Caballeronia calidae (LMG 29321, CCUG 68408, CIP 111005)

Name: Caballeronia calidae (LMG 29321, CCUG 68408, CIP 111005)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 141017

Type strain

Strain Designation R-51042

Culture col. no. LMG 29321 CCUG 68408 CIP 111005 R-51042

NCBI tax ID(s) 1777139

Special Collections CCUG Literature strains CIP

History CIP <- 2016, P. Vandamme, Ghent Univ., Ghent, Belgium: strain R-51042

Links

Caballeronia calidae R-51042 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from Water.

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

Name and taxonomic classification

SI-ID 409663

LMG 29321,CCUG 68408

@ref 20215

Last LPSN update 2026-02-09 11:33:47

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Caballeronia

Species Caballeronia calidae

Full scientific name Caballeronia calidae (Peeters et al. 2016) Dobritsa et al. 2017

Synonyms (1)

Burkholderia calidae

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
125438	negative		98
125439	negative		90.9
117102	negative	rod-shaped

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link
117102	CIP Medium 72		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
63477	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
63477	aerobe
125438	aerobe	92
125439	obligate aerobe	99.1

Spore formation

@ref	Spore formation	Confidence
125439		91.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Environmental	#Aquatic

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent	Isolation date
63477	Water	2013	Belgium	BEL	Europe
117102	Environment, Water		Belgium	BEL	Europe	2013-01-02

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
117102	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	Burkholderia sp. LMG 29321 assembly for Caballeronia calidae	contig	GCA_900044055	1777139.3	2713896997	1777139	2.67
66792	Burkholderia sp. strain LMG 29321	contig		36773.46		36773

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Burkholderia calidae partial 16S rRNA gene, type strain LMG 29321T	LT158619	1484		1777139

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Caballeronia calidae LMG 29321
NCBI: GCA_900044055

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	91.10	no
125439	motility	BacteriaNetⓘ	yes	60.10	no
125439	gram_stain	BacteriaNetⓘ	negative	90.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Burkholderia sp. strain LMG 29321
PATRIC: 36773.46

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	no
125438	anaerobic	anaerobicⓘ	no	98.07	no
125438	spore-forming	spore-formingⓘ	no	88.45	no
125438	aerobic	aerobicⓘ	yes	92.00	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	yes	83.39	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Diversity and Phosphate Solubilization Efficiency of Phosphate Solubilizing Bacteria Isolated from Semi-Arid Agroecosystems of Eastern Kenya.	Kirui CK, Njeru EM, Runo S.	Microbiol Insights	10.1177/11786361221088991	2022
Genetics	Genome Data Provides High Support for Generic Boundaries in Burkholderia Sensu Lato.	Beukes CW, Palmer M, Manyaka P, Chan WY, Avontuur JR, van Zyl E, Huntemann M, Clum A, Pillay M, Palaniappan K, Varghese N, Mikhailova N, Stamatis D, Reddy TBK, Daum C, Shapiro N, Markowitz V, Ivanova N, Kyrpides N, Woyke T, Blom J, Whitman WB, Venter SN, Steenkamp ET.	Front Microbiol	10.3389/fmicb.2017.01154	2017
	Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae.	Peeters C, Meier-Kolthoff JP, Verheyde B, De Brandt E, Cooper VS, Vandamme P	Front Microbiol	10.3389/fmicb.2016.00877	2016

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 )
#43568	Anatoly P. Dobritsa, Elena V. Linardopoulou, Mansour Samadpour: Transfer of 13 species of the genus Burkholderia to the genus Caballeronia and reclassification of Burkholderia jirisanensis as Paraburkholderia jirisanensis comb. nov.. IJSEM 67: 3846 - 3853 2017 ( DOI 10.1099/ijsem.0.002202 , PubMed 28879843 )
#63477	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 68408
#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) .
#117102	Collection of Institut Pasteur ; Curators of the CIP; CIP 111005
#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 calidae (LMG 29321, CCUG 68408, CIP 111005)

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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900044055

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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