Agitococcus lubricus (DSM 5822, UQM 1981, CCM 9403)

Name: Agitococcus lubricus (DSM 5822, UQM 1981, CCM 9403)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2239

Type strain

Culture col. no. DSM 5822 UQM 1981 CCM 9403

NCBI tax ID(s) 1077255

Special Collections DSMZ

History <- UQM

Links

Agitococcus lubricus DSM 5822 is a mesophilic prokaryote of the family Moraxellaceae.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 48013

DSM 5822

@ref 20215

Last LPSN update 2026-02-09 11:18:15

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Moraxellaceae

Genus Agitococcus

Species Agitococcus lubricus

Full scientific name Agitococcus lubricus Franzmann and Skerman 1981

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	99.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
2327	TWEEN 80A MEDIUM (DSMZ Medium 618)		Medium recipe at MediaDive	Name: TWEEN 80A MEDIUM (DSMZ Medium 618) Composition: Agar 15.0 g/l Tween 80 10.0 g/l Casitone 5.0 g/l Yeast extract 3.0 g/l MgSO4 x 7 H2O 2.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
2327	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.5

Spore formation

@ref	Spore formation	Confidence
125439		98.2
125438		94.603

Isolation, sampling and environmental information

Isolation

@ref	Geographic location	Country	Country ISO 3 Code	Continent
2327	Brisbane	Australia	AUS	Australia and Oceania

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
2327	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	ASM305105v1 assembly for Agitococcus lubricus DSM 5822	contig	GCA_003051055	1077255.3	2737471639	1077255	58.09

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
124043	Agitococcus lubricus partial 16S rRNA gene, type strain DSM 5822T	HE582776	1512		1077255

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Agitococcus lubricus DSM 5822
NCBI: GCA_003051055

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.20	no
125439	motility	BacteriaNetⓘ	yes	59.70	no
125439	gram_stain	BacteriaNetⓘ	negative	88.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Agitococcus lubricus strain DSM 5822
PATRIC: 1077255.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.50	no
125438	anaerobic	anaerobicⓘ	no	92.56	no
125438	spore-forming	spore-formingⓘ	no	94.60	no
125438	aerobic	aerobicⓘ	yes	77.55	no
125438	thermophilic	thermophileⓘ	no	95.32	yes
125438	flagellated	motile2+ⓘ	no	61.77	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Assessment of Skimmed Milk Flocculation for Bacterial Enrichment from Water Samples, and Benchmarking of DNA Extraction and 16S rRNA Databases for Metagenomics.	Donchev D, Stoikov I, Diukendjieva A, Ivanov IN.	Int J Mol Sci	10.3390/ijms251910817	2024
	The Development of the Bacterial Community of Brown Trout (Salmo trutta) during Ontogeny.	Keiz K, Ulrich S, Wenderlein J, Keferloher P, Wiesinger A, Neuhaus K, Lagkouvardos I, Wedekind H, Straubinger RK.	Microorganisms	10.3390/microorganisms11010211	2023
Enzymology	The structure of microbial communities of activated sludge of large-scale wastewater treatment plants in the city of Moscow.	Begmatov S, Dorofeev AG, Kadnikov VV, Beletsky AV, Pimenov NV, Ravin NV, Mardanov AV.	Sci Rep	10.1038/s41598-022-07132-4	2022
Genetics	Microaerobic conditions caused the overwhelming dominance of Acinetobacter spp. and the marginalization of Rhodococcus spp. in diesel fuel/crude oil mixture-amended enrichment cultures.	Revesz F, Figueroa-Gonzalez PA, Probst AJ, Kriszt B, Banerjee S, Szoboszlay S, Maroti G, Tancsics A.	Arch Microbiol	10.1007/s00203-019-01749-2	2020
	Elucidating the origins of phycocyanobilin biosynthesis and phycobiliproteins.	Rockwell NC, Martin SS, Lagarias JC.	Proc Natl Acad Sci U S A	10.1073/pnas.2300770120	2023
	Insights into 6S RNA in lactic acid bacteria (LAB).	Cataldo PG, Klemm P, Thuring M, Saavedra L, Hebert EM, Hartmann RK, Lechner M.	BMC Genom Data	10.1186/s12863-021-00983-2	2021
Phylogeny	Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline.	Straub D, Blackwell N, Langarica-Fuentes A, Peltzer A, Nahnsen S, Kleindienst S.	Front Microbiol	10.3389/fmicb.2020.550420	2020
Phylogeny	Mucilaginibacter celer sp. nov. and Aquirhabdus parva gen. nov., sp. nov., isolated from freshwater.	Kim M, Shin SK, Yi H.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004437	2020

References

#2327	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 5822
#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 )
#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) .
#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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Agitococcus lubricus (DSM 5822, UQM 1981, CCM 9403)

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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003051055

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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