Caballeronia grimmiae (DSM 25160, CGMCC 1.11013, LMG 27580)

Name: Caballeronia grimmiae (DSM 25160, CGMCC 1.11013, LMG 27580)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 22942

Type strain

Strain Designation R27

Culture col. no. DSM 25160 CGMCC 1.11013 LMG 27580 R27

NCBI tax ID(s) 1071679

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Caballeronia grimmiae R27 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from moss Grimmia montana.

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

Name and taxonomic classification

SI-ID 388165

LMG 27580,CGMCC 1.11013,DSM 25160

@ref 20215

Last LPSN update 2025-12-16 09:52:32

Domain Pseudomonadati

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Caballeronia

Species Caballeronia grimmiae

Full scientific name Caballeronia grimmiae (Tian et al. 2013) Dobritsa and Samadpour 2016

Synonyms (2)

Paraburkholderia grimmiae
Burkholderia grimmiae

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
30831	negative	1.75 µm	0.5 µm	rod-shaped
125438	negative					98.5

Colony morphology

@ref	Type of hemolysis	Incubation period
19336	gamma	1-2 days

Pigmentation

30831

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
19336	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 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
19336	positive	growth	30	mesophilic
30831	positive	growth	10-40
30831	positive	optimum	29	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
30831	positive	optimum	7.25
30831	positive	growth	4.0-10.0	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30831	aerobe
125438	aerobe	94.056
125439	obligate aerobe	99.7

Spore formation

@ref	Spore formation	Confidence
30831
125438		90.475

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30831	NaCl	positive	growth	0-1 %

Observation

30831

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30831	30089 ChEBI	acetate	+	carbon source
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
30831	16449 ChEBI	alanine	+	carbon source
30831	22599 ChEBI	arabinose	+	carbon source
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
30831	22653 ChEBI	asparagine	+	carbon source
30831	35391 ChEBI	aspartate	+	carbon source
68369	17634 ChEBI	D-glucose	+	assimilation	from API 20NE
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68369	16899 ChEBI	D-mannitol	+	assimilation	from API 20NE
68369	16024 ChEBI	D-mannose	+	assimilation	from API 20NE
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
30831	17126 ChEBI	DL-carnitine	+	carbon source
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
30831	15740 ChEBI	formate	+	carbon source
30831	33984 ChEBI	fucose	+	carbon source
30831	24148 ChEBI	galactonate	+	carbon source
30831	28260 ChEBI	galactose	+	carbon source
30831	24175 ChEBI	galacturonate	+	carbon source
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
30831	24265 ChEBI	gluconate	+	carbon source
68369	24265 ChEBI	gluconate	+	assimilation	from API 20NE
30831	5417 ChEBI	glucosamine	+	carbon source
30831	17234 ChEBI	glucose	+	carbon source
30831	32323 ChEBI	glucuronamide	+	carbon source
30831	29987 ChEBI	glutamate	+	carbon source
30831	15428 ChEBI	glycine	+	carbon source
30831	27570 ChEBI	histidine	+	carbon source
68369	30849 ChEBI	L-arabinose	+	assimilation	from API 20NE
30831	18403 ChEBI	L-arabitol	+	carbon source
30831	17716 ChEBI	lactose	+	carbon source
30831	25017 ChEBI	leucine	+	carbon source
30831	25115 ChEBI	malate	+	carbon source
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
30831	15792 ChEBI	malonate	+	carbon source
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
30831	29864 ChEBI	mannitol	+	carbon source
30831	37684 ChEBI	mannose	+	carbon source
30831	51850 ChEBI	methyl pyruvate	+	carbon source
30831	506227 ChEBI	N-acetylglucosamine	+	carbon source
68369	59640 ChEBI	N-acetylglucosamine	+	assimilation	from API 20NE
30831	17632 ChEBI	nitrate	+	reduction
68369	17632 ChEBI	nitrate	+	reduction	from API 20NE
30831	28044 ChEBI	phenylalanine	+	carbon source
30831	26271 ChEBI	proline	+	carbon source
30831	26490 ChEBI	quinate	+	carbon source
30831	15963 ChEBI	ribitol	+	carbon source
30831	17822 ChEBI	serine	+	carbon source
30831	30911 ChEBI	sorbitol	+	carbon source
30831	30031 ChEBI	succinate	+	carbon source
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
30831	53423 ChEBI	tween 40	+	carbon source
30831	53426 ChEBI	tween 80	+	carbon source
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE
30831	27248 ChEBI	urocanic acid	+	carbon source
30831	17151 ChEBI	xylitol	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68369	35581 ChEBI	indole	-	from API 20NE

Enzymes

@ref	Value	Activity	Ec
30831	alkaline phosphatase	+	3.1.3.1
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
19336	catalase	+	1.11.1.6
30831	catalase	+	1.11.1.6
30831	cytochrome oxidase	+	1.9.3.1
19336	cytochrome-c oxidase	+	1.9.3.1
68369	gelatinase	-		from API 20NE
30831	urease	+	3.5.1.5
68369	urease	-	3.5.1.5	from API 20NE

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
19336	+	-	-	-	-	-	-	-	+	+	+	+	+	-	+	-	-	+	-	-	not determinedn.d.

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Moss

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
19336	moss Grimmia montana	Grimmia montana	Beijing Songshan National Nature Reserve	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence JN256678 (>99% sequence identity) for Burkholderia from Microbeatlas

Aquatic Samples	109
Soil Samples	1674
Animal Samples	488
Plant Samples	430
Total Samples	2701

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
19336	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	ASM1463637v1 assembly for Caballeronia grimmiae CGMCC 1.11013	contig	GCA_014636375	1071679.6	8113092622	1071679	70.84
66792	SOAPdenovo v1.05 assembly for Caballeronia grimmiae R27	contig	GCA_000698555	1071679.4	2609460223	1071679	47.71

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
19336	Burkholderia grimmiae strain R27 16S ribosomal RNA gene, partial sequence	JN256678	1492		1071679
124043	Caballeronia grimmiae strain CGMCC 1.11013 16S ribosomal RNA gene, partial sequence.	MT760085	1362		1071679

GC content

@ref	GC-content (mol%)	Method
19336	64.6	thermal denaturation, midpoint method (Tm)
30831	64.6

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Caballeronia grimmiae R27
NCBI: GCA_000698555

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	84.80	no
125439	motility	BacteriaNetⓘ	yes	58.30	no
125439	gram_stain	BacteriaNetⓘ	negative	89.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Caballeronia grimmiae strain CGMCC 1.11013
PATRIC: 1071679.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	98.17	no
125438	spore-forming	spore-formingⓘ	no	90.48	yes
125438	aerobic	aerobicⓘ	yes	94.06	yes
125438	thermophilic	thermophileⓘ	no	98.33	yes
125438	flagellated	motile2+ⓘ	yes	85.22	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Burkholderia jiangsuensis sp. nov., a methyl parathion degrading bacterium, isolated from methyl parathion contaminated soil.	Liu XY, Li CX, Luo XJ, Lai QL, Xu JH	Int J Syst Evol Microbiol	10.1099/ijs.0.064444-0	2014
Phylogeny	Burkholderia grimmiae sp. nov., isolated from a xerophilous moss (Grimmia montana).	Tian Y, Kong BH, Liu SL, Li CL, Yu R, Liu L, Li YH	Int J Syst Evol Microbiol	10.1099/ijs.0.045492-0	2012

References

#19336	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25160
#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 )
#30831	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27161 (see below)
#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) .
#68369	Automatically annotated from API 20NE .
#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 )

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Caballeronia grimmiae (DSM 25160, CGMCC 1.11013, LMG 27580)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API 20NE

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014636375

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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