Pediococcus acidilactici (DSM 25404, 7/4A, 7_4)

Name: Pediococcus acidilactici (DSM 25404, 7/4A, 7_4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 139767

Type strain

Strain Designation 7/4A, 7_4

Culture col. no. DSM 25404 7/4A 7_4

NCBI tax ID(s) 1254

Special Collections DSMZ

History <- E. Allen-Vercoe, Univ. Guelph, Ontario, Canada; 7_4

Links

Pediococcus acidilactici 7/4A is a mesophilic prokaryote that was isolated from clinical sample, human gut biopsy.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 405129

DSM 25404

@ref 20215

Last LPSN update 2026-02-09 11:33:25

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Pediococcus

Species Pediococcus acidilactici

Full scientific name Pediococcus acidilactici Lindner 1887 (Approved Lists 1980)

Synonyms (1)

Pediococcus lolii

BacDive ID	Other strains from **Pediococcus acidilactici** (33)	Type strain
6381	P. acidilactici B213c, B213 c. Barley, DSM 20284, KCTC 13734, ... (type strain)
6379	P. acidilactici DSM 19927, JCM 15055, LMG 27029, NGRI 0510Q, ...
6380	P. acidilactici P-60, DSM 20238, ATCC 8042, CCM 2425, NCDO ...
100075	P. acidilactici STI09053(IMET), 1028-003,
100076	P. acidilactici STI09054(IMET), 1028-004,
100077	P. acidilactici STI09055(IMET), 1028-005,
100078	P. acidilactici STI09057(IMET), 1029-025,
137862	P. acidilactici 906-85, CIP 101954
137940	P. acidilactici CIP 102243
137969	P. acidilactici CIP 102334
141184	P. acidilactici CCUG 35
144734	P. acidilactici CCUG 26412
145344	P. acidilactici CCUG 28233
145422	P. acidilactici CCUG 28437, CCM 2482, ATCC 25743
146139	P. acidilactici CCUG 30439
147105	P. acidilactici CCUG 32870
150103	P. acidilactici CCUG 38997
151898	P. acidilactici CCUG 45146
152315	P. acidilactici CCUG 46409
153422	P. acidilactici CCUG 49523
155338	P. acidilactici CCUG 57368
155826	P. acidilactici CCUG 59409
162780	P. acidilactici JCM 2014
162858	P. acidilactici JCM 20303, IAM 10061
162874	P. acidilactici JCM 2032, TISTR 424
162927	P. acidilactici JCM 20445, IAM 12283, IFO 3888, NBRC 3888, ...
162931	P. acidilactici JCM 20451, IAM 12292
162934	P. acidilactici JCM 20454, IAM 12295, NCDO 991
162935	P. acidilactici JCM 20456, IAM 12297, NISL 7114
162941	P. acidilactici JCM 20463, IAM 12304
170952	P. acidilactici CRBIP24.174
174542	P. acidilactici 114637, DSM 114637
174543	P. acidilactici AGR20, DSM 117464

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		90.5
125438		93.07	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
42377	MRS MEDIUM (DSMZ Medium 11)		Medium recipe at MediaDive	Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
42377	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	microaerophile	94.8

Spore formation

@ref	Spore formation	Confidence
125438		90.857

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	+	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	+	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	+	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	+	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	+	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
42377	-	-	-	-	-	+	+	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	-	-	-	-	+	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Gastrointestinal tract	#Stomach
#Infection	#Medical environment	#Clinic
#Infection	#Patient	#Biopsy

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
42377	clinical sample, human gut biopsy	Calgary, Alberta	Canada	CAN	North America

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
42377	yes, in single cases	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM16309v1 assembly for Pediococcus acidilactici 7_4	scaffold	GCA_000163095	563194.3	647533194	563194	72.67

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pediococcus acidilactici 7_4
NCBI: GCA_000163095

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	79.40	no
125439	motility	BacteriaNetⓘ	yes	65.80	no
125439	gram_stain	BacteriaNetⓘ	variable	75.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	94.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pediococcus acidilactici 7_4 7_4
NCBI: GCA_000163095.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.07	no
125438	anaerobic	anaerobicⓘ	no	84.54	no
125438	aerobic	aerobicⓘ	no	96.94	no
125438	spore-forming	spore-formingⓘ	no	90.86	no
125438	thermophilic	thermophileⓘ	no	97.50	no
125438	flagellated	motile2+ⓘ	no	90.50	no

Literature

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 )
#42377	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25404
#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) .
#68371	Automatically annotated from API 50CH acid .
#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 )

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