Name: Mediterraneibacter gnavus CPI C7-9
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 165414

Type strain:

Species: Mediterraneibacter gnavus

Strain Designation: CPI C7-9

Culture col. no.: JCM 6515, ATCC 29149, VPI C7-9, DSM 114966

Strain history: <- RIKEN BRC-JCM, Japan; JCM 6515

NCBI tax ID(s): 411470 (strain), 33038 (species)

SI-ID 39379

ATCC 29149

Section

Mediterraneibacter gnavus CPI C7-9 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from Human feces.

Gram-positive
anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Lachnospiraceae*
	Genus	*Mediterraneibacter*
	Species	**Mediterraneibacter gnavus**
	Full Scientific Name (LPSN)	Mediterraneibacter gnavus (Moore et al. 1976) Togo et al. 2023

Synonym

Ruminococcus gnavus

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Information on culture and growth conditions Culture and growth conditions

[Ref.: #68849]

Culture medium

CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)

[Ref.: #68849]

Culture medium growth

[Ref.: #68849]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	37 °C
[Ref.: #68849]			growth	37 °C

[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #68849]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %99.998

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.67

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #67770]	Sample type/isolated from	Human feces

[Ref.: #68849]	Sample type/isolated from	Human feces
[Ref.: #68849]	Geographic location (country and/or sea, region)	country of origin unknown
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence X94967 (>99% sequence identity) for [Ruminococcus] gnavus subclade from Microbeatlas

Aquatic Samples	259
Soil Samples	34
Animal Samples	18387
Plant Samples	17
Total Samples	18697

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #68849]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	[Ruminococcus] gnavus gene for 16S ribosomal RNA, partial sequence	AB910745	1492	ENA	33038 tax ID
[Ref.: #67770]	R.gnavus 16S ribosomal RNA	X94967	1481	ENA	411470 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	[Ruminococcus] gnavus ATCC 29149	GCA_000169475	contig	GenBank	411470 tax ID
[Ref.: #67770]	[Ruminococcus] gnavus ATCC 29149	GCA_002959615	contig	GenBank	411470 tax ID
[Ref.: #66792]	[Ruminococcus] gnavus	33038.12	wgs	PATRIC	33038 tax ID	*
[Ref.: #66792]	[Ruminococcus] gnavus ATCC 29149	411470.52	complete	PATRIC	411470 tax ID	*
[Ref.: #66792]	Ruminococcus gnavus ATCC 29149	411470.41	wgs	PATRIC	411470 tax ID	*
[Ref.: #66792]	[Ruminococcus] gnavus ATCC 29149	411470.47	complete	PATRIC	411470 tax ID	*

[Ref.: #67770]	GC-content	43 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	46.2 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: [Ruminococcus] gnavus ATCC 29149 ATCC 29149 NCBI: GCA_009831375.1
[Ref.: #69481]	spore-forming	no	65	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: [Ruminococcus] gnavus ATCC 29149 ATCC 29149 NCBI: GCA_009831375.1
[Ref.: #69480]	motile	no	90.085	no
[Ref.: #69480]	flagellated	no	95.496	no
[Ref.: #69480]	gram-positive	yes	90.963	no
[Ref.: #69480]	anaerobic	yes	99.999	no
[Ref.: #69480]	aerobic	no	99.374	no
[Ref.: #69480]	halophile	no	89.566	no
[Ref.: #69480]	spore-forming	no	61.547	no
[Ref.: #69480]	glucose-util	yes	92.669	no
[Ref.: #69480]	thermophile	no	97.832	yes
[Ref.: #69480]	glucose-ferment	yes	80.704	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 6515, ATCC 29149, VPI C7-9, DSM 114966

[Ref.: #114462]

SI-ID 39379

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sporofaciens musculi gen. nov., sp. nov., a novel bacterium isolated from the caecum of an obese mouse.	Rasmussen TS, Streidl T, Hitch TCA, Wortmann E, Deptula P, Kofoed MVW, Riedel T, Neumann-Schaal M, Hansen M, Nielsen DS, Clavel T, Vogensen FK	Int J Syst Evol Microbiol	10.1099/ijsem.0.004673	2021	*
Phylogeny	Description of Mediterraneibacter massiliensis, gen. nov., sp. nov., a new genus isolated from the gut microbiota of an obese patient and reclassification of Ruminococcus faecis, Ruminococcus lactaris, Ruminococcus torques, Ruminococcus gnavus and Clostridium glycyrrhizinilyticum as Mediterraneibacter faecis comb. nov., Mediterraneibacter lactaris comb. nov., Mediterraneibacter torques comb. nov., Mediterraneibacter gnavus comb. nov. and Mediterraneibacter glycyrrhizinilyticus comb. nov.	Togo AH, Diop A, Bittar F, Maraninchi M, Valero R, Armstrong N, Dubourg G, Labas N, Richez M, Delerce J, Levasseur A, Fournier PE, Raoult D, Million M	Antonie Van Leeuwenhoek	10.1007/s10482-018-1104-y	2018	*
Phylogeny	Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov.	Sakamoto M, Iino T, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijsem.0.001790	2017	*
Proteome	Filling out the structural map of the NTF2-like superfamily.	Eberhardt RY, Chang Y, Bateman A, Murzin AG, Axelrod HL, Hwang WC, Aravind L	BMC Bioinformatics	10.1186/1471-2105-14-327	2013	*
Metabolism	The role of the mucin-glycan foraging Ruminococcus gnavus in the communication between the gut and the brain.	Coletto E, Latousakis D, Pontifex MG, Crost EH, Vaux L, Perez Santamarina E, Goldson A, Brion A, Hajihosseini MK, Vauzour D, Savva GM, Juge N	Gut Microbes	10.1080/19490976.2022.2073784	2022	*
Metabolism	The human gut symbiont Ruminococcus gnavus shows specificity to blood group A antigen during mucin glycan foraging: Implication for niche colonisation in the gastrointestinal tract.	Wu H, Crost EH, Owen CD, van Bakel W, Martinez Gascuena A, Latousakis D, Hicks T, Walpole S, Urbanowicz PA, Ndeh D, Monaco S, Sanchez Salom L, Griffiths R, Reynolds RS, Colvile A, Spencer DIR, Walsh M, Angulo J, Juge N	PLoS Biol	10.1371/journal.pbio.3001498	2021	*
Metabolism	Uncovering a novel molecular mechanism for scavenging sialic acids in bacteria.	Bell A, Severi E, Lee M, Monaco S, Latousakis D, Angulo J, Thomas GH, Naismith JH, Juge N	J Biol Chem	10.1074/jbc.RA120.014454	2020	*
Metabolism	Fucosidases from the human gut symbiont Ruminococcus gnavus.	Wu H, Rebello O, Crost EH, Owen CD, Walpole S, Bennati-Granier C, Ndeh D, Monaco S, Hicks T, Colvile A, Urbanowicz PA, Walsh MA, Angulo J, Spencer DIR, Juge N	Cell Mol Life Sci	10.1007/s00018-020-03514-x	2020	*
Pathogenicity	Mechanistic Insights Into the Cross-Feeding of Ruminococcus gnavus and Ruminococcus bromii on Host and Dietary Carbohydrates.	Crost EH, Le Gall G, Laverde-Gomez JA, Mukhopadhya I, Flint HJ, Juge N	Front Microbiol	10.3389/fmicb.2018.02558	2018	*
Metabolism	Unravelling the specificity and mechanism of sialic acid recognition by the gut symbiont Ruminococcus gnavus.	Owen CD, Tailford LE, Monaco S, Suligoj T, Vaux L, Lallement R, Khedri Z, Yu H, Lecointe K, Walshaw J, Tribolo S, Horrex M, Bell A, Chen X, Taylor GL, Varki A, Angulo J, Juge N	Nat Commun	10.1038/s41467-017-02109-8	2017	*
Metabolism	The mucin-degradation strategy of Ruminococcus gnavus: The importance of intramolecular trans-sialidases.	Crost EH, Tailford LE, Monestier M, Swarbreck D, Henrissat B, Crossman LC, Juge N	Gut Microbes	10.1080/19490976.2016.1186334	2016	*
Metabolism	Discovery of intramolecular trans-sialidases in human gut microbiota suggests novel mechanisms of mucosal adaptation.	Tailford LE, Owen CD, Walshaw J, Crost EH, Hardy-Goddard J, Le Gall G, de Vos WM, Taylor GL, Juge N	Nat Commun	10.1038/ncomms8624	2015	*
Metabolism	Utilisation of mucin glycans by the human gut symbiont Ruminococcus gnavus is strain-dependent.	Crost EH, Tailford LE, Le Gall G, Fons M, Henrissat B, Juge N	PLoS One	10.1371/journal.pone.0076341	2013	*
Pathogenicity	Sex-dependent Lupus Blautia (Ruminococcus) gnavus strain induction of zonulin-mediated intestinal permeability and autoimmunity.	Silverman GJ, Deng J, Azzouz DF	Front Immunol	10.3389/fimmu.2022.897971	2022	*

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 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68849

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 114966

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#114462

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID39379.1 )

* These data were automatically processed and therefore are not curated

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[Ruminococcus] gnavus ATCC 29149 ATCC 29149

[Ruminococcus] gnavus ATCC 29149 ATCC 29149

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