Chryseobacterium rhizoplanae (DSM 29371, CCM 8544, CIP 110828)

Name: Chryseobacterium rhizoplanae (DSM 29371, CCM 8544, CIP 110828)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131333

Type strain

Strain Designation JM-534

Culture col. no. DSM 29371 CCM 8544 CIP 110828 LMG 28481 JM-534

NCBI tax ID(s) 1609531

Special Collections DSMZ CIP

Links

Chryseobacterium rhizoplanae JM-534 is a mesophilic, Gram-negative, rod-shaped prokaryote that was isolated from rhizoplane of field-grown sweet corn .

Gram-negative rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 399378

LMG 28481,DSM 29371,CIP 110828

@ref 20215

Last LPSN update 2025-12-16 10:01:13

Domain Pseudomonadati

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Weeksellaceae

Genus Chryseobacterium

Species Chryseobacterium rhizoplanae

Full scientific name Chryseobacterium rhizoplanae Kämpfer et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125438	negative		98
125439	negative		99.8
122205	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
22560	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
22560	CASO AGAR (MERCK 105458) (DSMZ Medium 220)	Medium recipe at MediaDive	Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
122205	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22560	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	96.2

Spore formation

@ref	Spore formation	Confidence
125439		98.3

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Rhizoplane

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
22560	rhizoplane of field-grown sweet corn (Zea mays L.)	Zea mays	Alabama, Tallassee (Tallapoosa county), E.V. Smith Research Station	USA	USA	North America
122205	Environment, Soil, rhizosphere		Alabama	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence KP033261 (>99% sequence identity) for Chryseobacterium from Microbeatlas

Aquatic Samples	29
Soil Samples	25
Animal Samples	69
Plant Samples	16
Total Samples	139

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22560	1	Risk group (German classification)
122205	1	Risk group (French classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2724679795 annotated assembly for Chryseobacterium rhizoplanae DSM 29371	scaffold	GCA_900182655	1609531.4	2724679795	1609531	74.49

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22560	Chryseobacterium rhizoplanae strain JM-534 16S ribosomal RNA gene, partial sequence	KP033261	1429		1609531
124043	Chryseobacterium rhizoplanae strain CCM 8544 16S ribosomal RNA gene, partial sequence.	MT760217	1360		1609531

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Chryseobacterium rhizoplanae DSM 29371
NCBI: GCA_900182655

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.30	no
125439	motility	BacteriaNetⓘ	no	78.50	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Chryseobacterium rhizoplanae DSM 29371
NCBI: GCA_900182655.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	no
125438	anaerobic	anaerobicⓘ	no	97.87	no
125438	aerobic	aerobicⓘ	yes	86.40	no
125438	spore-forming	spore-formingⓘ	no	87.02	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	no	89.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Bacteriobiota of the Cave Church of Sts. Peter and Paul in Serbia-Culturable and Non-Culturable Communities' Assessment in the Bioconservation Potential of a Peculiar Fresco Painting.	Dimkic I, Copic M, Petrovic M, Stupar M, Savkovic Z, Knezevic A, Subakov Simic G, Ljaljevic Grbic M, Unkovic N.	Int J Mol Sci	10.3390/ijms24021016	2023
Phylogeny	Chryseobacterium panacisoli sp. nov., isolated from ginseng-cultivation soil with ginsenoside-converting activity.	Keum DH, Yeon JM, Yun CS, Lee SY, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.005086	2021
Phylogeny	Chryseobacterium rhizoplanae sp. nov., isolated from the rhizoplane environment.	Kampfer P, McInroy JA, Glaeser SP	Antonie Van Leeuwenhoek	10.1007/s10482-014-0349-3	2014

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 )
#22560	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29371
#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 .
#122205	Collection of Institut Pasteur ; Curators of the CIP; CIP 110828
#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 )

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Chryseobacterium rhizoplanae (DSM 29371, CCM 8544, CIP 110828)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900182655

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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