Microvirga massiliensis (DSM 26813, CSUR P153, JC119)

Name: Microvirga massiliensis (DSM 26813, CSUR P153, JC119)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132571

Type strain

Strain Designation JC119

Culture col. no. DSM 26813 CSUR P153 JC119

NCBI tax ID(s) 1033741

Special Collections DSMZ Cadoret human gut

History <- J.-C. Lagier, Timone Hospital, Marseille, France; JC119

Links

Microvirga massiliensis JC119 is a bacterium that was isolated from human feces, 16-year-old Senegalese man.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 402135

DSM 26813

@ref 20215

Last LPSN update 2026-02-09 11:31:44

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Methylobacteriaceae

Genus Microvirga

Species Microvirga massiliensis

Full scientific name Microvirga massiliensis Caputo et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	98.968

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24360	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)
24360	positive	growth	37

Physiology and metabolism

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	#Male
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
24360	human feces, 16-year-old Senegalese man	Sine Saloum, Dielmo	Senegal	SEN	Africa

Taxonmaps

69479

Global distribution of 16S sequence JF824802 (>99% sequence identity) for Microvirga massiliensis subclade from Microbeatlas

Aquatic Samples	694
Soil Samples	7646
Animal Samples	1033
Plant Samples	958
Total Samples	10331

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24360	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
66792	Microvirga massiliensis JC119 assembly for Microvirga massiliensis JC119	scaffold	GCA_001006805	1033741.6	2802429303	1033741
66792	ASM105049v1 assembly for Microvirga massiliensis	contig	GCA_001050495		2634166464	1033741

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24360	Microvirga massiliensis strain JC119 16S ribosomal RNA gene, partial sequence	JF824802	1475		1033741

GC content

@ref	GC-content (mol%)	Method
24360	63.28	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Microvirga massiliensis JC119
NCBI: GCA_001006805

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	89.10	no
125439	motility	BacteriaNetⓘ	yes	61.00	no
125439	gram_stain	BacteriaNetⓘ	negative	83.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	80.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Microvirga massiliensis JC119
NCBI: GCA_001006805.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.97	no
125438	anaerobic	anaerobicⓘ	no	94.73	no
125438	aerobic	aerobicⓘ	yes	76.15	no
125438	spore-forming	spore-formingⓘ	no	87.69	no
125438	thermophilic	thermophileⓘ	no	97.85	no
125438	flagellated	motile2+ⓘ	yes	70.60	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Microvirga massiliensis sp. nov., the human commensal with the largest genome.	Caputo A, Lagier JC, Azza S, Robert C, Mouelhi D, Fournier PE, Raoult D	Microbiologyopen	10.1002/mbo3.329	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 )
#24360	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26813
#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) .
#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 .
#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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Microvirga massiliensis (DSM 26813, CSUR P153, JC119)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001006805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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