Shinella daejeonensis (KCTC 22450, JCM 16236)

Name: Shinella daejeonensis (KCTC 22450, JCM 16236)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161742

Type strain

Culture col. no. KCTC 22450 JCM 16236

NCBI tax ID(s) 659017

Special Collections JCM KCTC

History M. J. Lee MJ02.

Links

Shinella daejeonensis JCM 16236 is a bacterium that was isolated from Sludge of a leachate treatment plant.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 24714

KCTC 22450,JCM 16236

@ref 20215

Last LPSN update 2026-02-09 11:39:14

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Shinella

Species Shinella daejeonensis

Full scientific name Shinella daejeonensis Lee et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.3
125438	negative	98.333

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	94.9

Spore formation

@ref	Spore formation	Confidence
125439		98.9
125438		91.092

Observation

67770

Observationquinones: Q-10

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Sludge of a leachate treatment plant	Daejeon	Republic of Korea	KOR	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2428123v1 assembly for Shinella daejeonensis JCM 16236	contig	GCA_024281235	659017.4	8054408717	659017	66.69

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Shinella daejeonensis strain MJ02 16S ribosomal RNA gene, partial sequence	GQ241319	1400		659017

GC content

@ref	GC-content (mol%)	Method
67770	64.3	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Shinella daejeonensis JCM 16236
NCBI: GCA_024281235

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.90	no
125439	motility	BacteriaNetⓘ	yes	62.10	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Shinella daejeonensis JCM 16236
NCBI: GCA_024281235.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	no
125438	anaerobic	anaerobicⓘ	no	96.73	no
125438	aerobic	aerobicⓘ	yes	81.39	no
125438	spore-forming	spore-formingⓘ	no	91.09	no
125438	thermophilic	thermophileⓘ	no	98.88	no
125438	flagellated	motile2+ⓘ	yes	64.44	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shinella daejeonensis sp. nov., a nitrate-reducing bacterium isolated from sludge of a leachate treatment plant.	Lee M, Woo SG, Ten LN	Int J Syst Evol Microbiol	10.1099/ijs.0.026435-0	2010

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 )
#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;
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Shinella daejeonensis (KCTC 22450, JCM 16236)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_024281235

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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