Rhodanobacter panaciterrae (DSM 21014, KACC 12826, KCTC 22232)

Name: Rhodanobacter panaciterrae (DSM 21014, KACC 12826, KCTC 22232)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17524

Type strain

Strain Designation LnR5-47

Culture col. no. DSM 21014 KACC 12826 KCTC 22232 LMG 24460 LnR5-47

NCBI tax ID(s) 490572

Special Collections DSMZ KCTC

Links

Rhodanobacter panaciterrae LnR5-47 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from soil of a ginseng field.

Gram-negative aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 323915

LMG 24460,KACC 12826,KCTC 22232,DSM 21014

@ref 20215

Last LPSN update 2025-12-16 09:51:07

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Rhodanobacteraceae

Genus Rhodanobacter

Species Rhodanobacter panaciterrae

Full scientific name Rhodanobacter panaciterrae Wang et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
67771	negative
125439	negative	99.8
125439		91.5
125438	negative	98

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15426	REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)		Medium recipe at MediaDive	Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
15426	positive	growth	28	mesophilic
67771	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125439	aerobe	97.5

Spore formation

@ref	Spore formation	Confidence
125439		99.4

Observation

67771

Observationquinones: Q-8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Field
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Herbaceous plants (Grass,Crops)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
15426	soil of a ginseng field	Liaoning province	China	CHN	Asia
67771	From soil of ginseng field	Liaoning province	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence EU332829 (>99% sequence identity) for Rhodanobacter from Microbeatlas

Aquatic Samples	46
Soil Samples	355
Animal Samples	28
Plant Samples	40
Total Samples	469

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15426	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1465189v1 assembly for Rhodanobacter panaciterrae KCTC 22232	contig	GCA_014651895	490572.3	2995687576	490572	68.78

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
15426	Rhodanobacter panaciterrae strain LnR5-47 16S ribosomal RNA gene, partial sequence	EU332829	1464	490572
124043	Rhodanobacter panaciterrae strain KCTC 22232 16S ribosomal RNA gene, partial sequence.	MT759907	1370	490572
124043	Rhodanobacter panaciterrae strain KCTC 22232 16S ribosomal RNA gene, partial sequence.	MT758081	1370	490572

GC content

@ref	GC-content (mol%)	Method
15426	63.2	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: Rhodanobacter panaciterrae KCTC 22232
NCBI: GCA_014651895

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.40	no
125439	motility	BacteriaNetⓘ	yes	91.50	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	97.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodanobacter panaciterrae strain KCTC 22232
PATRIC: 490572.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	no
125438	anaerobic	anaerobicⓘ	no	97.18	yes
125438	spore-forming	spore-formingⓘ	no	87.48	no
125438	aerobic	aerobicⓘ	yes	87.08	yes
125438	thermophilic	thermophileⓘ	no	98.33	no
125438	flagellated	motile2+ⓘ	no	58.18	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhodanobacter koreensis sp. nov., a bacterium isolated from tomato rhizosphere.	Won K, Singh H, Ngo HTT, Son H, Kook M, Kim KY, Yi TH	Int J Syst Evol Microbiol	10.1099/ijs.0.000077	2015
Phylogeny	Rhodanobacter glycinis sp. nov., a yellow-pigmented gammaproteobacterium isolated from the rhizoplane of field-grown soybean.	Madhaiyan M, Poonguzhali S, Saravanan VS, Kwon SW	Int J Syst Evol Microbiol	10.1099/ijs.0.055525-0	2014
Phylogeny	Rhodanobacter panaciterrae sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a ginseng field.	Wang L, An DS, Kim SG, Jin FX, Lee ST, Im WT	Int J Syst Evol Microbiol	10.1099/ijs.0.025718-0	2011

References

#15426	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21014
#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) .
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

Rate our new design

Content

About us

Rhodanobacter panaciterrae (DSM 21014, KACC 12826, KCTC 22232)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014651895

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media