Name: Pediococcus acidilactici DSM 19927
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6379

Type strain:

Species: Pediococcus acidilactici

Culture col. no.: DSM 19927, JCM 15055, LMG 27029, NGRI 0510Q, BCRC 80335

Strain history: K. Doi NGRI 0510Q.

NCBI tax ID(s): 1229281 (strain), 1254 (species)

SI-ID 362581

JCM 15055, DSM 19927, LMG 25667, LMG 27029

Special Collections

DSMZ
JCM

Other strains from Pediococcus acidilactici

Section

When using BacDive for research please cite our paper

Pediococcus acidilactici DSM 19927 is a microaerophile, mesophilic bacterium that was isolated from Ryegrass silage.

mesophilic
microaerophile
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	*Lactobacillaceae*
	Genus	*Pediococcus*
	Species	**Pediococcus acidilactici**
	Full Scientific Name (LPSN)	Pediococcus acidilactici Lindner 1887 (Approved Lists 1980)

Synonym

Pediococcus lolii

Information on morphological and physiological properties Morphology

[Ref.: #125438]	Gram stain	positive Confidence in %92.716

[Ref.: #125438]	Motility	no Confidence in %93

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8393]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #8393]

Culture medium growth

[Ref.: #8393]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8393]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #8393]			growth	30 °C
[Ref.: #67770]			growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #8393]	Oxygen tolerance	microaerophile
[Ref.: #125439]	Oxygen tolerance	microaerophile Confidence in %94.1

[Ref.: #125438]

Ability of spore formation

no Confidence in %91.874

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	arbutin 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.: #8393]	15749	-	-	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-
[Ref.: #8393]	15217	-	-	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	-	+	+	+	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #8393]	Sample type/isolated from	Ryegrass silage
[Ref.: #8393]	Geographic location (country and/or sea, region)	Ishigaki Island, Okinawa
[Ref.: #8393]	Country	Japan
[Ref.: #8393]	Country ISO 3 Code	JPN
[Ref.: #8393]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Ryegrass silage
* marker position based on {}

Isolation sources categories

#Environmental	#Microbial community	-
#Host	#Plants	#Herbaceous plants (Grass,Crops)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC311071 (>99% sequence identity) for Pediococcus acidilactici from Microbeatlas

Aquatic Samples	1242
Soil Samples	1156
Animal Samples	16677
Plant Samples	934
Total Samples	20009

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

[Ref.: #8393]	Pathogenicity (human)	yes, in single cases
[Ref.: #8393]	Biosafety level	1	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.: #67770]	Pediococcus acidilactici gene for 16S ribosomal RNA, partial sequence, strain: JCM 15055	LC311071	1516	GenBank ENA	1254 tax ID
[Ref.: #8393]	Pediococcus lolii gene for 16S ribosomal RNA, complete sequence	AB362985	1540	GenBank ENA	1229281 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pediococcus acidilactici DSM 19927	GCA_001437115	scaffold	GenBank ENA	1254 tax ID	*
[Ref.: #66792]	Pediococcus acidilactici strain FDAARGOS_1007	1254.394	complete	PATRIC	1254 tax ID	*
[Ref.: #66792]	Pediococcus lolii strain DSM 19927	476270.3	wgs	PATRIC	1254 tax ID	*
[Ref.: #66792]	Pediococcus lolii DSM 19927	2663762867	draft	JGI IMG/M	1254 tax ID	*

[Ref.: #8393]	GC-content	41.0 mol%
[Ref.: #67770]	GC-content	41 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: Pediococcus acidilactici strain FDAARGOS_1007 strain Not applicable PATRIC: 1254.394
[Ref.: #125438]	gram-positive	gram-positiveⓘ	yes	92.716	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	86.058	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	91.874	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	96.871	yes
[Ref.: #125438]	thermophile	thermophilicⓘ	no	96.996	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	93	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pediococcus acidilactici strain FDAARGOS_1007 PATRIC: 1254.394
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	microaerophile	94.1
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	variable	81.8
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	69.7
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	yes	64.5

Availability in culture collections External links

[Ref.: #8393]

Culture collection no.

DSM 19927, JCM 15055, LMG 27029, NGRI 0510Q, BCRC 80335

[Ref.: #75852]

SI-ID 362581

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequence of Pediococcus lolii NGRI 0510Q(T) Isolated from Ryegrass Silage.	Doi K, Mori K, Tashiro K, Fujino Y, Nagayoshi Y, Hayashi Y, Kuhara S, Ohshima T	Genome Announc	10.1128/genomeA.00156-12	2013	*
Phylogeny	Pediococcus lolii DSM 19927T and JCM 15055T are strains of Pediococcus acidilactici.	Wieme A, Cleenwerck I, Van Landschoot A, Vandamme P	Int J Syst Evol Microbiol	10.1099/ijs.0.046201-0	2012	*
Phylogeny	Pediococcus lolii sp. nov., isolated from ryegrass silage.	Doi K, Nishizaki Y, Fujino Y, Ohshima T, Ohmomo S, Ogata S	Int J Syst Evol Microbiol	10.1099/ijs.0.005793-0	2009	*

References

#8393

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19927

#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 )

#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 .

#75852

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-ID362581.1 )

#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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Pediococcus acidilactici strain FDAARGOS_1007 strain Not applicable

Pediococcus acidilactici strain FDAARGOS_1007

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Change proposal