Name: Bifidobacterium lemurum DSM 28807
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130215

Type strain:

Species: Bifidobacterium lemurum

Culture col. no.: DSM 28807, JCM 30168, LMC 13, KCTC 15888

Strain history: P. Mattarelli; Bologna Univ., Italy; LMC 13.

NCBI tax ID(s): 1603886 (species)

SI-ID 406419

DSM 28807

Special Collections

Section

When using BacDive for research please cite our paper

Bifidobacterium lemurum DSM 28807 is an anaerobe, mesophilic bacterium that was isolated from faeces of a 5-year-old ring-tailed lemur .

anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Bifidobacteriales*
	Family	*Bifidobacteriaceae*
	Genus	*Bifidobacterium*
	Species	**Bifidobacterium lemurum**
	Full Scientific Name (LPSN)	Bifidobacterium lemurum Modesto et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Motility	no Confidence in %92.5

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21533]

Culture medium

BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)

[Ref.: #21533]

Culture medium growth

[Ref.: #21533]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21533]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21533]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #21533]

Oxygen tolerance

anaerobe

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	cellobiose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fructose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-galactose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-glucose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-lyxose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-mannose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-ribose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-sorbitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-tagatose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	D-xylose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	erythritol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	esculin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	galactitol ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	gentiobiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	gluconate ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycerol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	glycogen ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	inulin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabinose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-arabitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-fucose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-rhamnose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-sorbose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	L-xylose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	lactose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	maltose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melezitose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	melibiose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl alpha-D-mannoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	myo-inositol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	N-acetylglucosamine ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 2-ketogluconate ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	Potassium 5-ketogluconate ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	raffinose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	ribitol ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	salicin ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	starch ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	sucrose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	trehalose ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #68371]	turanose ChEBI	+	builds acid from	* from API 50CH acid
[Ref.: #68371]	xylitol ChEBI	-	builds acid from	* from API 50CH acid
	Only first 10 entries are displayed. Click here to see all.

API® 50CH acid:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	ControlQ	Acid from glycerolGLY	Acid from erythritolERY	Acid from D-arabinoseDARA	Acid from L-arabinoseLARA	Acid from D-riboseRIB	Acid from D-xyloseDXYL	Acid from L-xyloseLXYL	Acid from D-adonitolADO	Acid from methyl beta-D-xylopyranosideMDX	Acid from D-galactoseGAL	Acid from D-glucoseGLU	Acid from D-fructoseFRU	Acid from D-mannoseMNE	Acid from L-sorboseSBE	Acid from L-rhamnoseRHA	Acid from dulcitolDUL	Acid from inositolINO	Acid from D-mannitolMAN	Acid from D-sorbitolSOR	Acid from methyl alpha-D-mannopyranosideMDM	Acid from methyl alpha-D-glucopyranosideMDG	Acid from N-acetyl-glucosamineNAG	Acid from amygdalinAMY	Acid from arbutinARB	Acid from esculinESC	Acid from salicinSAL	Acid from cellobioseCEL	Acid from maltoseMAL	Acid from lactoseLAC	Acid from melibioseMEL	Acid from sucroseSAC	Acid from trehaloseTRE	Acid from inulinINU	Acid from melezitoseMLZ	Acid from raffinoseRAF	Acid from starchAMD	Acid from glycogenGLYG	Acid from xylitolXLT	Acid from gentiobioseGEN	Acid from turanoseTUR	Acid from D-lyxoseLYX	Acid from D-tagatoseTAG	Acid from D-fucoseDFUC	Acid from L-fucoseLFUC	Acid from D-arabitolDARL	Acid from L-arabitolLARL	Acid from gluconateGNT	Acid from 2-Ketogluconate2KG	Acid from 5-Ketogluconate5KG
[Ref.: #21533]	15660	-	-	-	-	-	+	+	-	-	-	+	+	+	+	-	-	+	-	-	-	-	-	-	+	+/-	+	+	-	-	+	+	+	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	+	+	+

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

[Ref.: #21533]	Sample type/isolated from	faeces of a 5-year-old ring-tailed lemur (Lemur catta)
[Ref.: #21533]	Host species	Lemur catta
[Ref.: #21533]	Geographic location (country and/or sea, region)	Verona, Parco Natura Viva
[Ref.: #21533]	Country	Italy
[Ref.: #21533]	Country ISO 3 Code	ITA
[Ref.: #21533]	Continent	Europe

[Ref.: #67770]	Sample type/isolated from	Feces of a ring-tailed lemur (Lemur catta)
[Ref.: #67770]	Host species	Lemur catta
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Primates
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ658281 (>99% sequence identity) for Bifidobacterium from Microbeatlas

Aquatic Samples	530
Soil Samples	177
Animal Samples	24203
Plant Samples	47
Total Samples	24957

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

[Ref.: #21533]

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.: #21533]	Bifidobacterium lemurum strain LMC 13 16S ribosomal RNA gene, partial sequence	KJ658281	1400	GenBank ENA	1603886 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]	Bifidobacterium lemurum DSM 28807	GCA_002259665	contig	GenBank ENA	1603886 tax ID
[Ref.: #67770]	Bifidobacterium lemurum DSM 28807T	GCA_001895165	contig	GenBank ENA	1603886 tax ID
[Ref.: #66792]	Bifidobacterium lemurum strain DSM 28807	1603886.6	wgs	PATRIC	1603886 tax ID	*
[Ref.: #66792]	Bifidobacterium lemurum strain DSM 28807	1603886.10	complete	PATRIC	1603886 tax ID	*
[Ref.: #66792]	Bifidobacterium lemurum strain DSM 28807	1603886.3	wgs	PATRIC	1603886 tax ID	*
[Ref.: #66792]	Bifidobacterium lemurum DSM 28807	2791355249	draft	JGI IMG/M	1603886 tax ID	*

[Ref.: #21533]

GC-content

57.2 mol%

high performance liquid chromatography (HPLC)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bifidobacterium lemurum DSM 28807 NCBI: GCA_014898175.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	87.665	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	78.154	yes
[Ref.: #125438]	aerobic	aerobicⓘ	no	90.551	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	89.779	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	92.6	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	92.5	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bifidobacterium lemurum DSM 28807 NCBI: GCA_014898175
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	86.9
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	69.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	positive	83.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	75.1

Availability in culture collections External links

[Ref.: #21533]

Culture collection no.

DSM 28807, JCM 30168, LMC 13, KCTC 15888

[Ref.: #88758]

SI-ID 406419

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Bifidobacterium eulemuris sp. nov., isolated from faeces of black lemurs (Eulemur macaco).	Michelini S, Modesto M, Pisi AM, Filippini G, Sandri C, Spiezio C, Biavati B, Sgorbati B, Mattarelli P	Int J Syst Evol Microbiol	10.1099/ijsem.0.000924	2016	*
Phylogeny	Bifidobacterium lemurum sp. nov., from faeces of the ring-tailed lemur (Lemur catta).	Modesto M, Michelini S, Stefanini I, Sandri C, Spiezio C, Pisi A, Filippini G, Biavati B, Mattarelli P	Int J Syst Evol Microbiol	10.1099/ijs.0.000162	2015	*
Genetics	Draft Genome Sequence of Bifidobacterium lemurum DSM 28807(T) Isolated from the Gastrointestinal Tracts of Ring-Tailed Lemurs (Lemur catta).	Toh H, Matsubara T, Tomida S, Mimura I, Arakawa K, Kikusui T, Morita H	Genome Announc	10.1128/genomeA.01656-16	2017	*

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 )

#21533

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 28807

#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;

#68371

Automatically annotated from API 50CH acid .

#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 .

#88758

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-ID406419.1 )

#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 .

* These data were automatically processed and therefore are not curated

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