Pseudochelatococcus lubricantis (DSM 103870, CCTCC AB 2015036, KCTC 42463)

Name: Pseudochelatococcus lubricantis (DSM 103870, CCTCC AB 2015036, KCTC 42463)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132295

Type strain

Strain Designation LR4

Culture col. no. DSM 103870 CCTCC AB 2015036 KCTC 42463 LR4

NCBI tax ID(s) 1538102

Special Collections DSMZ KCTC

History <- KCTC <- L. Zhang and J.-D. Jiang, Key Lab of Microbiological Engineering of Agricultural Environment, Nanjing Agricultural University, PR China <- Jian-Dong Jiang, Nanjing Agricultural Univ.

Links

Pseudochelatococcus lubricantis LR4 is an aerobe, mesophilic prokaryote that was isolated from From polluted soil.

aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 403688

KCTC 42463,DSM 103870

@ref 20215

Last LPSN update 2026-02-09 11:31:40

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Beijerinckiaceae

Genus Pseudochelatococcus

Species Pseudochelatococcus lubricantis

Full scientific name Pseudochelatococcus lubricantis Kämpfer et al. 2015

Synonyms (1)

Qingshengfania soli

BacDive ID	Other strains from **Pseudochelatococcus lubricantis** (1)	Type strain
130810	P. lubricantis DSM 28761, CCM 8528, CIP 110802, LMG 28286, ... (type strain)

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	98.7
125438	negative	96.8

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24084	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
24084	positive	growth	28	mesophilic
67771	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67771	aerobe
125439	aerobe	96.6

Spore formation

@ref	Spore formation	Confidence
125439		98

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
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
68369	4853 ChEBI	esculin	-	hydrolysis	from API 20NE
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68369	24265 ChEBI	gluconate	-	assimilation	from API 20NE
68369	30849 ChEBI	L-arabinose	-	assimilation	from API 20NE
68369	25115 ChEBI	malate	+	assimilation	from API 20NE
68369	17306 ChEBI	maltose	-	assimilation	from API 20NE
68369	59640 ChEBI	N-acetylglucosamine	-	assimilation	from API 20NE
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68369	16199 ChEBI	urea	-	hydrolysis	from API 20NE

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
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68369	beta-glucosidase	-	3.2.1.21	from API 20NE
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
68369	gelatinase	-		from API 20NE
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
24084	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	#Plant (Factory)
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67771	From polluted soil		China	CHN	Asia
24084	soil of pesticide factory	Nanjing	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence KP973992 (>99% sequence identity) for Pseudochelatococcus lubricantis subclade from Microbeatlas

Aquatic Samples	66
Soil Samples	30
Animal Samples	44
Plant Samples	3
Total Samples	143

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24084	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1176222v1 assembly for Pseudochelatococcus lubricantis DSM 103870	scaffold	GCA_011762225	1538102.3	2828467665	1538102	70.9
124043	ASM4268270v1 assembly for Pseudochelatococcus lubricantis KCTC 42463	scaffold	GCA_042682705			1538102	67.97

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24084	Pseudochelatococcus lubricantis strain LR4 16S ribosomal RNA gene, partial sequence	KP973992	1442		1538102

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudochelatococcus lubricantis DSM 103870
NCBI: GCA_011762225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.00	no
125439	motility	BacteriaNetⓘ	yes	68.00	no
125439	gram_stain	BacteriaNetⓘ	negative	98.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	96.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudochelatococcus lubricantis DSM 103870
NCBI: GCA_011762225.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.80	no
125438	anaerobic	anaerobicⓘ	no	91.91	yes
125438	aerobic	aerobicⓘ	yes	76.22	no
125438	spore-forming	spore-formingⓘ	no	88.67	no
125438	thermophilic	thermophileⓘ	no	96.66	yes
125438	flagellated	motile2+ⓘ	yes	61.89	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Qingshengfania soli Zhang et al. 2015 is a later heterotypic synonym of Pseudochelatococcus lubricantis Kampfer et al. 2015.	Kampfer P, Glaeser SP, Graber M, Rabenstein A, Kuever J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002817	2018
Phylogeny	Qingshengfania soli gen. nov., sp. nov., a member of the order Rhizobiales isolated from the soil of a pesticide factory.	Zhang L, Zhou QX, Song M, Chen XL, Xu XH, Chen K, Li SP, Jiang JD	Int J Syst Evol Microbiol	10.1099/ijsem.0.000620	2015

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 )
#24084	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103870
#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) .
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Pseudochelatococcus lubricantis (DSM 103870, CCTCC AB 2015036, KCTC 42463)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

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_011762225

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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