Pediococcus pentosaceus (CCUG 21536, CCM 2483, ATCC 25745)

Name: Pediococcus pentosaceus (CCUG 21536, CCM 2483, ATCC 25745)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 143847

Type strain

Culture col. no. CCUG 21536 CCM 2483 ATCC 25745

NCBI tax ID(s) 278197 1255

Special Collections CCUG

Links

Pediococcus pentosaceus CCUG 21536 is a bacterium that was isolated from Plants.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 92370

LMG 10740,ATCC 25745,CCM 2483,CCUG 21536

@ref 20215

Last LPSN update 2026-05-29 08:40:32

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, ...
6394	P. pentosaceus Coster R 3, CCUG 28436, DSM 46292, CCM 822, ...
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
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		92
125438		94.801	positive

Culture and growth conditions

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	95.894

Spore formation

@ref	Spore formation	Confidence
125438		93.717

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68381	40585 ChEBI	alpha-cyclodextrin	-	builds acid from	from API rID32STR
68381	29016 ChEBI	arginine	+	hydrolysis	from API rID32STR
68381	18333 ChEBI	D-arabitol	-	builds acid from	from API rID32STR
68381	16899 ChEBI	D-mannitol	-	builds acid from	from API rID32STR
68381	16988 ChEBI	D-ribose	-	builds acid from	from API rID32STR
68381	16443 ChEBI	D-tagatose	-	builds acid from	from API rID32STR
68381	28087 ChEBI	glycogen	-	builds acid from	from API rID32STR
68381	606565 ChEBI	hippurate	+	hydrolysis	from API rID32STR
68381	30849 ChEBI	L-arabinose	-	builds acid from	from API rID32STR
68381	17716 ChEBI	lactose	-	builds acid from	from API rID32STR
68381	17306 ChEBI	maltose	-	builds acid from	from API rID32STR
68381	6731 ChEBI	melezitose	-	builds acid from	from API rID32STR
68381	28053 ChEBI	melibiose	-	builds acid from	from API rID32STR
68381	320055 ChEBI	methyl beta-D-glucopyranoside	-	builds acid from	from API rID32STR
68381	27941 ChEBI	pullulan	-	builds acid from	from API rID32STR
68381	16634 ChEBI	raffinose	-	builds acid from	from API rID32STR
68381	30911 ChEBI	sorbitol	-	builds acid from	from API rID32STR
68381	17992 ChEBI	sucrose	-	builds acid from	from API rID32STR
68381	27082 ChEBI	trehalose	+	builds acid from	from API rID32STR
68381	16199 ChEBI	urea	-	hydrolysis	from API rID32STR

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68381	15688 ChEBI	acetoin		from API rID32STR

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
68381	15688 ChEBI	acetoin	+	from API rID32STR

Enzymes

@ref	Value	Activity	Ec
68381	Alanyl-Phenylalanyl-Proline arylamidase	+		from API rID32STR
68381	alkaline phosphatase	-	3.1.3.1	from API rID32STR
68381	alpha-galactosidase	+	3.2.1.22	from API rID32STR
68381	arginine dihydrolase	+	3.5.3.6	from API rID32STR
68381	beta-galactosidase	+	3.2.1.23	from API rID32STR
68381	beta-glucosidase	+	3.2.1.21	from API rID32STR
68381	beta-glucuronidase	-	3.2.1.31	from API rID32STR
68381	beta-mannosidase	-	3.2.1.25	from API rID32STR
68381	glycyl tryptophan arylamidase	-		from API rID32STR
68381	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API rID32STR
68381	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32STR
68381	urease	-	3.5.1.5	from API rID32STR

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	acetate fermentation	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	acetoin degradation	100	3 of 3
66794	folate polyglutamylation	100	1 of 1
66794	teichoic acid biosynthesis	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	vitamin B1 metabolism	84.62	11 of 13
66794	lipoate biosynthesis	80	4 of 5
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	flavin biosynthesis	73.33	11 of 15
66794	pentose phosphate pathway	72.73	8 of 11
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	photosynthesis	71.43	10 of 14
66794	pyrimidine metabolism	71.11	32 of 45
66794	glycolysis	70.59	12 of 17
66794	purine metabolism	70.21	66 of 94
66794	phenylalanine metabolism	69.23	9 of 13
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	cyanate degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	ketogluconate metabolism	62.5	5 of 8
66794	C4 and CAM-carbon fixation	62.5	5 of 8
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	threonine metabolism	60	6 of 10
66794	glycogen metabolism	60	3 of 5
66794	cellulose degradation	60	3 of 5
66794	non-pathway related	57.89	22 of 38
66794	degradation of pentoses	57.14	16 of 28
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	valine metabolism	55.56	5 of 9
66794	serine metabolism	55.56	5 of 9
66794	NAD metabolism	55.56	10 of 18
66794	oxidative phosphorylation	53.85	49 of 91
66794	methionine metabolism	50	13 of 26
66794	butanoate fermentation	50	2 of 4
66794	ethanol fermentation	50	1 of 2
66794	gluconeogenesis	50	4 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
66794	sulfopterin metabolism	50	2 of 4
66794	lactate fermentation	50	2 of 4
66794	suberin monomers biosynthesis	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	glutamate and glutamine metabolism	46.43	13 of 28
66794	d-xylose degradation	45.45	5 of 11
66794	CO2 fixation in Crenarchaeota	44.44	4 of 9
66794	d-mannose degradation	44.44	4 of 9
66794	mevalonate metabolism	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	creatinine degradation	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	urea cycle	38.46	5 of 13
66794	isoleucine metabolism	37.5	3 of 8
66794	proline metabolism	36.36	4 of 11
66794	tetrahydrofolate metabolism	35.71	5 of 14
66794	lipid metabolism	35.48	11 of 31
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	lipid A biosynthesis	33.33	3 of 9
66794	arginine metabolism	33.33	8 of 24
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	octane oxidation	33.33	1 of 3
66794	chorismate metabolism	33.33	3 of 9
66794	lysine metabolism	33.33	14 of 42
66794	sphingosine metabolism	33.33	2 of 6
66794	enterobactin biosynthesis	33.33	1 of 3
66794	degradation of sugar alcohols	31.25	5 of 16
66794	leucine metabolism	30.77	4 of 13
66794	starch degradation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	Entner Doudoroff pathway	30	3 of 10
66794	propionate fermentation	30	3 of 10
66794	tryptophan metabolism	28.95	11 of 38
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	citric acid cycle	28.57	4 of 14
66794	glutathione metabolism	28.57	4 of 14
66794	cysteine metabolism	27.78	5 of 18
66794	alanine metabolism	27.59	8 of 29
66794	metabolism of disaccharids	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	isoprenoid biosynthesis	26.92	7 of 26
66794	glycogen biosynthesis	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	cyclohexanol degradation	25	1 of 4
66794	dTDPLrhamnose biosynthesis	25	2 of 8
66794	CMP-KDO biosynthesis	25	1 of 4
66794	sulfate reduction	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	tyrosine metabolism	21.43	3 of 14
66794	histidine metabolism	20.69	6 of 29

Fatty acid profile

Metadata FA analysis

@ref

47425

Fatty acid	Percentage	ECL
C18:1 ω7c /12t/9t	41.3	17.824
C16:0	38.9	16
C18:2 ω6,9c/C18:0 ANTE	9.9	17.724
C19:0 CYCLO ω9c	6.7	18.87
C16:1 ω7c	2.2	15.819
C14:0	1.1	14

API rID32STR

@ref	ADH (Arg)	beta GLU	beta GAR	beta GUR	alpha GAL	PAL	RIB	MAN	SOR	LAC	TRE	RAF	SAC	LARA	DARL	Acid from alpha-cyclodextrinCDEX	Acetoin production (Voges Proskauer test)VP	Alanyl-Phenylalanyl-Proline arylamidaseAPPA	beta GAL	Pyrrolidonyl arylamidasePyrA	N-Acetyl-glucosaminidasebeta NAG	Glycyl-tryptophan arylamidaseGTA	HIP	GLYG	PUL	MAL	MEL	MLZ	Acidification of methyl beta-D-glucopyranosideMbeta DG	TAG	beta MAN	URE
47425	+	+	-	-	+	-	-	-	-	-	+	-	-	-	-	-	+	+	+	-	+	-	+	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Host	#Plants

Isolation

47425

Sample typePlants

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1450v1 assembly for Pediococcus pentosaceus ATCC 25745	complete	GCA_000014505	278197.12	639633049	278197	99.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1450v1 assembly for Pediococcus pentosaceus ATCC 25745
BV-BRC: 278197.12

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	95.89	no
125439	gram_stain	BacteriaNetⓘ	variable	58.56	no
125439	spore_formation	BacteriaNetⓘ	yes	82.72	no
125439	motility	BacteriaNetⓘ	yes	74.38	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pediococcus pentosaceus ATCC 25745 ATCC 25745
NCBI: GCA_000014505.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.80	no
125438	anaerobic	anaerobicⓘ	no	85.86	no
125438	aerobic	aerobicⓘ	no	96.41	no
125438	spore-forming	spore-formingⓘ	no	93.72	no
125438	thermophilic	thermophileⓘ	no	97.00	no
125438	flagellated	motile2+ⓘ	no	92.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Complete genome sequence of Pediococcus pentosaceus 13.7 2A-1 isolated from a Holstein Friesian dairy cattle.	Mariani Corea N, Titgemeyer F, Wachtarczyk J, Meyer F, Fischer SW.	Microbiol Resour Announc	10.1128/mra.00848-25	2025
Genetics	Genomic Analysis for the Safety Assessment of a Potential Probiotic Strain Pediococcus pentosaceus BBS1 Isolated From Lao Fermented Bamboo Shoots (Nor Mai Som).	Botthoulath V, Dalmacio IF, Elegado FB, Uy LY, Lin HC.	Microbiologyopen	10.1002/mbo3.70048	2025
Metabolism	Protective Effect of Pediococcus pentosaceus Li05 on Constipation via TGR5/TPH1/5-HT Activation.	Chen H, Wang F, Li S, Lv L, Xu H, Xia J, Xu L, Shi D, Li L.	Microb Biotechnol	10.1111/1751-7915.70257	2025
	Antimicrobial activity of Pediococcus pentosaceus strains against diarrheal pathogens isolated from pigs and effect on paracellular permeability of HT-29 cells	Cho E, Yoo Y, Yoon Y.	J Anim Sci Technol		2025
Genetics	Comparative Analyses of Pediococcus pentosaceus Strains Isolated from Milk Cattle Reveal New Insights for Screening Food-Protective Cultures.	Fischer SW, Mariani Corea N, Euler A, Bertels L, Titgemeyer F.	Microorganisms	10.3390/microorganisms13102244	2025
	Effects of Lactiplantibacillus plantarum LM1215 on Candida albicans and Gardnerella vaginalis.	Bae WY, Lee YJ, Jo S, Shin SL, Kim TR, Sohn M, Seol HJ.	Yonsei Med J	10.3349/ymj.2023.0490	2024
Genetics	Pediococcus pentosaceus IMI 507025 genome sequencing data.	Nikodinoska I, Makkonen J, Blande D, Moran C.	Data Brief	10.1016/j.dib.2022.108446	2022
Genetics	Whole-genome analysis suggesting probiotic potential and safety properties of Pediococcus pentosaceus DSPZPP1, a promising LAB strain isolated from traditional fermented sausages of the Basilicata region (Southern Italy).	Tathode MS, Bonomo MG, Zappavigna S, Mang SM, Bocchetti M, Camele I, Caraglia M, Salzano G.	Front Microbiol	10.3389/fmicb.2024.1268216	2024
	Relationship between Microbial Composition of Sourdough and Texture, Volatile Compounds of Chinese Steamed Bread.	Fu L, Nowak A, Zhao H, Zhang B.	Foods	10.3390/foods11131908	2022
	Draft Genome Sequence of Pediococcus pentosaceus Strain PP16CC, Isolated from Oyster Crassostrea corteziensis.	Hernandez-Gonzalez JA, Vazquez-Juarez R, Vazquez-Guillen JM, Rangel-Davalos C, Rodriguez-Padilla C, Rojas M.	Microbiol Resour Announc	10.1128/mra.00395-22	2022
	Draft Genome Sequence of Pediococcus pentosaceus IMI 507024.	Nikodinoska I, Makkonen J, Blande D, Moran C.	Microbiol Resour Announc	10.1128/mra.01216-21	2022
Genetics	Genomic characterization and probiotic potential assessment of an exopolysaccharide-producing strain Pediococcus pentosaceus LL-07 isolated from fermented meat.	Lu K, Wang X, Zhou Y, Zhu Q.	BMC Microbiol	10.1186/s12866-024-03304-6	2024
Metabolism	Genomic and functional characterization of bacteriocinogenic lactic acid bacteria isolated from Boza, a traditional cereal-based beverage.	Queiroz LL, Hoffmann C, Lacorte GA, de Melo Franco BDG, Todorov SD.	Sci Rep	10.1038/s41598-022-05086-1	2022
	Antimicrobial, Probiotic, and Immunomodulatory Potential of Cannabis sativa Extract and Delivery Systems.	Stasilowicz-Krzemien A, Szymanowska D, Szulc P, Cielecka-Piontek J.	Antibiotics (Basel)	10.3390/antibiotics13040369	2024
	Safety and efficacy of a feed additive consisting of Pediococcus pentosaceusIMI 507024 for all animal species (ALL-TECHNOLOGY (IRELAND) LIMITED [Alltech Ireland]).	EFSA Panel on Additives and Products or Substances used in Animal Feed (FEEDAP), Bampidis V, Azimonti G, Bastos ML, Christensen H, Dusemund B, Fasmon Durjava M, Kouba M, Lopez-Alonso M, Lopez Puente S, Marcon F, Mayo B, Pechova A, Petkova M, Ramos F, Ramos F, Sanz Y, Villa RE, Woutersen R, Cocconcelli PS, Glandorf B, Maradona MP, Saarela M, Brozzi R, Galobart J, Innocenti M, Revez J.	EFSA J	10.2903/j.efsa.2021.6701	2021
	Prebiotic Systems Containing Anthocyanin-Rich Pomegranate Flower Extracts with Antioxidant and Antidiabetic Effects.	Gosciniak A, Rosiak N, Szymanowska D, Miklaszewski A, Cielecka-Piontek J.	Pharmaceutics	10.3390/pharmaceutics16040526	2024
	Draft Genome Sequence of Pediococcus pentosaceus Strain FBL2, a Probiotic Bacterium Isolated from Jogaejeot, a Salted Fermented Food, in the Republic of Korea.	Kim E, Kim JH, Park SB, Kim MJ, Kim HJ, Kim CG, Choo DW, Kim HY.	Genome Announc	10.1128/genomea.00303-17	2017
Enzymology	Biological characterization of D-lactate dehydrogenase responsible for high-yield production of D-phenyllactic acid in Sporolactobacillus inulinus.	Cheng YY, Park TH, Seong H, Kim TJ, Han NS.	Microb Biotechnol	10.1111/1751-7915.14125	2022
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
	Complete Genome Sequence of Pediococcus pentosaceus Strain SL4.	Dantoft SH, Bielak EM, Seo JG, Chung MJ, Jensen PR.	Genome Announc	10.1128/genomea.01106-13	2013
	Pediococcus pentosaceus, a future additive or probiotic candidate.	Jiang S, Cai L, Lv L, Li L.	Microb Cell Fact	10.1186/s12934-021-01537-y	2021
	A New Isolate of Pediococcus pentosaceus (SL001) With Antibacterial Activity Against Fish Pathogens and Potency in Facilitating the Immunity and Growth Performance of Grass Carps.	Gong L, He H, Li D, Cao L, Khan TA, Li Y, Pan L, Yan L, Ding X, Sun Y, Zhang Y, Yi G, Hu S, Xia L.	Front Microbiol	10.3389/fmicb.2019.01384	2019
Genetics	Comparative Genomic Analysis Reveals the Functional Traits and Safety Status of Lactic Acid Bacteria Retrieved from Artisanal Cheeses and Raw Sheep Milk.	Apostolakos I, Paramithiotis S, Mataragas M.	Foods	10.3390/foods12030599	2023
Genetics	Characterization of the LP28 strain-specific exopolysaccharide biosynthetic gene cluster found in the whole circular genome of Pediococcus pentosaceus.	Yasutake T, Kumagai T, Inoue A, Kobayashi K, Noda M, Orikawa A, Matoba Y, Sugiyama M.	Biochem Biophys Rep	10.1016/j.bbrep.2016.01.004	2016
	Draft Genome Sequences of the Type Strains of Six Macrococcus Species.	Mazhar S, Altermann E, Hill C, McAuliffe O.	Microbiol Resour Announc	10.1128/mra.00344-19	2019
Transcriptome	Genome sequence of Pediococcus pentosaceus strain IE-3.	Midha S, Ranjan M, Sharma V, Kumari A, Singh PK, Korpole S, Patil PB.	J Bacteriol	10.1128/jb.00897-12	2012
	Lactic acid bacteria isolated from raw and fermented pork products: Identification and characterization of catalase-producing Pediococcus pentosaceus.	Nanasombat S, Treebavonkusol P, Kittisrisopit S, Jaichalad T, Phunpruch S, Kootmas A, Nualsri I.	Food Sci Biotechnol	10.1007/s10068-017-0023-4	2017
Genetics	Comparative Genomics of Pediococcus pentosaceus Isolated From Different Niches Reveals Genetic Diversity in Carbohydrate Metabolism and Immune System.	Jiang J, Yang B, Ross RP, Stanton C, Zhao J, Zhang H, Chen W.	Front Microbiol	10.3389/fmicb.2020.00253	2020
Genetics	Information Theoretic Metagenome Assembly Allows the Discovery of Disease Biomarkers in Human Microbiome.	Nalbantoglu OU.	Entropy (Basel)	10.3390/e23020187	2021
	Metatranscriptomics Reveals Sequential Expression of Genes Involved in the Production of Melanogenesis Inhibitors by the Defined Microbial Species in Fermented Unpolished Black Rice.	Sangkaew O, Prombutara P, Roytrakul S, Yompakdee C.	Microbiol Spectr	10.1128/spectrum.03139-22	2023
Metabolism	Catabolism of serine by Pediococcus acidilactici and Pediococcus pentosaceus.	Irmler S, Bavan T, Oberli A, Roetschi A, Badertscher R, Guggenbuhl B, Berthoud H.	Appl Environ Microbiol	10.1128/aem.03085-12	2013
	Draft Genome Sequence of the Pediocin-Encoding Biopreservative and Biocontrol Strain Pediococcus acidilactici D3.	Sturino JM, Rajendran M, Altermann E.	Genome Announc	10.1128/genomea.00208-13	2013
Genetics	Draft genome sequence of probiotic strain Pediococcus acidilactici MA18/5M.	Barreau G, Tompkins TA, de Carvalho VG.	J Bacteriol	10.1128/jb.06563-11	2012
Metabolism	Screening of lactic acid bacteria for their potential as microbial cell factories for bioconversion of lignocellulosic feedstocks.	Boguta AM, Bringel F, Martinussen J, Jensen PR.	Microb Cell Fact	10.1186/s12934-014-0097-0	2014
	Tracking microbial evolution in the human gut using Hi-C reveals extensive horizontal gene transfer, persistence and adaptation.	Yaffe E, Relman DA.	Nat Microbiol	10.1038/s41564-019-0625-0	2020
	Structural analysis and biochemical properties of laccase enzymes from two Pediococcus species.	Olmeda I, Casino P, Collins RE, Sendra R, Callejon S, Huesa J, Soares AS, Ferrer S, Pardo I.	Microb Biotechnol	10.1111/1751-7915.13751	2021
	Substrate Specificity and Allosteric Regulation of a D-Lactate Dehydrogenase from a Unicellular Cyanobacterium are Altered by an Amino Acid Substitution.	Ito S, Takeya M, Osanai T.	Sci Rep	10.1038/s41598-017-15341-5	2017
Genetics	Genomic Insight into Pediococcus acidilactici HN9, a Potential Probiotic Strain Isolated from the Traditional Thai-Style Fermented Beef Nhang.	Surachat K, Kantachote D, Deachamag P, Wonglapsuwan M.	Microorganisms	10.3390/microorganisms9010050	2020
Genetics	A concurrent subtractive assembly approach for identification of disease associated sub-metagenomes.	Han W, Wang M, Ye Y.	Res Comput Mol Biol	10.1007/978-3-319-56970-3_2	2017
Metabolism	Complex structure and biochemical characterization of the Staphylococcus aureus cyclic diadenylate monophosphate (c-di-AMP)-binding protein PstA, the founding member of a new signal transduction protein family.	Campeotto I, Zhang Y, Mladenov MG, Freemont PS, Grundling A.	J Biol Chem	10.1074/jbc.m114.621789	2015
	Complete genome sequence of Lactobacillus plantarum JDM1.	Zhang ZY, Liu C, Zhu YZ, Zhong Y, Zhu YQ, Zheng HJ, Zhao GP, Wang SY, Guo XK.	J Bacteriol	10.1128/jb.00587-09	2009
Enzymology	Genetic screening of functional properties of lactic acid bacteria in a fermented pearl millet slurry and in the metagenome of fermented starchy foods.	Turpin W, Humblot C, Guyot JP.	Appl Environ Microbiol	10.1128/aem.05988-11	2011
	Reduction of catechin, rutin, and quercetin levels by interaction with food-related microorganisms in a resting state	LoCascio RG, Mills DA, Waterhouse AL.	J Sci Food Agric	10.1002/jsfa.2583	2006
	Potency of lactic acid bacteria isolated from balinese bovine (Bos sondaicus) intestinal waste from slaughterhouse to improve nutrient content of wheat pollard as animal feedstuff by fermentation process.	Lokapirnasari WP, Sahidu AM, Soepranianondo K, Supriyanto A, Yulianto AB, Al Arif A.	Vet World	10.14202/vetworld.2018.1127-1134	2018
	Subtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes.	Wang M, Doak TG, Ye Y.	Genome Biol	10.1186/s13059-015-0804-0	2015
	Role of hypermutability in the evolution of the genus Oenococcus.	Marcobal AM, Sela DA, Wolf YI, Makarova KS, Mills DA.	J Bacteriol	10.1128/jb.01457-07	2008
	Culture-independent bacterial community analysis of the salty-fermented fish paste products of Thailand and Laos.	Marui J, Boulom S, Panthavee W, Momma M, Kusumoto K, Nakahara K, Saito M.	Biosci Microbiota Food Health	10.12938/bmfh.2014-018	2015
	Isolation and Characterization of Chromium(VI)-Reducing Bacteria from Tannery Effluents.	Ilias M, Rafiqullah IM, Debnath BC, Mannan KS, Mozammel Hoq M.	Indian J Microbiol	10.1007/s12088-011-0095-4	2011
	Analysis of EAWAG-BBD pathway prediction system for the identification of malathion degrading microbes.	Sivakumar S, Anitha P, Ramesh B, Suresh G.	Bioinformation	10.6026/97320630013073	2017
	Agdc1p - a Gallic Acid Decarboxylase Involved in the Degradation of Tannic Acid in the Yeast Blastobotrys (Arxula) adeninivorans.	Meier AK, Worch S, Boer E, Hartmann A, Mascher M, Marzec M, Scholz U, Riechen J, Baronian K, Schauer F, Bode R, Kunze G.	Front Microbiol	10.3389/fmicb.2017.01777	2017
	Fermentation of xylo-oligosaccharides obtained from wheat bran and Bengal gram husk by lactic acid bacteria and bifidobacteria.	Madhukumar MS, Muralikrishna G.	J Food Sci Technol	10.1007/s13197-010-0226-7	2012
Metabolism	Evolutionary history of the OmpR/IIIA family of signal transduction two component systems in Lactobacillaceae and Leuconostocaceae.	Zuniga M, Gomez-Escoin CL, Gonzalez-Candelas F.	BMC Evol Biol	10.1186/1471-2148-11-34	2011
	Prebiotic Activity of Purified Xylobiose Obtained from Ragi (Eleusine coracana, Indaf-15) Bran.	Manisseri C, Gudipati M.	Indian J Microbiol	10.1007/s12088-011-0176-4	2012
Metabolism	Enterococcus faecalis reconfigures its transcriptional regulatory network activation at different copper levels.	Latorre M, Galloway-Pena J, Roh JH, Budinich M, Reyes-Jara A, Murray BE, Maass A, Gonzalez M.	Metallomics	10.1039/c3mt00288h	2014
Metabolism	Identification, characterization, and structure analysis of the cyclic di-AMP-binding PII-like signal transduction protein DarA.	Gundlach J, Dickmanns A, Schroder-Tittmann K, Neumann P, Kaesler J, Kampf J, Herzberg C, Hammer E, Schwede F, Kaever V, Tittmann K, Stulke J, Ficner R.	J Biol Chem	10.1074/jbc.m114.619619	2015
	Class IIa bacteriocins: diversity and new developments.	Cui Y, Zhang C, Wang Y, Shi J, Zhang L, Ding Z, Qu X, Cui H.	Int J Mol Sci	10.3390/ijms131216668	2012
	Heme and menaquinone induced electron transport in lactic acid bacteria.	Brooijmans R, Smit B, Santos F, van Riel J, de Vos WM, Hugenholtz J.	Microb Cell Fact	10.1186/1475-2859-8-28	2009
Pathogenicity	Bactofencin A, a new type of cationic bacteriocin with unusual immunity.	O'Shea EF, O'Connor PM, O'Sullivan O, Cotter PD, Ross RP, Hill C.	mBio	10.1128/mbio.00498-13	2013
	Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food.	Yan X, Gurtler JB, Fratamico PM, Hu J, Juneja VK.	Cell Biosci	10.1186/2045-3701-2-39	2012
	Functional Comparison of Bacteria from the Human Gut and Closely Related Non-Gut Bacteria Reveals the Importance of Conjugation and a Paucity of Motility and Chemotaxis Functions in the Gut Environment.	Dobrijevic D, Abraham AL, Jamet A, Maguin E, van de Guchte M.	PLoS One	10.1371/journal.pone.0159030	2016
Metabolism	Extracellular electron transfer increases fermentation in lactic acid bacteria via a hybrid metabolism.	Tejedor-Sanz S, Stevens ET, Li S, Finnegan P, Nelson J, Knoesen A, Light SH, Ajo-Franklin CM, Marco ML.	Elife	10.7554/elife.70684	2022
	Pediocins: The bacteriocins of Pediococci. Sources, production, properties and applications.	Papagianni M, Anastasiadou S.	Microb Cell Fact	10.1186/1475-2859-8-3	2009
Metabolism	Origin of the putrescine-producing ability of the coagulase-negative bacterium Staphylococcus epidermidis 2015B.	Coton E, Mulder N, Coton M, Pochet S, Trip H, Lolkema JS.	Appl Environ Microbiol	10.1128/aem.00441-10	2010
	An endogenous factor enhances ferulic acid decarboxylation catalyzed by phenolic acid decarboxylase from Candida guilliermondii.	Huang HK, Chen LF, Tokashiki M, Ozawa T, Taira T, Ito S.	AMB Express	10.1186/2191-0855-2-4	2012
Genetics	Phylogenetic analysis and comparative genomics of purine riboswitch distribution in prokaryotes.	Singh P, Sengupta S.	Evol Bioinform Online	10.4137/ebo.s10048	2012
Metabolism	The abi proteins and their involvement in bacteriocin self-immunity.	Kjos M, Snipen L, Salehian Z, Nes IF, Diep DB.	J Bacteriol	10.1128/jb.01553-09	2010
Enzymology	Molecular characterization of two lactate dehydrogenase genes with a novel structural organization on the genome of Lactobacillus sp. strain MONT4.	Weekes J, Yuksel GU.	Appl Environ Microbiol	10.1128/aem.70.10.6290-6295.2004	2004
	Clustering metagenomic sequences with interpolated Markov models.	Kelley DR, Salzberg SL.	BMC Bioinformatics	10.1186/1471-2105-11-544	2010
Genetics	Sim3C: simulation of Hi-C and Meta3C proximity ligation sequencing technologies.	DeMaere MZ, Darling AE.	Gigascience	10.1093/gigascience/gix103	2018
	Stitching gene fragments with a network matching algorithm improves gene assembly for metagenomics.	Wu YW, Rho M, Doak TG, Ye Y.	Bioinformatics	10.1093/bioinformatics/bts388	2012
Genetics	Tracing lifestyle adaptation in prokaryotic genomes.	Altermann E.	Front Microbiol	10.3389/fmicb.2012.00048	2012
Metabolism	The hsp 16 gene of the probiotic Lactobacillus acidophilus is differently regulated by salt, high temperature and acidic stresses, as revealed by reverse transcription quantitative PCR (qRT-PCR) analysis.	Capozzi V, Arena MP, Crisetti E, Spano G, Fiocco D.	Int J Mol Sci	10.3390/ijms12085390	2011
Biotechnology	Lactic acid production - producing microorganisms and substrates sources-state of art.	Abedi E, Hashemi SMB.	Heliyon	10.1016/j.heliyon.2020.e04974	2020
Metabolism	Uncovering the Lactobacillus plantarum WCFS1 gallate decarboxylase involved in tannin degradation.	Jimenez N, Curiel JA, Reveron I, de Las Rivas B, Munoz R.	Appl Environ Microbiol	10.1128/aem.00840-13	2013
Genetics	Similarity and differences in the Lactobacillus acidophilus group identified by polyphasic analysis and comparative genomics.	Berger B, Pridmore RD, Barretto C, Delmas-Julien F, Schreiber K, Arigoni F, Brussow H.	J Bacteriol	10.1128/jb.01393-06	2007
	Detection and viability of Lactococcus lactis throughout cheese ripening.	Ruggirello M, Dolci P, Cocolin L.	PLoS One	10.1371/journal.pone.0114280	2014
Phylogeny	Use of colony-based bacterial strain typing for tracking the fate of Lactobacillus strains during human consumption.	Mahenthiralingam E, Marchbank A, Drevinek P, Garaiova I, Plummer S.	BMC Microbiol	10.1186/1471-2180-9-251	2009
	Lengths of Orthologous Prokaryotic Proteins Are Affected by Evolutionary Factors.	Tatarinova T, Salih B, Dien Bard J, Cohen I, Bolshoy A.	Biomed Res Int	10.1155/2015/786861	2015
Biotechnology	Functional genomics of lactic acid bacteria: from food to health.	Douillard FP, de Vos WM.	Microb Cell Fact	10.1186/1475-2859-13-s1-s8	2014
Enzymology	Pantothenate kinase from the thermoacidophilic archaeon Picrophilus torridus.	Takagi M, Tamaki H, Miyamoto Y, Leonardi R, Hanada S, Jackowski S, Chohnan S.	J Bacteriol	10.1128/jb.01021-09	2010
Metabolism	Catabolism of N-acetylneuraminic acid, a fitness function of the food-borne lactic acid bacterium Lactobacillus sakei, involves two newly characterized proteins.	Anba-Mondoloni J, Chaillou S, Zagorec M, Champomier-Verges MC.	Appl Environ Microbiol	10.1128/aem.03301-12	2013
Metabolism	Development of a sequence-characterized amplified region marker-targeted quantitative PCR assay for strain-specific detection of Oenococcus oeni during wine malolactic fermentation.	Solieri L, Giudici P.	Appl Environ Microbiol	10.1128/aem.00929-10	2010
	Genetic characterization of the Bifidobacterium breve UCC 2003 hrcA locus.	Ventura M, Canchaya C, Bernini V, Del Casale A, Dellaglio F, Neviani E, Fitzgerald GF, van Sinderen D.	Appl Environ Microbiol	10.1128/aem.71.12.8998-9007.2005	2005
Phylogeny	Phylogenomic reconstruction of lactic acid bacteria: an update.	Zhang ZG, Ye ZQ, Yu L, Shi P.	BMC Evol Biol	10.1186/1471-2148-11-1	2011
Genetics	The proteolytic system of lactic acid bacteria revisited: a genomic comparison.	Liu M, Bayjanov JR, Renckens B, Nauta A, Siezen RJ.	BMC Genomics	10.1186/1471-2164-11-36	2010
Genetics	Genome sequence and comparative genome analysis of Lactobacillus casei: insights into their niche-associated evolution.	Cai H, Thompson R, Budinich MF, Broadbent JR, Steele JL.	Genome Biol Evol	10.1093/gbe/evp019	2009
Metabolism	Comparative genomics of enzymes in flavor-forming pathways from amino acids in lactic acid bacteria.	Liu M, Nauta A, Francke C, Siezen RJ.	Appl Environ Microbiol	10.1128/aem.00150-08	2008
Phylogeny	Genomic features of a bumble bee symbiont reflect its host environment.	Martinson VG, Magoc T, Koch H, Salzberg SL, Moran NA.	Appl Environ Microbiol	10.1128/aem.00322-14	2014
Metabolism	Lessons learned from the transformation of natural product discovery to a genome-driven endeavor.	Deane CD, Mitchell DA.	J Ind Microbiol Biotechnol	10.1007/s10295-013-1361-8	2014
	Determination of bacteriocin activity with bioassays carried out on solid and liquid substrates: assessing the factor "indicator microorganism".	Papagianni M, Avramidis N, Filioussis G, Dasiou D, Ambrosiadis I.	Microb Cell Fact	10.1186/1475-2859-5-30	2006
Metabolism	Riboflavin production in Lactococcus lactis: potential for in situ production of vitamin-enriched foods.	Burgess C, O'connell-Motherway M, Sybesma W, Hugenholtz J, van Sinderen D.	Appl Environ Microbiol	10.1128/aem.70.10.5769-5777.2004	2004
	Methods of combinatorial optimization to reveal factors affecting gene length.	Bolshoy A, Tatarinova T.	Bioinform Biol Insights	10.4137/bbi.s10525	2012
	Bacteriocin diversity in Streptococcus and Enterococcus.	Nes IF, Diep DB, Holo H.	J Bacteriol	10.1128/jb.01254-06	2007
	Biologically Based Methods for Control of Fumonisin-Producing Fusarium Species and Reduction of the Fumonisins.	Alberts JF, van Zyl WH, Gelderblom WC.	Front Microbiol	10.3389/fmicb.2016.00548	2016
Phylogeny	Perturbation and restoration of the fathead minnow gut microbiome after low-level triclosan exposure.	Narrowe AB, Albuthi-Lantz M, Smith EP, Bower KJ, Roane TM, Vajda AM, Miller CS.	Microbiome	10.1186/s40168-015-0069-6	2015
	Plasmid-Associated Bacteriocin Production and Sucrose Fermentation in Pediococcus acidilactici.	Gonzalez CF, Kunka BS.	Appl Environ Microbiol	10.1128/aem.53.10.2534-2538.1987	1987
	Structural basis of cell wall cleavage by a staphylococcal autolysin.	Zoll S, Patzold B, Schlag M, Gotz F, Kalbacher H, Stehle T.	PLoS Pathog	10.1371/journal.ppat.1000807	2010
Metabolism	Expression of the arginine deiminase pathway genes in Lactobacillus sakei is strain dependent and is affected by the environmental pH.	Rimaux T, Riviere A, Illeghems K, Weckx S, De Vuyst L, Leroy F.	Appl Environ Microbiol	10.1128/aem.07724-11	2012
	Detection of the pediocin gene pedA in strains from human faeces by real-time PCR and characterization of Pediococcus acidilactici UVA1.	Mathys S, von Ah U, Lacroix C, Staub E, Mini R, Cereghetti T, Meile L.	BMC Biotechnol	10.1186/1472-6750-7-55	2007
Metabolism	Lactate racemization as a rescue pathway for supplying D-lactate to the cell wall biosynthesis machinery in Lactobacillus plantarum.	Goffin P, Deghorain M, Mainardi JL, Tytgat I, Champomier-Verges MC, Kleerebezem M, Hols P.	J Bacteriol	10.1128/jb.187.19.6750-6761.2005	2005
Metabolism	In silico prediction of horizontal gene transfer events in Lactobacillus bulgaricus and Streptococcus thermophilus reveals protocooperation in yogurt manufacturing.	Liu M, Siezen RJ, Nauta A.	Appl Environ Microbiol	10.1128/aem.02898-08	2009
	Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms.	Nasir A, Naeem A, Khan MJ, Nicora HD, Caetano-Anolles G.	Genes (Basel)	10.3390/genes2040869	2011
Enzymology	Characterization of the Lactobacillus helveticus CNRZ32 pepC gene.	Fernandez L, Bhowmik T, Steele JL.	Appl Environ Microbiol	10.1128/aem.60.1.333-336.1994	1994
Genetics	Comparative genomics and transcriptional analysis of prophages identified in the genomes of Lactobacillus gasseri, Lactobacillus salivarius, and Lactobacillus casei.	Ventura M, Canchaya C, Bernini V, Altermann E, Barrangou R, McGrath S, Claesson MJ, Li Y, Leahy S, Walker CD, Zink R, Neviani E, Steele J, Broadbent J, Klaenhammer TR, Fitzgerald GF, O'toole PW, van Sinderen D.	Appl Environ Microbiol	10.1128/aem.72.5.3130-3146.2006	2006
	Evolution of the oligopeptide transporter family.	Gomolplitinant KM, Saier MH.	J Membr Biol	10.1007/s00232-011-9347-9	2011
Metabolism	Functional analysis of family GH36 alpha-galactosidases from Ruminococcus gnavus E1: insights into the metabolism of a plant oligosaccharide by a human gut symbiont.	Cervera-Tison M, Tailford LE, Fuell C, Bruel L, Sulzenbacher G, Henrissat B, Berrin JG, Fons M, Giardina T, Juge N.	Appl Environ Microbiol	10.1128/aem.01350-12	2012
Enzymology	Characterization of gtf, a glucosyltransferase gene in the genomes of Pediococcus parvulus and Oenococcus oeni, two bacterial species commonly found in wine.	Dols-Lafargue M, Lee HY, Le Marrec C, Heyraud A, Chambat G, Lonvaud-Funel A.	Appl Environ Microbiol	10.1128/aem.00673-08	2008
	Plasmid transfer in Pediococcus spp.: intergeneric and intrageneric transfer of pIP501.	Gonzalez CF, Kunka BS.	Appl Environ Microbiol	10.1128/aem.46.1.81-89.1983	1983
	Transport capabilities of eleven gram-positive bacteria: comparative genomic analyses.	Lorca GL, Barabote RD, Zlotopolski V, Tran C, Winnen B, Hvorup RN, Stonestrom AJ, Nguyen E, Huang LW, Kim DS, Saier MH.	Biochim Biophys Acta	10.1016/j.bbamem.2007.02.007	2007
Metabolism	Parallel evolution of nitric oxide signaling: diversity of synthesis and memory pathways.	Moroz LL, Kohn AB.	Front Biosci (Landmark Ed)	10.2741/3837	2011
Genetics	Comparative genome analysis of Pediococcus damnosus LMG 28219, a strain well-adapted to the beer environment.	Snauwaert I, Stragier P, De Vuyst L, Vandamme P	BMC Genomics	10.1186/s12864-015-1438-z	2015
Genetics	Whole-genome sequence assembly of Pediococcus pentosaceus LI05 (CGMCC 7049) from the human gastrointestinal tract and comparative analysis with representative sequences from three food-borne strains.	Lv LX, Li YD, Hu XJ, Shi HY, Li LJ	Gut Pathog	10.1186/s13099-014-0036-y	2014
Enzymology	Characterization of D-lactate dehydrogenase producing D-3-phenyllactic acid from Pediococcus pentosaceus.	Yu S, Jiang H, Jiang B, Mu W	Biosci Biotechnol Biochem	10.1271/bbb.110955	2012
Metabolism	Data mining and characterization of a novel pediocin-like bacteriocin system from the genome of Pediococcus pentosaceus ATCC 25745.	Diep DB, Godager L, Brede D, Nes IF	Microbiology (Reading)	10.1099/mic.0.28794-0	2006
	Development and characterization of lactose-positive pediococcus species for milk fermentation.	Caldwell SL, McMahon DJ, Oberg CJ, Broadbent JR	Appl Environ Microbiol	10.1128/aem.62.3.936-941.1996	1996

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 )
#47425	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 21536
#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 )
#68381	Automatically annotated from API rID32STR .
#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 21536, CCM 2483, ATCC 25745)

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