Name: Lachnoanaerobaculum umeaense CD3:22
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6377

Type strain:

Species: Lachnoanaerobaculum umeaense

Strain Designation: CD3:22, CD3 : 22

Culture col. no.: DSM 23576, CCUG 58757

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

NCBI tax ID(s): 617123 (species)

SI-ID 406142

DSM 23576, CCUG 58757

Section

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

Gram-positive
rod-shaped
spore-forming
anaerobe
human pathogen
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	*Lachnoanaerobaculum*
	Species	**Lachnoanaerobaculum umeaense**
	Full Scientific Name (LPSN)	Lachnoanaerobaculum umeaense Hedberg et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30331]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30331]	Cell length	15 µm

[Ref.: #30331]	Cell shape	rod-shaped

[Ref.: #61755]

Incubation period

1 day

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17229]

Culture medium

PY + X MEDIUM (N2/CO2) (DSMZ Medium 104c)

[Ref.: #17229]

Culture medium growth

[Ref.: #17229]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17229]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17229]	growth	37 °C
[Ref.: #30331]	growth	37 °C
[Ref.: #61755]	growth	37 °C

[Ref.: #17229]	Temperature range	mesophilic
[Ref.: #30331]	Temperature range	mesophilic
[Ref.: #61755]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30331]			optimum	6.75

Information on physiology and metabolism Physiology and metabolism

[Ref.: #17229]	Oxygen tolerance	anaerobe
[Ref.: #30331]	Oxygen tolerance	anaerobe
[Ref.: #61755]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.999

[Ref.: #30331]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %92
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.925

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30331]	arabinose ChEBI	+	carbon source
[Ref.: #30331]	mannose ChEBI	+	carbon source
[Ref.: #30331]	raffinose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30331]		alpha-galactosidase	+	3.2.1.22

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

[Ref.: #17229]	Sample type/isolated from	biopsy from the small intestine of a child with coeliac disease
[Ref.: #17229]	Geographic location (country and/or sea, region)	Umea, Umea University Hospital, Department of Paediatrics
[Ref.: #17229]	Country	Sweden
[Ref.: #17229]	Country ISO 3 Code	SWE
[Ref.: #17229]	Continent	Europe

[Ref.: #61755]	Sample type/isolated from	Jejunal biopsy,celiac disease patient
[Ref.: #61755]	Sampling date	2007-11-11
[Ref.: #61755]	Geographic location (country and/or sea, region)	Umeå
[Ref.: #61755]	Country	Sweden
[Ref.: #61755]	Country ISO 3 Code	SWE
[Ref.: #61755]	Continent	Europe
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #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

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

[Ref.: #17229]	Pathogenicity (human)	yes, in single cases
[Ref.: #17229]	Biosafety level	1	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.: #17229]	Lachnoanaerobaculum umeaense strain CD3: 22 16S ribosomal RNA gene, partial sequence	FJ796700	1594	ENA	617123 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.: #66792]	Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757	GCA_003589745	complete	GenBank	617123 tax ID	*
[Ref.: #66792]	Lachnoanaerobaculum umeaense DSM 23576	GCA_003254255	scaffold	GenBank	617123 tax ID	*
[Ref.: #66792]	Lachnoanaerobaculum umeaense strain DSM 23576	617123.3	wgs	PATRIC	617123 tax ID	*
[Ref.: #66792]	Lachnoanaerobaculum umeaense strain DSM 23576 = CCUG 58757	617123.56	complete	PATRIC	617123 tax ID	*
[Ref.: #66792]	Lachnoanaerobaculum umeaense DSM 23576	2754412935	draft	JGI IMG/M	617123 tax ID	*
[Ref.: #66792]	Lachnoanaerobaculum umeaense DSM 23576	2832953387	complete	JGI IMG/M	617123 tax ID	*

[Ref.: #17229]	GC-content	35 mol%	high performance liquid chromatography (HPLC)
[Ref.: #30331]	GC-content	35 mol%

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: Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757 NCBI: GCA_003589745.1
[Ref.: #69481]	spore-forming	yes	92	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757 NCBI: GCA_003589745.1
[Ref.: #69480]	motile	no	90.23	no
[Ref.: #69480]	flagellated	no	95.622	no
[Ref.: #69480]	gram-positive	yes	90.624	no
[Ref.: #69480]	anaerobic	yes	99.259	no
[Ref.: #69480]	aerobic	no	99.03	no
[Ref.: #69480]	halophile	no	82.725	no
[Ref.: #69480]	spore-forming	no	50	yes
[Ref.: #69480]	glucose-util	yes	90.347	no
[Ref.: #69480]	thermophile	no	96.008	no
[Ref.: #69480]	glucose-ferment	yes	75.491	no

Availability in culture collections External links

[Ref.: #17229]

Culture collection no.

DSM 23576, CCUG 58757

[Ref.: #75850]

SI-ID 406142

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 )

#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 (see below)

#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 .

#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 )

#75850

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-ID406142.1 )

#26672

IJSEM 2685 2012 ( DOI 10.1099/ijs.0.033613-0 , PubMed 22228654 )

* These data were automatically processed and therefore are not curated

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Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757

Lachnoanaerobaculum umeaense DSM 23576 = CCUG 58757

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