Name: Lentilactobacillus parafarraginis DSM 18390
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6644

Type strain:

Species: Lentilactobacillus parafarraginis

Culture col. no.: DSM 18390, JCM 14109, NRIC 0677

Strain history: A. Endo NRIC 0677.

NCBI tax ID(s): 390842 (species)

Section

Lentilactobacillus parafarraginis DSM 18390 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from composting material of distilled shochun residue.

Gram-positive
rod-shaped
mesophilic
microaerophile
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Lactobacillaceae*
	Genus	*Lentilactobacillus*
	Species	**Lentilactobacillus parafarraginis**
	Full Scientific Name (LPSN)	Lentilactobacillus parafarraginis (Endo and Okada 2007) Zheng et al. 2020

Synonym

Lactobacillus parafarraginis

Information on morphological and physiological properties Morphology

[Ref.: #31901]	Gram stain	positive
[Ref.: #31901]	Cell length	02-04 µm
[Ref.: #31901]	Cell width	0.8 µm
[Ref.: #31901]	Cell shape	rod-shaped

[Ref.: #31901]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7519]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #7519]

Culture medium growth

[Ref.: #7519]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7519]

Culture medium composition

expand / minimize

[Ref.: #36080]

Culture medium

MEDIUM 40- for Lactobacillus and Leuconostoc

[Ref.: #36080]

Culture medium growth

[Ref.: #36080]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7519]	growth	30 °C
[Ref.: #31901]	growth	20-37 °C
[Ref.: #31901]	optimum	28.5 °C
[Ref.: #36080]	growth	37 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #7519]	Temperature range	mesophilic
[Ref.: #31901]	Temperature range	mesophilic
[Ref.: #36080]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31901]			optimum	6.25
[Ref.: #31901]			growth	4-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7519]	Oxygen tolerance	microaerophile
[Ref.: #31901]	Oxygen tolerance	facultative anaerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31901]		NaCl		optimum	5	%

[Ref.: #31901]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68371]	amygdalin ChEBI	-	builds acid from	* from API 50CH acid
[Ref.: #31901]	arabinose ChEBI	+	carbon source
[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.: #31901]	galactose ChEBI	+	carbon source
[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.: #31901]	melibiose ChEBI	+	carbon source
[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.: #31901]	raffinose ChEBI	+	carbon source
[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.: #31901]	sucrose ChEBI	+	carbon source
[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
[Ref.: #31901]	xylose ChEBI	+	carbon source
	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.: #7519]	8030	-	-	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	-	+	-	-	-	-	-	-	-	-	-	+	-	+	+	-	-	+	+	-	-	-	-	-	-	-	-	-	+	-	+	-	+

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

[Ref.: #7519]	Sample type/isolated from	composting material of distilled shochun residue
[Ref.: #7519]	Geographic location (country and/or sea, region)	Miyazaki prefecture
[Ref.: #7519]	Country	Japan
[Ref.: #7519]	Country ISO 3 Code	JPN
[Ref.: #7519]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Compost of distilled shochu residue
* marker position based on {}

Isolation sources categories

#Engineered	#Biodegradation	#Composting
#Engineered	#Food production	#Fermented
#Engineered	#Food production	#Beverage

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC096238 (>99% sequence identity) for Lentilactobacillus parafarraginis from Microbeatlas

Aquatic Samples	226
Soil Samples	201
Animal Samples	1720
Plant Samples	245
Total Samples	2392

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

[Ref.: #7519]

Biosafety level

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.: #7519]	Lactobacillus parafarraginis gene for 16S rRNA, partial sequence, strain: NRIC 0677	AB262734	1556	ENA	390842 tax ID
[Ref.: #67770]	Lactobacillus parafarraginis gene for 16S ribosomal RNA, partial sequence, strain: JCM 14109	LC096238	1510	ENA	390842 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Lentilactobacillus parafarraginis DSM 18390 = JCM 14109 DSM 18390	GCA_001435895	scaffold	GenBank	1423786 tax ID
[Ref.: #67770]	Lentilactobacillus parafarraginis DSM 18390 = JCM 14109 JCM 14109	GCA_001311355	contig	GenBank	1423786 tax ID
[Ref.: #66792]	Lactobacillus parafarraginis DSM 18390 = JCM 14109	1423786.4	wgs	PATRIC	1423786 tax ID	*
[Ref.: #66792]	Lactobacillus parafarraginis DSM 18390 = JCM 14109	1423786.3	wgs	PATRIC	1423786 tax ID	*
[Ref.: #66792]	Lentilactobacillus parafarraginis DSM 18390	2700989151	draft	JGI IMG/M	1423786 tax ID	*
[Ref.: #66792]	Lentilactobacillus parafarraginis JCM 14109	2728369682	draft	JGI IMG/M	1423786 tax ID	*

[Ref.: #7519]	GC-content	40 mol%
[Ref.: #67770]	GC-content	45.2 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	40 mol%	high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #7519]

Culture collection no.

DSM 18390, JCM 14109, NRIC 0677

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactobacillus curieae sp. nov., isolated from stinky tofu brine.	Lei X, Sun G, Xie J, Wei D	Int J Syst Evol Microbiol	10.1099/ijs.0.041830-0	2012	*
Phylogeny	Lactobacillus farraginis sp. nov. and Lactobacillus parafarraginis sp. nov., heterofermentative lactobacilli isolated from a compost of distilled shochu residue.	Endo A, Okada S	Int J Syst Evol Microbiol	10.1099/ijs.0.64618-0	2007	*

References

#7519

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18390

#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 )

#31901

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28159 (see below)

#36080 ; Curators of the CIP;

#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 .

#28159

IJSEM 708 2007 ( DOI 10.1099/ijs.0.64618-0 , PubMed 17392191 )

* These data were automatically processed and therefore are not curated

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