.: #7099]

Culture collection no.

DSM 17635, CIP 109293, CCUG 55493, KACC 11407

[Ref.: #86483]

SI-ID 290983

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lysobacter terrestris sp. nov., isolated from soil.	Woo CY, Kim J	Int J Syst Evol Microbiol	10.1099/ijsem.0.005204	2022	*
Phylogeny	Lysobacter humi sp. nov., a bacterium isolated from rice field.	Akter S, Huq MA, Yi TH	Arch Microbiol	10.1007/s00203-016-1262-0	2016	*
Phylogeny	Lysobacter rhizophilus sp. nov., isolated from rhizosphere soil of mugunghwa, the national flower of South Korea.	Yan ZF, Trinh H, Moya G, Lin P, Li CT, Kook MC, Yi TH	Int J Syst Evol Microbiol	10.1099/ijsem.0.001422	2016	*
Phylogeny	Lysobacter terricola sp. nov., isolated from greenhouse soil.	Kim SJ, Ahn JH, Weon HY, Hong SB, Seok SJ, Kim JS, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijsem.0.000893	2016	*
Phylogeny	Lysobacter tyrosinelyticus sp. nov. isolated from Gyeryongsan national park soil.	Du J, Singh H, Ngo HT, Won K, Kim KY, Yi TH	J Microbiol	10.1007/s12275-015-4729-9	2015	*
Phylogeny	Lysobacter fragariae sp. nov. and Lysobacter rhizosphaerae sp. nov. isolated from rhizosphere of strawberry plant.	Singh H, Du J, Ngo HT, Won K, Yang JE, Kim KY, Yi TH	Antonie Van Leeuwenhoek	10.1007/s10482-015-0439-x	2015	*
Phylogeny	Lysobacter terrae sp. nov. isolated from Aglaia odorata rhizosphere soil.	Ngo HTT, Won K, Du J, Son HM, Park Y, Kook M, Kim KY, Jin FX, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.067397-0	2014	*
Phylogeny	Lysobacter oryzae sp. nov., isolated from the rhizosphere of rice (Oryza sativa L.).	Aslam Z, Yasir M, Jeon CO, Chung YR	Int J Syst Evol Microbiol	10.1099/ijs.0.000588-0	2009	*
Phylogeny	Lysobacter niabensis sp. nov. and Lysobacter niastensis sp. nov., isolated from greenhouse soils in Korea.	Weon HY, Kim BY, Kim MK, Yoo SH, Kwon SW, Go SJ, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.64473-0	2007	*
Phylogeny	Two novel species, Lysobacter daejeonensis sp. nov. and Lysobacter yangpyeongensis sp. nov., isolated from Korean greenhouse soils.	Weon HY, Kim BY, Baek YK, Yoo SH, Kwon SW, Stackebrandt E, Go SJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64095-0	2006	*

References

#7099

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17635

#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 )

#31709

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 #27986 (see below)

#33288 ; Curators of the CIP;
#60611 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 55493

#68382

Automatically annotated from API zym .

#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 .

#86483

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-ID290983.1 )

#124009 Collection of Institut Pasteur ; Curators of the CIP; CIP 109293

#27986

IJSEM 947 2006 ( DOI 10.1099/ijs.0.64095-0 , PubMed 16627636 )

* These data were automatically processed and therefore are not curated

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