Name: Dolosigranulum pigrum R-91/1468
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 135725

Type strain:

Species: Dolosigranulum pigrum

Strain Designation: R-91/1468, R91/1468

Culture col. no.: CIP 104051, ATCC 51524, IFO 15550, NCFB 2975, LMG 19521, KCTC 15002, CCUG 33392, LMG 15126, NBRC 15550, NCIMB 702975

Strain history: CIP <- 1997, NCFB <- PHLS: strain R91/1468

NCBI tax ID(s): 883103 (strain), 29394 (species)

SI-ID 8240

LMG 15126, ATCC 51524, CCUG 33392, CIP 104051, IFO 15550, LMG 19521, NCFB 2975, NCIMB 702975, NBRC 15550, KCTC 15002

Special Collections

Other strains from Dolosigranulum pigrum

Section

When using BacDive for research please cite our paper

Dolosigranulum pigrum R-91/1468 is an anaerobe, mesophilic, Gram-positive bacterium of the family Carnobacteriaceae.

Gram-positive
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	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Carnobacteriaceae*
	Genus	*Dolosigranulum*
	Species	**Dolosigranulum pigrum**
	Full Scientific Name (LPSN)	Dolosigranulum pigrum Aguirre et al. 1994

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive
[Ref.: #34923]	Gram stain	positive

[Ref.: #34923]	Cell shape	coccus-shaped

[Ref.: #34923]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #34923]

Culture medium

MEDIUM 74 - for Dolosigranulum pigrum

[Ref.: #34923]

Culture medium growth

[Ref.: #34923]

Culture medium composition

expand / minimize

[Ref.: #34923]

Culture medium

CIP Medium 90

[Ref.: #34923]

Culture medium growth

[Ref.: #34923]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #34923]		growth	37 °C
[Ref.: #34923]		growth	25-30 °C
[Ref.: #34923]	negative	growth	10 °C
[Ref.: #34923]	negative	growth	37 °C
[Ref.: #34923]	negative	growth	41 °C
[Ref.: #34923]	negative	growth	45 °C
[Ref.: #51495]		growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #51495]	Oxygen tolerance	anaerobe
[Ref.: #51495]	Oxygen tolerance	microaerophile
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #34923]	Oxygen tolerance	facultative anaerobe
[Ref.: #125439]	Oxygen tolerance	facultative anaerobe Confidence in %97.6

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #34923]		NaCl	no	growth	6.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #34923]	esculin ChEBI	-	hydrolysis
[Ref.: #34923]	hippurate ChEBI	-	hydrolysis
[Ref.: #34923]	nitrate ChEBI	-	reduction
[Ref.: #34923]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #34923]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #34923]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #34923]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	-	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #34923]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #34923]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #34923]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #34923]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #34923]	oxidase	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #34923]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

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

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #34923]	7781	-	-	+	+	-	+	-	-	-	+	+	+	-	-	-	-	-	+	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	90.91	20 of 22
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	pentose phosphate pathway	72.73	8 of 11
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	threonine metabolism	70	7 of 10
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	purine metabolism	63.83	60 of 94
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	degradation of hexoses	61.11	11 of 18
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	pyrimidine metabolism	60	27 of 45
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	aspartate and asparagine metabolism	55.56	5 of 9
[Ref.: #66794]	phenylalanine metabolism	53.85	7 of 13
[Ref.: #66794]	non-pathway related	52.63	20 of 38
[Ref.: #66794]	oxidative phosphorylation	50.55	46 of 91
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	gluconeogenesis	50	4 of 8
[Ref.: #66794]	methionine metabolism	50	13 of 26
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	lipid metabolism	48.39	15 of 31
[Ref.: #66794]	glutamate and glutamine metabolism	46.43	13 of 28
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	alanine metabolism	44.83	13 of 29
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	NAD metabolism	44.44	8 of 18
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	42.86	6 of 14
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of pentoses	42.86	12 of 28
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	starch degradation	40	4 of 10
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	isoleucine metabolism	37.5	3 of 8
[Ref.: #66794]	arginine metabolism	37.5	9 of 24
[Ref.: #66794]	tryptophan metabolism	36.84	14 of 38
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	citric acid cycle	28.57	4 of 14
[Ref.: #66794]	ubiquinone biosynthesis	28.57	2 of 7
[Ref.: #66794]	histidine metabolism	27.59	8 of 29
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	flavin biosynthesis	26.67	4 of 15
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	butanoate fermentation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	lysine metabolism	23.81	10 of 42
[Ref.: #66794]	isoprenoid biosynthesis	23.08	6 of 26
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	lipid A biosynthesis	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #51495]	Sample type/isolated from	Human spinal cord,removed at autopsy
[Ref.: #51495]	Geographic location (country and/or sea, region)	Colchester
[Ref.: #51495]	Country	United Kingdom
[Ref.: #51495]	Country ISO 3 Code	GBR
[Ref.: #51495]	Continent	Europe

[Ref.: #67771]	Sample type/isolated from	From human spinal cord, removed at autopsy
[Ref.: #67771]	Geographic location (country and/or sea, region)	Colchester
[Ref.: #67771]	Country	United Kingdom
[Ref.: #67771]	Country ISO 3 Code	GBR
[Ref.: #67771]	Continent	Europe

[Ref.: #34923]	Sample type/isolated from	Human, Acute multiple sclerosis
[Ref.: #34923]	Geographic location (country and/or sea, region)	Colchester General Hospital
[Ref.: #34923]	Country	United Kingdom
[Ref.: #34923]	Country ISO 3 Code	GBR
[Ref.: #34923]	Continent	Europe
[Ref.: #34923]	Isolation date	1988

[Ref.: #34923]	Country	United Kingdom
[Ref.: #34923]	Country ISO 3 Code	GBR
[Ref.: #34923]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host Body-Site	#Organ	#Spinal Cord
#Host	#Human	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence GU395995 (>99% sequence identity) for Dolosigranulum pigrum subclade from Microbeatlas

Aquatic Samples	2385
Soil Samples	1684
Animal Samples	28449
Plant Samples	728
Total Samples	33246

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

[Ref.: #34923]

Biosafety level

Risk group (French classification)

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.: #67771]	Dolosigranulum pigrum strain 33929-06 16S ribosomal RNA gene, partial sequence	GU395995	1375	GenBank ENA	29394 tax ID
[Ref.: #124043]	Dolosigranulum pigrum gene for 16S rRNA, partial sequence, strain: NBRC 15550.	AB680900	1472	GenBank ENA	29394 tax ID	*
[Ref.: #124043]	Dolosigranulum pigrum NBRC 15550 gene for 16S rRNA, partial sequence.	LC752391	588	GenBank ENA	29394 tax ID	*
[Ref.: #124043]	D.pigrum 16S rRNA gene (partial)	X70907	1523	GenBank ENA	29394 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Dolosigranulum pigrum ATCC 51524	GCA_000245815	scaffold	GenBank ENA	883103 tax ID	*
[Ref.: #66792]	Dolosigranulum pigrum ATCC 51524	883103.3	wgs	PATRIC	883103 tax ID	*
[Ref.: #66792]	Dolosigranulum pigrum ATCC 51524	2513237341	draft	JGI IMG/M	883103 tax ID	*

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: Dolosigranulum pigrum ATCC 51524 ATCC 51524 NCBI: GCA_000245815.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	89.299	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	87.121	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	91.507	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	81.565	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	92.453	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	86.5	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Dolosigranulum pigrum ATCC 51524 NCBI: GCA_000245815
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	87.6
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	60.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	72.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	facultative anaerobe	97.6

Availability in culture collections External links

[Ref.: #34923]

Culture collection no.

CIP 104051, ATCC 51524, IFO 15550, NCFB 2975, LMG 19521, KCTC 15002, CCUG 33392, LMG 15126, NBRC 15550, NCIMB 702975

[Ref.: #93023]

SI-ID 8240

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phenotypic and phylogenetic characterization of some Gemella-like organisms from human infections: description of Dolosigranulum pigrum gen. nov., sp. nov.	Aguirre M, Morrison D, Cookson BD, Gay FW, Collins MD	J Appl Bacteriol	10.1111/j.1365-2672.1993.tb01602.x	1993	*

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 )

#34923 Collection of Institut Pasteur ; Curators of the CIP; CIP 104051
#51495 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 33392

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68382

Automatically annotated from API zym .

#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 .

#93023

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-ID8240.1 )

#124043

Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

#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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Dolosigranulum pigrum ATCC 51524 ATCC 51524

Dolosigranulum pigrum ATCC 51524

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