Pediococcus pentosaceus (CCUG 28436, DSM 46292, CCM 822)

Name: Pediococcus pentosaceus (CCUG 28436, DSM 46292, CCM 822)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6394

Type strain

Strain Designation Coster R 3

Culture col. no. CCUG 28436 DSM 46292 CCM 822 IFO 12229 IMET 10900 3 more

NCBI tax ID(s) 1255

Special Collections DSMZ CCUG

History <- IMET <- CCM (Pediococcus cerevisiae) <- E. Coster

Links

Pediococcus pentosaceus Coster R 3 is a mesophilic prokaryote that was isolated from cheddar cheese.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 50799

CCUG 28436,CCM 822,DSM 46292,IMET 10900,VKM B-583,NBRC 12229,BCRC 14015,CCRC 14015,IFO 12229

@ref 20215

Last LPSN update 2026-02-09 11:19:12

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Pediococcus

Species Pediococcus pentosaceus

Full scientific name Pediococcus pentosaceus Mees 1934 (Approved Lists 1980)

BacDive ID	Other strains from **Pediococcus pentosaceus** (40)	Type strain
6393	P. pentosaceus DSM 20336, ATCC 33316, NCDO 990, WDCM 00158, ... (type strain)
6388	P. pentosaceus 32, DSM 20206, ATCC 8081, CCM 1578, NCDO ...
6389	P. pentosaceus 243d, DSM 20280
6390	P. pentosaceus 260a, DSM 20281
6391	P. pentosaceus 247c, DSM 20283
6392	P. pentosaceus P. lin, DSM 20333, ATCC 33314, IFO 3884, ...
130992	P. pentosaceus JM-6755-f-WT, JM-80, DSM 28628
136079	P. pentosaceus CIP 102333
136495	P. pentosaceus CIP 54.91
136496	P. pentosaceus CIP 54.92, ATCC 10791, NCDO 814, NCTC 8066, ...
137006	P. pentosaceus 2001886, CIP 109663
137941	P. pentosaceus CIP 102244
143847	P. pentosaceus CCUG 21536, CCM 2483, ATCC 25745
145700	P. pentosaceus CCUG 29309
148603	P. pentosaceus CCUG 35694
149148	P. pentosaceus CCUG 36942
149342	P. pentosaceus CCUG 37545
149378	P. pentosaceus CCUG 37613
149422	P. pentosaceus CCUG 37701
149670	P. pentosaceus CCUG 38155
150415	P. pentosaceus CCUG 39851
150614	P. pentosaceus CCUG 41759
151859	P. pentosaceus CCUG 45064
152965	P. pentosaceus CCUG 48142
153377	P. pentosaceus CCUG 49383
162731	P. pentosaceus JCM 20076, IAM 1150
162816	P. pentosaceus JCM 2023, TISTR 414
162818	P. pentosaceus JCM 2024, TISTR 415
162831	P. pentosaceus JCM 2026
162843	P. pentosaceus JCM 2028
162847	P. pentosaceus JCM 2029
162855	P. pentosaceus JCM 2030
162865	P. pentosaceus JCM 2031
162869	P. pentosaceus JCM 20314, IAM 10073, IAM 12285
162932	P. pentosaceus JCM 20452, IAM 12293, IFO 3893, NBRC 3893, ...
162933	P. pentosaceus JCM 20453, IAM 12294
162936	P. pentosaceus JCM 20457, IAM 12298, NCDO 992
162937	P. pentosaceus JCM 20458, IAM 12299, NISL 7108
162938	P. pentosaceus JCM 20459, IAM 12300, IFO 3892, NBRC 3892, ...
173384	P. pentosaceus 7837, CRBIP24.170

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		91
125438		94.986	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
12507	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
12507	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	microaerophile	95.6

Spore formation

@ref	Spore formation	Confidence
125438		90.612

Fatty acid profile

Metadata FA analysis

@ref

49239

Fatty acid	Percentage	ECL
C18:1 ω7c /12t/9t	36.6	17.824
C16:0	28.9	16
C18:2 ω6,9c/C18:0 ANTE	12.8	17.724
C16:1 ω7c	7.9	15.819
C19:0 CYCLO ω9c	5.4	18.87
C18:1 ω9c	2.2	17.769
C18:0	2	18
C19:0	1.6	19
C14:0	1.4	14
C17:0 CYCLO	1.2	16.888

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Food production	#Dairy product

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
12507	cheddar cheese	New Zealand	NZL	Australia and Oceania
49239	Cheese,New Zealand Cheddar

Taxonmaps

69479

Global distribution of 16S sequence AB680264 (>99% sequence identity) for Pediococcus from Microbeatlas

Aquatic Samples	2228
Soil Samples	2103
Animal Samples	26184
Plant Samples	1535
Total Samples	32050

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
12507	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	NCBI tax ID	Score
66792	ASM1561326v1 assembly for Pediococcus pentosaceus DSM 46292	scaffold	GCA_015613265	1255.184	1255	65.62

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Pediococcus pentosaceus gene for 16S rRNA, partial sequence, strain: NBRC 12229	AB680264	1503		1255

GC content

12507

GC-content (mol%)38.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pediococcus pentosaceus DSM 46292
NCBI: GCA_015613265

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	microaerophile	95.60	no
125439	gram_stain	BacteriaNetⓘ	positive	72.00	no
125439	motility	BacteriaNetⓘ	yes	55.50	no
125439	spore_formation	BacteriaNetⓘ	yes	68.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pediococcus pentosaceus DSM 46292
NCBI: GCA_015613265.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.99	no
125438	anaerobic	anaerobicⓘ	no	85.52	no
125438	aerobic	aerobicⓘ	no	96.49	no
125438	spore-forming	spore-formingⓘ	no	90.61	no
125438	thermophilic	thermophileⓘ	no	97.49	yes
125438	flagellated	motile2+ⓘ	no	91.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Characterization of genomic DNA of lactic acid bacteria for activation of plasmacytoid dendritic cells.	Horie A, Tomita Y, Ohshio K, Fujiwara D, Fujii T.	BMC Microbiol	10.1186/s12866-019-1458-y	2019

References

#12507	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 46292
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#49239	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 28436
#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 )

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Pediococcus pentosaceus (CCUG 28436, DSM 46292, CCM 822)

Name and taxonomic classification