Cite this strain

Flavobacterium ginsengisoli (KCTC 23318, JCM 17336, DCY 54)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134059

Type strain

Culture col. no. KCTC 23318 JCM 17336 DCY 54 CIP 110819 BCRC 81040

NCBI tax ID(s) 871694

Special Collections JCM KCTC CIP Literature strains

Links

Name and taxonomic classification

Flavobacterium ginsengisoli KCTC 23318 is an aerobe, Gram-negative, motile bacterium that was isolated from Soil of a field cultivated with ginseng.

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence Bacteria

SI-ID 413994

CIP 110819

Last LPSN update 2024-12-09 10:49:20

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium ginsengisoli

Full scientific name Flavobacterium ginsengisoli Kim et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement
31154	negative	3.85 µm	0.75 µm	rod-shaped	gliding
67771				rod-shaped	gliding
67771	negative
125438
125438	negative
119626	negative			rod-shaped

Pigmentation

31154

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Composition
41606	MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati		Distilled water make up to (1000.000 ml);R2A agar (18.200 g)
119626	CIP Medium 566

Culture temp

@ref	Growth	Type	Temperature (°C)
31154	positive	growth	04-35
31154	positive	optimum	27.5
41606	positive	growth	30
67770	positive	growth	30
67771	positive	growth	28

Culture pH

@ref	Ability	Type	PH
31154	positive	optimum	6
31154	positive	growth	05-09

Physiology and metabolism

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31154	NaCl	positive	growth	0-2 %
31154	NaCl	positive	optimum	0.5 %

Observation

@ref	Observation
31154	aggregates in clumps
67771	quinones: MK-6

Spore formation

31154

Spore formationno

Enzymes

@ref	Value	Activity	Ec
31154	acid phosphatase	+	3.1.3.2
31154	alkaline phosphatase	+	3.1.3.1
31154	alpha-galactosidase	+	3.2.1.22
31154	catalase	+	1.11.1.6
31154	cytochrome oxidase	+	1.9.3.1
31154	gelatinase	+

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31154	22599 ChEBI	arabinose	+	carbon source
31154	4853 ChEBI	esculin	+	hydrolysis
31154	17234 ChEBI	glucose	+	carbon source
31154	17306 ChEBI	maltose	+	carbon source
31154	37684 ChEBI	mannose	+	carbon source
31154	506227 ChEBI	N-acetylglucosamine	+	carbon source
31154	17632 ChEBI	nitrate	+	reduction

Oxygen tolerance

@ref	Oxygen tolerance
31154	aerobe
67771	aerobe

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Soil of a field cultivated with ginseng	Yongin Province	Republic of Korea	KOR	Asia
67771	From soil of a field cultivated with ginseng	Yongin province	Republic of Korea	KOR	Asia
119626	Environment, Soil of a field cultivated with ginseng	Yongin Province	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence HM776705 (>99% sequence identity) for Flavobacterium from Microbeatlas

Aquatic Samples	12
Soil Samples	15
Animal Samples	2
Plant Samples	1
Total Samples	30

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
119626	1	Risk group (French classification)

Sequence information

GC content

31154

GC-content (mol%)33.3

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31154	Flavobacterium ginsengisoli strain DCY54 16S ribosomal RNA gene, partial sequence	HM776705	1408		871694

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Flavobacterium ginsengisoli KCTC 23318	GCA_029625315	complete		871694

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Flavobacterium ginsengisoli KCTC 23318
NCBI: GCA_029625315.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	93.29	yes
125438	anaerobic	anaerobicⓘ	no	89.81	yes
125438	aerobic	aerobicⓘ	yes	78.60	yes
125438	spore-forming	spore-formingⓘ	no	88.47	no
125438	thermophilic	thermophileⓘ	no	92.54	yes
125438	flagellated	motile2+ⓘ	no	91.10	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium fluviatile sp. nov., isolated from a freshwater creek.	Chen WM, Su CL, Young CC, Sheu SY	Int J Syst Evol Microbiol	10.1099/ijsem.0.002659	2018
Phylogeny	Flavobacterium daemonensis sp. nov., isolated from Daemo Mountain soil.	Ngo HTT, Kook M, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.000051	2015
Phylogeny	Flavobacterium ginsengisoli sp. nov., isolated from soil of a ginseng field.	Kim YJ, Kim SR, Nguyen NL, Yang DC	Int J Syst Evol Microbiol	10.1099/ijs.0.053819-0	2013

Straininfo Link

@ref	Straininfo	Culture collections
91686	413994	CIP 110819

Culture collection no.

Culture collection no.
KCTC 23318
JCM 17336
DCY 54
CIP 110819
BCRC 81040

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 )
#31154	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 #27482 (see below)
#41606	; Curators of the CIP;
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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 .
#91686	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-ID413994.1 )
#119626	Collection of Institut Pasteur ; Curators of the CIP; CIP 110819
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

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Flavobacterium ginsengisoli (KCTC 23318, JCM 17336, DCY 54)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Halophily

Observation

Spore formation

Enzymes

Metabolite utilization

Oxygen tolerance

Isolation, sampling and environmental information

Isolation

Taxonmaps

Safety information

Risk assessment

Sequence information

GC content

16S sequences

Genome sequences

Genome-based predictions

Predictions

External links

Literature

Straininfo Link

Culture collection no.

References

BacDive

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