Name: Luteimonas cucumeris Y4
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 24674

Type strain:

Species: Luteimonas cucumeris

Strain Designation: Y4

Culture col. no.: DSM 28068, CGMCC 1.10821, KCTC 23627

Strain history: <- KCTC <- Z.-B. Sun, School of Life Science, Beijing Institute of Technology; Y4

NCBI tax ID(s): 985012 (species)

SI-ID 399996

DSM 28068

Section

Luteimonas cucumeris Y4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from cucumber leaf, surface sterilized and crushed.

Gram-negative
rod-shaped
aerobe
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Lysobacterales*
	Family	*Lysobacteraceae*
	Genus	*Luteimonas*
	Species	**Luteimonas cucumeris**
	Full Scientific Name (LPSN)	Luteimonas cucumeris Sun et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30503]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.994

[Ref.: #30503]	Cell length	2.5 µm

[Ref.: #30503]	Cell width	0.55 µm

[Ref.: #30503]	Cell shape	rod-shaped

[Ref.: #30503]	Motility	no

[Ref.: #30503]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #20635]

Culture medium

TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)

[Ref.: #20635]

Culture medium growth

[Ref.: #20635]

Culture medium link

Medium recipe at MediaDive

[Ref.: #20635]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #20635]	growth	28 °C
[Ref.: #30503]	growth	20-40 °C
[Ref.: #30503]	optimum	30 °C

[Ref.: #20635]	Temperature range	mesophilic
[Ref.: #30503]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30503]			optimum	7
[Ref.: #30503]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30503]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.946

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30503]		NaCl		growth	0-3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30503]	alanine ChEBI	+	carbon source
[Ref.: #30503]	asparagine ChEBI	+	carbon source
[Ref.: #30503]	aspartate ChEBI	+	carbon source
[Ref.: #30503]	dextrin ChEBI	+	carbon source
[Ref.: #30503]	esculin ChEBI	+	hydrolysis
[Ref.: #30503]	fructose ChEBI	+	carbon source
[Ref.: #30503]	glucose ChEBI	+	carbon source
[Ref.: #30503]	glycerol ChEBI	+	carbon source
[Ref.: #30503]	glycogen ChEBI	+	carbon source
[Ref.: #30503]	histidine ChEBI	+	carbon source
[Ref.: #30503]	L-alaninamide ChEBI	+	carbon source
[Ref.: #30503]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #30503]	nitrate ChEBI	+	reduction
[Ref.: #30503]	proline ChEBI	+	carbon source
[Ref.: #30503]	putrescine ChEBI	+	carbon source
[Ref.: #30503]	succinate ChEBI	+	carbon source
[Ref.: #30503]	threonine ChEBI	+	carbon source
[Ref.: #30503]	tween 40 ChEBI	+	carbon source
[Ref.: #30503]	urocanic acid ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #30503]	acid phosphatase	+	3.1.3.2
[Ref.: #30503]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30503]	alpha-galactosidase	+	3.2.1.22
[Ref.: #30503]	catalase	+	1.11.1.6
[Ref.: #30503]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30503]	gelatinase	+

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

[Ref.: #20635]	Sample type/isolated from	cucumber leaf, surface sterilized and crushed
[Ref.: #20635]	Geographic location (country and/or sea, region)	Pinggu District
[Ref.: #20635]	Country	China
[Ref.: #20635]	Country ISO 3 Code	CHN
[Ref.: #20635]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)
#Host Body-Site	#Plant	#Sterilized plant part

What are isolation sources categories?

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

[Ref.: #20635]

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.: #20635]	Luteimonas cucumeris strain Y4 16S ribosomal RNA gene, partial sequence	HQ874629	1454	ENA	985012 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Luteimonas cucumeris CGMCC 1.10821	GCA_007830035	scaffold	GenBank	985012 tax ID	*
[Ref.: #66792]	Luteimonas cucumeris strain CGMCC 1.10821	985012.3	wgs	PATRIC	985012 tax ID	*
[Ref.: #66792]	Luteimonas cucumeris CGMCC 1.10821	2596583559	draft	JGI IMG/M	985012 tax ID	*

[Ref.: #30503]

GC-content

69.9 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: Luteimonas cucumeris CGMCC 1.10821 NCBI: GCA_007830035.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Luteimonas cucumeris CGMCC 1.10821 NCBI: GCA_007830035.1
[Ref.: #69480]	motile	yes	75.059	yes
[Ref.: #69480]	flagellated	no	89.405	yes
[Ref.: #69480]	gram-positive	no	98.28	no
[Ref.: #69480]	anaerobic	no	98.399	yes
[Ref.: #69480]	aerobic	yes	90.829	yes
[Ref.: #69480]	halophile	no	95.143	no
[Ref.: #69480]	spore-forming	no	96.625	no
[Ref.: #69480]	glucose-util	yes	86.045	yes
[Ref.: #69480]	thermophile	no	98.029	yes
[Ref.: #69480]	glucose-ferment	no	89.505	no

Availability in culture collections External links

[Ref.: #20635]

Culture collection no.

DSM 28068, CGMCC 1.10821, KCTC 23627

[Ref.: #88512]

SI-ID 399996

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Luteimonas vadosa sp. nov., isolated from seashore sediment.	Romanenko LA, Tanaka N, Svetashev VI, Kurilenko VV, Mikhailov VV	Int J Syst Evol Microbiol	10.1099/ijs.0.043273-0	2012	*
Phylogeny	Luteimonas cucumeris sp. nov., isolated a from cucumber leaf.	Sun ZB, Zhang H, Yuan XF, Wang YX, Feng DM, Wang YH, Feng YJ	Int J Syst Evol Microbiol	10.1099/ijs.0.037549-0	2012	*

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 )

#20635

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28068

#30503

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 #26836 (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) .

#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 )

#88512

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-ID399996.1 )

#26836

IJSEM 2916 2012 ( DOI 10.1099/ijs.0.037549-0 , PubMed 22268071 )

* These data were automatically processed and therefore are not curated

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Luteimonas cucumeris CGMCC 1.10821

Luteimonas cucumeris CGMCC 1.10821

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