Name: Gynuella sunshinyii YC6258
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140661

Type strain:

Species: Gynuella sunshinyii

Strain Designation: YC6258

Culture col. no.: NBRC 109345, KCCM 43015

NCBI tax ID(s): 1445505 (species)

Special Collections

Literature strains

Section

Gynuella sunshinyii YC6258 is a facultative anaerobe, moderately halophilic, Gram-negative bacterium that forms circular colonies and was isolated from a halophyte, Carex scabrifolia Steud., growing on the tidal flats at Namhae Island.

colony-forming
Gram-negative
motile
rod-shaped
facultative anaerobe
moderately halophilic
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	*Oceanospirillales*
	Family	*Gynuellaceae*
	Genus	*Gynuella*
	Species	**Gynuella sunshinyii**
	Full Scientific Name (LPSN)	Gynuella sunshinyii Chung et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #43380]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %95.5

[Ref.: #43380]	Cell length	2.8-3.1 µm

[Ref.: #43380]	Cell width	1.5-1.8 µm

[Ref.: #43380]	Cell shape	rod-shaped

[Ref.: #43380]	Motility	yes

[Ref.: #43380]	Flagellum arrangement	polar

[Ref.: #43380]	Colony size	0.5-1 mm
[Ref.: #43380]	Colony color	pale yellow
[Ref.: #43380]	Colony shape	circular
[Ref.: #43380]	Incubation period	3 days
[Ref.: #43380]	Cultivation medium used	MA plates

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43380]

Culture medium

MA plates

[Ref.: #43380]

Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43380]			optimum	25-35 °C
[Ref.: #43380]			growth	10-40 °C

	Kind of pH		pH
[Ref.: #43380]		optimum	6.5-7.5
[Ref.: #43380]	no	growth	10
[Ref.: #43380]		growth	4.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43380]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

[Ref.: #43380]

Halophily / tolerance level

moderately halophilic

	Salt	Tested relation		Salt conc.
[Ref.: #43380]	NaCl	no	growth	12	%(w/v)
[Ref.: #43380]	NaCl		growth	1-7	%(w/v)
[Ref.: #43380]	NaCl		optimum	1-4	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43380]	alpha-D-glucose ChEBI	+	respiration
[Ref.: #43380]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #43380]	casein	+	hydrolysis
[Ref.: #43380]	cellobiose ChEBI	+	respiration
[Ref.: #43380]	cellobiose ChEBI	+	carbon source
[Ref.: #43380]	cellulose ChEBI	+	hydrolysis
[Ref.: #43380]	D-arabinose ChEBI	-	carbon source
[Ref.: #43380]	D-arabitol ChEBI	+	carbon source
[Ref.: #43380]	D-fructose ChEBI	+	respiration
[Ref.: #43380]	D-fructose ChEBI	+	carbon source
[Ref.: #43380]	D-mannitol ChEBI	+	respiration
[Ref.: #43380]	D-mannitol ChEBI	+	carbon source
[Ref.: #43380]	D-mannose ChEBI	+	respiration
[Ref.: #43380]	D-mannose ChEBI	+	carbon source
[Ref.: #43380]	D-xylose ChEBI	+	carbon source
[Ref.: #43380]	esculin ChEBI	+	hydrolysis
[Ref.: #43380]	esculin ChEBI	+	respiration
[Ref.: #43380]	esculin ChEBI	+	carbon source
[Ref.: #43380]	ferric citrate ChEBI	+	respiration
[Ref.: #43380]	ferric citrate ChEBI	+	carbon source
[Ref.: #43380]	gelatin ChEBI	+	hydrolysis
[Ref.: #43380]	hemicellulose ChEBI	+	hydrolysis
[Ref.: #43380]	L-arabinose ChEBI	+	carbon source
[Ref.: #43380]	lactose ChEBI	+	respiration
[Ref.: #43380]	lactose ChEBI	+	carbon source
[Ref.: #43380]	maltose ChEBI	+	respiration
[Ref.: #43380]	maltose ChEBI	+	carbon source
[Ref.: #43380]	melibiose ChEBI	+	respiration
[Ref.: #43380]	melibiose ChEBI	+	carbon source
[Ref.: #43380]	nitrate ChEBI	+	reduction
[Ref.: #43380]	starch ChEBI	-	hydrolysis
[Ref.: #43380]	sucrose ChEBI	+	respiration
[Ref.: #43380]	sucrose ChEBI	+	carbon source
[Ref.: #43380]	tween 20 ChEBI	+	hydrolysis
[Ref.: #43380]	tween 80 ChEBI	+	hydrolysis
[Ref.: #43380]	tyrosine ChEBI	-	hydrolysis
[Ref.: #43380]	urea ChEBI	-	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43380]	ampicillin ChEBI				yes	20	µg (disc)
[Ref.: #43380]	chloramphenicol ChEBI	yes	20	µg (disc)
[Ref.: #43380]	gentamicin ChEBI	yes	10	µg (disc)
[Ref.: #43380]	kanamycin ChEBI	yes	30	µg (disc)
[Ref.: #43380]	penicillin ChEBI	yes	10	µg (disc)
[Ref.: #43380]	rifampicin ChEBI	yes	20	µg (disc)
[Ref.: #43380]	streptomycin ChEBI	yes	20	µg (disc)
[Ref.: #43380]	tetracycline ChEBI	yes	20	µg (disc)
[Ref.: #43380]	vancomycin ChEBI	yes	30	µg (disc)

	Enzyme	Enzyme activity	EC number
[Ref.: #43380]	acid phosphatase	+	3.1.3.2
[Ref.: #43380]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43380]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #43380]	alpha-fucosidase	+	3.2.1.51
[Ref.: #43380]	alpha-galactosidase	+	3.2.1.22
[Ref.: #43380]	alpha-mannosidase	+	3.2.1.24
[Ref.: #43380]	beta-glucosidase	+	3.2.1.21
[Ref.: #43380]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43380]	catalase	+	1.11.1.6
[Ref.: #43380]	cystine arylamidase	-	3.4.11.3
[Ref.: #43380]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43380]	esterase (C 4)	+
[Ref.: #43380]	esterase Lipase (C 8)	-
[Ref.: #43380]	leucine arylamidase	+	3.4.11.1
[Ref.: #43380]	lipase (C 14)	+
[Ref.: #43380]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #43380]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43380]	trypsin	-	3.4.21.4
[Ref.: #43380]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43380]

Fatty acid	Percentage
C18:1ω7c	32.3
C16:0	27.3
C16:1ω7c / C16:1ω6c	16.5
C12:0	10
C10:03-OH	5.5
C18:0	1.4
C16:03-OH	1.3
C12:03-OH	1.2
C17:0	1.1

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

[Ref.: #43380]	Sample type/isolated from	a halophyte, Carex scabrifolia Steud., growing on the tidal flats at Namhae Island
[Ref.: #43380]	Sampling date	2007-07
[Ref.: #43380]	Geographic location (country and/or sea, region)	Namhae Island, Korea
[Ref.: #43380]	Country	Republic of Korea
[Ref.: #43380]	Country ISO 3 Code	KOR
[Ref.: #43380]	Continent	Asia
[Ref.: #43380]	Geographic location	34.0000°/127.0000°
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Tidal flat
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KC213486 (>99% sequence identity) for Gynuella sunshinyii subclade from Microbeatlas

Aquatic Samples	989
Soil Samples	161
Animal Samples	294
Plant Samples	45
Total Samples	1489

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.: #43380]	Gynuella sunshinyii YC6258 16S ribosomal RNA gene, partial sequence	KC213486		GenBank ENA

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Gynuella sunshinyii YC6258	GCA_000940805	complete	GenBank ENA	1445510 tax ID	*
[Ref.: #66792]	Gynuella sunshinyii YC6258	1445510.6	complete	PATRIC	1445510 tax ID	*
[Ref.: #66792]	Gynuella sunshinyii YC6258	2630968578	complete	JGI IMG/M	1445510 tax ID	*

[Ref.: #43380]

GC-content

48.9 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Gynuella sunshinyii YC6258 PATRIC: 1445510.6
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Gynuella sunshinyii YC6258 YC6258 NCBI: GCA_000940805.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	95.5	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.235	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	65.557	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	82.93	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	94.955	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	78.992	no

Availability in culture collections External links

[Ref.: #43380]

Culture collection no.

NBRC 109345, KCCM 43015

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Salinibius halmophilus gen. nov., sp. nov., isolated from a marine solar saltern.	Ling SK, Zhang H, Wang NN, Chen GJ, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003877	2020	*
Phylogeny	Gynuella sunshinyii gen. nov., sp. nov., an antifungal rhizobacterium isolated from a halophyte, Carex scabrifolia Steud.	Chung EJ, Park JA, Jeon CO, Chung YR	Int J Syst Evol Microbiol	10.1099/ijs.0.000060	2015	*

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 )

#43380

Eu Jin Chung, Jeong Ae Park, Che Ok Jeon, Young Ryun Chung: Gynuella sunshinyii gen. nov., sp. nov., an antifungal rhizobacterium isolated from a halophyte, Carex scabrifolia Steud. IJSEM 65: 1038 - 1043 2015 ( DOI 10.1099/ijs.0.000060 , PubMed 25575829 )

#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) .

#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 )

* These data were automatically processed and therefore are not curated

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Gynuella sunshinyii YC6258

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