Cite this strain

"Candidatus Clostridium ihumii" (DSM 26098, CSUR P198, AP5)

BacDive ID 131404

Type strain

Strain Designation AP5

Culture col. no. DSM 26098 CSUR P198 AP5

NCBI tax ID(s) 1470356

Special Collections DSMZ Cadoret human gut

Links

"Candidatus Clostridium ihumii" AP5 is an anaerobe, mesophilic prokaryote that was isolated from feces of a female patient suffering from anorexia nervosa.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 406214

DSM 26098

@ref 20215

Last LPSN update 2025-12-16 10:01:14

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Clostridiaceae

Genus Clostridium

Species "Candidatus Clostridium ihumii"

Full scientific name Candidatus Clostridium ihumii Pfleiderer et al. 2013

Synonyms (1)

"Clostridium ihumii"

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	90.7

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22631	PY + X MEDIUM (DSMZ Medium 104b)		Medium recipe at MediaDive	Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
22631	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
22631	anaerobe
125439	anaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Infection	#Patient
#Host	#Human
#Host Body Product	#Gastrointestinal tract

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
22631	feces of a female patient suffering from anorexia nervosa	Marseille, Institut Hospitalo-Universitaire Méditerranée-Infection	France	FRA	Europe

Taxonmaps

69479

Global distribution of 16S sequence JX101686 (>99% sequence identity) for Clostridium from Microbeatlas

Aquatic Samples	3408
Soil Samples	795
Animal Samples	4411
Plant Samples	148
Total Samples	8762

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	AP5T assembly for Clostridium ihumii AP5	contig	GCA_000612845	1211817.3	2600255061	1211817	58.62

Genome browser: GCA_000612845

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22631	Clostridium ihumii AP5 16S ribosomal RNA gene, partial sequence	JX101686	1468		1211817

GC content

@ref	GC-content (mol%)	Method
22631	26.70	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium ihumii AP5
NCBI: GCA_000612845

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	57.60	no
125439	motility	BacteriaNetⓘ	yes	69.70	no
125439	gram_stain	BacteriaNetⓘ	positive	90.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	98.80	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Non-contiguous finished genome sequence and description of Clostridium ihumii sp. nov.	Merhej V, Pfleiderer A, Ramasamy D, Lagier JC, Michelle C, Raoult D, Fournier PE.	Stand Genomic Sci	10.1186/s40793-015-0025-x	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 )
#22631	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26098
#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 .
#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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"Candidatus Clostridium ihumii" (DSM 26098, CSUR P198, AP5)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000612845

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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