Rhodoferax sediminis (KCTC 62554, JCM 32677)

Name: Rhodoferax sediminis (KCTC 62554, JCM 32677)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 164324

Type strain

Culture col. no. KCTC 62554 JCM 32677

NCBI tax ID(s) 2509614

Special Collections JCM KCTC

History JCM <-- S.-R. Ko; KRIBB, South Korea; CHu59-6-5.

Links

Rhodoferax sediminis JCM 32677 is a bacterium that was isolated from Sediment core collected at a water depth of 17 m from Dachung reservoir.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 27370

KCTC 62554,JCM 32677

@ref 20215

Last LPSN update 2026-05-29 08:45:23

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Comamonadaceae

Genus Rhodoferax

Species Rhodoferax sediminis

Full scientific name Rhodoferax sediminis Jin et al. 2020

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.923

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	99.168

Spore formation

@ref	Spore formation	Confidence
125439		99.591

Observation

67770

Observationquinones: Q-8

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Sediment core collected at a water depth of 17 m from Dachung reservoir	Daejeon	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence MF770245 (>99% sequence identity) for Rhodoferax sediminis from Microbeatlas

Aquatic Samples	1119
Soil Samples	320
Animal Samples	44
Plant Samples	73
Total Samples	1556

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM697086v1 assembly for Rhodoferax sediminis CHu59-6-5	complete	GCA_006970865	2509614.3	2884449551	2509614	98.48

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Rhodoferax sediminis 16S ribosomal RNA gene, partial sequence	MF770245	1478		2509614

GC content

@ref	GC-content (mol%)	Method
67770	64.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM697086v1 assembly for Rhodoferax sediminis CHu59-6-5
NCBI: GCA_006970865

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	gram_stain	BacteriaNetⓘ	negative	98.92	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.17	no
125439	motility	BacteriaNetⓘ	yes	63.26	no
125439	spore_formation	BacteriaNetⓘ	no	99.59	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	A small step to discover candidate biological control agents from preexisting bioresources by using novel nonribosomal peptide synthetases hidden in activated sludge metagenomes.	Tomita S, Kuroda K, Narihiro T.	PLoS One	10.1371/journal.pone.0294843	2023

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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#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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Rhodoferax sediminis (KCTC 62554, JCM 32677)

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

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_006970865

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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