Name: Chryseobacterium rhizoplanae JM-534
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 131333

Type strain:

Species: Chryseobacterium rhizoplanae

Strain Designation: JM-534

Culture col. no.: DSM 29371, CCM 8544, CIP 110828, LMG 28481

Strain history: CIP <- 2014, P. Kämpfer, Giessen Univ., Giessen, Germany: strain JM-534

NCBI tax ID(s): 1609531 (species)

SI-ID 399378

DSM 29371, CIP 110828

Section

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

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Weeksellaceae*
	Genus	*Chryseobacterium*
	Species	**Chryseobacterium rhizoplanae**
	Full Scientific Name (LPSN)	Chryseobacterium rhizoplanae Kämpfer et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #122205]	Gram stain	negative

[Ref.: #122205]	Cell shape	rod-shaped

[Ref.: #122205]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22560]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #22560]

Culture medium growth

[Ref.: #22560]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #22560]

Culture medium

CASO AGAR (MERCK 105458) (DSMZ Medium 220)

[Ref.: #22560]

Culture medium growth

[Ref.: #22560]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22560]

Culture medium composition

expand / minimize

[Ref.: #122205]

Culture medium

CIP Medium 72

[Ref.: #122205]

Culture medium growth

[Ref.: #122205]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #22560]			growth	28 °C

[Ref.: #22560]

Temperature range

mesophilic

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #22560]	Sample type/isolated from	rhizoplane of field-grown sweet corn (Zea mays L.)
[Ref.: #22560]	Host species	Zea mays
[Ref.: #22560]	Geographic location (country and/or sea, region)	Alabama, Tallassee (Tallapoosa county), E.V. Smith Research Station
[Ref.: #22560]	Country	USA
[Ref.: #22560]	Country ISO 3 Code	USA
[Ref.: #22560]	Continent	North America

[Ref.: #122205]	Sample type/isolated from	Environment, Soil, rhizosphere
[Ref.: #122205]	Geographic location (country and/or sea, region)	Alabama
[Ref.: #122205]	Country	United States of America
[Ref.: #122205]	Country ISO 3 Code	USA
[Ref.: #122205]	Continent	North America
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #22560]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #122205]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #22560]	Chryseobacterium rhizoplanae strain JM-534 16S ribosomal RNA gene, partial sequence	KP033261	1429	ENA	1609531 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium rhizoplanae DSM 29371	GCA_900182655	scaffold	GenBank	1609531 tax ID	*
[Ref.: #66792]	Chryseobacterium rhizoplanae strain DSM 29371	1609531.4	wgs	PATRIC	1609531 tax ID	*
[Ref.: #66792]	Chryseobacterium rhizoplanae DSM 29371	2724679795	draft	JGI IMG/M	1609531 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium rhizoplanae DSM 29371 NCBI: GCA_900182655.1
[Ref.: #69480]	motile	no	90.805	no
[Ref.: #69480]	flagellated	no	95.754	no
[Ref.: #69480]	gram-positive	no	97.884	no
[Ref.: #69480]	anaerobic	no	99.678	no
[Ref.: #69480]	aerobic	yes	92.61	no
[Ref.: #69480]	halophile	no	93.88	no
[Ref.: #69480]	spore-forming	no	93.927	no
[Ref.: #69480]	thermophile	no	99.653	yes
[Ref.: #69480]	glucose-util	yes	87.103	no
[Ref.: #69480]	glucose-ferment	no	92.541	no

Availability in culture collections External links

[Ref.: #22560]

Culture collection no.

DSM 29371, CCM 8544, CIP 110828, LMG 28481

[Ref.: #89774]

SI-ID 399378

Literature:

Topic	Title	Authors	Journal	DOI	Year
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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#89774

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-ID399378.1 )

#122205 Collection of Institut Pasteur ; Curators of the CIP; CIP 110828
* These data were automatically processed and therefore are not curated

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Chryseobacterium rhizoplanae DSM 29371

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