Name: Paucilactobacillus vaccinostercus X-94
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6600

Type strain:

Species: Paucilactobacillus vaccinostercus

Strain Designation: X-94

Culture col. no.: DSM 20634, ATCC 33310, LMG 9215, NCIMB 11808, NRIC 1075, CCUG 30723, JCM 1716, BCRC 14005, CECT 5925, CIP 102807, KCTC 3608, NCFB 2784, TUA 055B

Strain history: CIP <- 1987, DSMZ <- ATCC <- S. Okada: strain X-94

NCBI tax ID(s): 1423813 (strain), 176291 (species)

SI-ID 3385

LMG 9215, ATCC 33310, DSM 20634, NCIMB 11808, NCIB 11808, CCUG 30723, JCM 1716, CIP 102807, CCRC 14005, NCFB2784, KCTC 3608, CECT 5925, BCRC 14005

Other strains from Paucilactobacillus vaccinostercus

P. vaccinostercus MC11, DSM 15802, CCUG 45405, CIP ...

Section

Paucilactobacillus vaccinostercus X-94 is an anaerobe, mesophilic bacterium that was isolated from cow dung.

anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Bacilli*
	Order	*Lactobacillales*
	Family	*Lactobacillaceae*
	Genus	*Paucilactobacillus*
	Species	**Paucilactobacillus vaccinostercus**
	Full Scientific Name (LPSN)	Paucilactobacillus vaccinostercus (Kozaki and Okada 1983) Zheng et al. 2020

	Synonym	Lactobacillus durianis
	Synonym	Lactobacillus vaccinostercus

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #69480]	Motility	no Confidence in %95.851

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8980]

Culture medium

MRS MEDIUM (DSMZ Medium 11)

[Ref.: #8980]

Culture medium growth

[Ref.: #8980]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8980]

Culture medium composition

expand / minimize

[Ref.: #40458]

Culture medium

MEDIUM 51 - for Lactobacillus vaccinostercus

[Ref.: #40458]

Culture medium growth

[Ref.: #40458]

Culture medium composition

expand / minimize

[Ref.: #123771]

Culture medium

CIP Medium 41

[Ref.: #123771]

Culture medium growth

[Ref.: #123771]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #8980]	growth	30 °C
[Ref.: #40458]	growth	37 °C
[Ref.: #50244]	growth	30 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #8980]	Temperature range	mesophilic
[Ref.: #40458]	Temperature range	mesophilic
[Ref.: #50244]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #50244]

Oxygen tolerance

anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.99

[Ref.: #8980]	Murein short key	A31
[Ref.: #8980]	Murein types	A1gamma m-Dpm-direct

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	pentose phosphate pathway	100	11 of 11
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	ribulose monophosphate pathway	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	glutamate and glutamine metabolism	82.14	23 of 28
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	pyrimidine metabolism	80	36 of 45
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	Entner Doudoroff pathway	80	8 of 10
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	purine metabolism	76.6	72 of 94
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	photosynthesis	64.29	9 of 14
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	glycine betaine biosynthesis	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	starch degradation	60	6 of 10
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	tetrahydrofolate metabolism	57.14	8 of 14
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of sugar acids	56	14 of 25
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	proline metabolism	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	oxidative phosphorylation	51.65	47 of 91
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	degradation of pentoses	50	14 of 28
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	propionate fermentation	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	histidine metabolism	48.28	14 of 29
[Ref.: #66794]	lysine metabolism	47.62	20 of 42
[Ref.: #66794]	flavin biosynthesis	46.67	7 of 15
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	tryptophan metabolism	44.74	17 of 38
[Ref.: #66794]	d-mannose degradation	44.44	4 of 9
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	tyrosine metabolism	28.57	4 of 14
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	isoprenoid biosynthesis	26.92	7 of 26
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	sulfate reduction	23.08	3 of 13
[Ref.: #66794]	nitrate assimilation	22.22	2 of 9
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #8980]	Sample type/isolated from	cow dung

[Ref.: #50244]	Sample type/isolated from	Cow dung
[Ref.: #50244]	Geographic location (country and/or sea, region)	Kanagawa,Atsugi-shi
[Ref.: #50244]	Country	Japan
[Ref.: #50244]	Country ISO 3 Code	JPN
[Ref.: #50244]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Cow dung

[Ref.: #123771]	Sample type/isolated from	Animal, Dried cow dung
[Ref.: #123771]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #123771]	Country	Japan
[Ref.: #123771]	Country ISO 3 Code	JPN
[Ref.: #123771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM113786 (>99% sequence identity) for Paucilactobacillus vaccinostercus from Microbeatlas

Aquatic Samples	795
Soil Samples	307
Animal Samples	4111
Plant Samples	398
Total Samples	5611

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

[Ref.: #8980]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123771]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

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

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Lactobacillus vaccinostercus gene for 16S ribosomal RNA, partial sequence, strain: JCM 1716	LC071823	1504	ENA	176291 tax ID
[Ref.: #20218]	Lactobacillus vaccinostercus gene for 16S rRNA, partial sequence, strain: NRIC 1075 (= ATCC 33310, = JCM 1716)	AB362703	1479	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus partial 16S rRNA gene, strain DSM 20634	AJ417735	508	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus partial 16S rRNA gene, strain type strain:DSM 20634	AM113786	1553	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus gene for 16S rRNA, partial sequence, strain: JCM 1716	AB289310	639	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus partial 16S rRNA gene, strain LMG 9215T	AJ621556	1529	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus strain LMG 9215 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequence	EU161603	796	ENA	176291 tax ID	*
[Ref.: #20218]	Lactobacillus vaccinostercus gene for 16S rRNA, partial sequence, strain:NRIC 1075	AB212087	1563	ENA	176291 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Paucilactobacillus vaccinostercus DSM 20634	GCA_001436295	scaffold	GenBank	1423813 tax ID
[Ref.: #66792]	Lactobacillus vaccinostercus DSM 20634	1423813.3	wgs	PATRIC	1423813 tax ID	*
[Ref.: #66792]	Paucilactobacillus vaccinostercus DSM 20634	2660237943	draft	JGI IMG/M	1423813 tax ID	*

[Ref.: #8980]	GC-content	36.0 mol%
[Ref.: #67770]	GC-content	43.9 mol%	genome sequence analysis
[Ref.: #67770]	GC-content	36 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paucilactobacillus vaccinostercus DSM 20634 DSM 20634 NCBI: GCA_001436295.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lactobacillus vaccinostercus DSM 20634 PATRIC: 1423813.3
[Ref.: #69480]	motile	no	93.907	no
[Ref.: #69480]	gram-positive	yes	97.103	no
[Ref.: #69480]	anaerobic	no	93.222	no
[Ref.: #69480]	halophile	yes	89.987	no
[Ref.: #69480]	spore-forming	no	92.629	no
[Ref.: #69480]	thermophile	no	99.613	yes
[Ref.: #69480]	glucose-util	yes	90.307	no
[Ref.: #69480]	aerobic	no	97.575	yes
[Ref.: #69480]	flagellated	no	97.23	no
[Ref.: #69480]	glucose-ferment	yes	87.759	no

Availability in culture collections External links

[Ref.: #8980]

Culture collection no.

DSM 20634, ATCC 33310, LMG 9215, NCIMB 11808, NRIC 1075, CCUG 30723, JCM 1716, BCRC 14005, CECT 5925, CIP 102807, KCTC 3608, NCFB 2784, TUA 055B

[Ref.: #76075]

SI-ID 3385

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactobacillus wasatchensis sp. nov., a non-starter lactic acid bacteria isolated from aged Cheddar cheese.	Oberg CJ, Oberg TS, Culumber MD, Ortakci F, Broadbent JR, McMahon DJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.000689	2015	*
Phylogeny	Lactobacillus hokkaidonensis sp. nov., isolated from subarctic timothy grass (Phleum pratense L.) silage.	Tohno M, Kitahara M, Uegaki R, Irisawa T, Ohkuma M, Tajima K	Int J Syst Evol Microbiol	10.1099/ijs.0.047027-0	2012	*

References

#8980

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20634

#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 )

#40458 ; Curators of the CIP;
#50244 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30723

#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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#76075

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-ID3385.1 )

#123771 Collection of Institut Pasteur ; Curators of the CIP; CIP 102807
* These data were automatically processed and therefore are not curated

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Paucilactobacillus vaccinostercus DSM 20634 DSM 20634

Lactobacillus vaccinostercus DSM 20634

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