Caballeronia hypogeia (LMG 29322, CCUG 68407, CIP 111006)

Name: Caballeronia hypogeia (LMG 29322, CCUG 68407, CIP 111006)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 141022

Type strain

Strain Designation R-52609

Culture col. no. LMG 29322 CCUG 68407 CIP 111006 R-52609

NCBI tax ID(s) 1777140

Special Collections CCUG Literature strains CIP

History CIP <- 2016, P. Vandamme, Ghent Univ., Ghent, Belgium: strain R-52609

Links

Caballeronia hypogeia R-52609 is an aerobe, Gram-negative, motile bacterium that was isolated from Soil.

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

Name and taxonomic classification

SI-ID 410656

LMG 29322,CCUG 68407

@ref 20215

Last LPSN update 2026-05-29 08:39:51

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Burkholderiaceae

Genus Caballeronia

Species Caballeronia hypogeia

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

Synonyms (1)

Burkholderia hypogeia

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
120034	negative	rod-shaped
125438	negative		99
125439	negative		91.503

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link
120034	CIP Medium 72		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
63476	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
63476	aerobe
125438	aerobe	93.079
125439	obligate aerobe	99.686

Spore formation

@ref	Spore formation	Confidence
125439		95.848

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent	Isolation date
63476	Soil	2014	Belgium	BEL	Europe
120034	Environment, Soil		Belgium	BEL	Europe	2014-01-02

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
120034	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 29322 assembly for Caballeronia hypogeia	contig	GCA_001544875	1777140.3	2713896993	1777140	60.5
66792	Burkholderia sp. strain LMG 29322	contig		36773.28		36773	54.3

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Burkholderia hypogeia partial 16S rRNA gene, type strain LMG 29322T	LT158620	1486		1777140

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Burkholderia sp. LMG 29322 assembly for Caballeronia hypogeia
NCBI: GCA_001544875

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.69	no
125439	gram_stain	BacteriaNetⓘ	negative	91.50	no
125439	motility	BacteriaNetⓘ	yes	52.56	no
125439	spore_formation	BacteriaNetⓘ	no	95.85	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Burkholderia sp. strain LMG 29322
PATRIC: 36773.28

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	no
125438	anaerobic	anaerobicⓘ	no	96.93	no
125438	spore-forming	spore-formingⓘ	no	85.23	no
125438	aerobic	aerobicⓘ	yes	93.08	yes
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	82.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	d-Ribose Catabolism in Archaea: Discovery of a Novel Oxidative Pathway in Haloarcula Species.	Johnsen U, Sutter JM, Reinhardt A, Pickl A, Wang R, Xiang H, Schonheit P.	J Bacteriol	10.1128/jb.00608-19	2020
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 )
#63476	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 68407
#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) .
#120034	Collection of Institut Pasteur ; Curators of the CIP; CIP 111006
#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 hypogeia (LMG 29322, CCUG 68407, CIP 111006)

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_001544875

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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