Lachnoanaerobaculum umeaense (DSM 23576, CCUG 58757, CD3:22)

Name: Lachnoanaerobaculum umeaense (DSM 23576, CCUG 58757, CD3:22)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6377

Type strain

Strain Designation CD3:22, CD3 : 22

Culture col. no. DSM 23576 CCUG 58757 CD3:22 CD3 : 22

NCBI tax ID(s) 617123

Special Collections DSMZ CCUG Literature strains

History DSMZ <- M. Hedberg, Umea University, Institution of Clinical Microbiology, Div. of Immunology; CD3 : 22 <- M. Hedberg {2007}

Links

Lachnoanaerobaculum umeaense CD3:22 is an anaerobe, spore-forming, Gram-positive bacterium that was isolated from biopsy from the small intestine of a child with coeliac disease.

spore-forming Gram-positive rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 406142

DSM 23576,CCUG 58757

@ref 20215

Last LPSN update 2026-05-29 08:26:23

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Lachnospiraceae

Genus Lachnoanaerobaculum

Species Lachnoanaerobaculum umeaense

Full scientific name Lachnoanaerobaculum umeaense Hedberg et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape
30331	positive	15 µm	rod-shaped

Colony morphology

61755

Incubation period1 day

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
17229	PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c)		Medium recipe at MediaDive	Name: PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c) 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 Na2CO3 1.0 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)
17229	positive	growth	37
30331	positive	growth	37
61755	positive	growth	37

Culture pH

@ref	Ability	Type	PH
30331	positive	optimum	6.75

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
17229	anaerobe
30331	anaerobe
61755	anaerobe
125438	anaerobe	91.736
125439	anaerobe	99.357

Spore formation

30331

Spore formationyes

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30331	22599 ChEBI	arabinose	+	carbon source
30331	37684 ChEBI	mannose	+	carbon source
30331	16634 ChEBI	raffinose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30331	alpha-galactosidase	+	3.2.1.22

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Patient	#Biopsy
#Infection	#Patient	-
#Host Body-Site	#Gastrointestinal tract	#Small intestine
#Host	#Human	#Child

Isolation

@ref	Sample type	Host species	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent
17229	biopsy from the small intestine of a child with coeliac disease	Homo sapiens		Umea, Umea University Hospital, Department of Paediatrics	Sweden	SWE	Europe
61755	Jejunal biopsy,celiac disease patient	Homo sapiens	2007-11-11	Umeå	Sweden	SWE	Europe

Taxonmaps

69479

Global distribution of 16S sequence FJ796700 (>99% sequence identity) for Lachnoanaerobaculum umeaense from Microbeatlas

Aquatic Samples	8
Soil Samples	4
Animal Samples	1437
Plant Samples	4
Total Samples	1453

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
17229	yes, in single cases	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	ASM358974v1 assembly for Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757	complete	GCA_003589745	617123.56	2832953387	617123	98.93
66792	ASM325425v1 assembly for Lachnoanaerobaculum umeaense DSM 23576	scaffold	GCA_003254255	617123.3	2754412935	617123	62.11

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
17229	Lachnoanaerobaculum umeaense strain CD3: 22 16S ribosomal RNA gene, partial sequence	FJ796700	1594		617123

GC content

@ref	GC-content (mol%)	Method
17229	35	high performance liquid chromatography (HPLC)
30331	35

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM358974v1 assembly for Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757
BV-BRC: 617123.56

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.36	no
125439	gram_stain	BacteriaNetⓘ	variable	59.77	no
125439	motility	BacteriaNetⓘ	yes	71.84	no
125439	spore_formation	BacteriaNetⓘ	yes	63.05	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757
NCBI: GCA_003589745.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	82.44	yes
125438	anaerobic	anaerobicⓘ	yes	91.74	yes
125438	aerobic	aerobicⓘ	no	98.26	no
125438	spore-forming	spore-formingⓘ	yes	50.19	no
125438	thermophilic	thermophileⓘ	no	97.30	yes
125438	flagellated	motile2+ⓘ	no	87.24	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lachnoanaerobaculum gen. nov., a new genus in the Lachnospiraceae: characterization of Lachnoanaerobaculum umeaense gen. nov., sp. nov., isolated from the human small intestine, and Lachnoanaerobaculum orale sp. nov., isolated from saliva, and reclassification of Eubacterium saburreum (Prevot 1966) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov.	Hedberg ME, Moore ERB, Svensson-Stadler L, Horstedt P, Baranov V, Hernell O, Wai SN, Hammarstrom S, Hammarstrom ML	Int J Syst Evol Microbiol	10.1099/ijs.0.033613-0	2012

References

#17229	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23576
#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 )
#26672	IJSEM 2685 2012 ( DOI 10.1099/ijs.0.033613-0 , PubMed 22228654 )
#30331	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26672
#61755	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 58757
#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 )

Content

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Lachnoanaerobaculum umeaense (DSM 23576, CCUG 58757, CD3:22)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003589745

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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