Name: Lactococcus reticulitermitis Rs-Y01
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158388

Type strain:

Species: Lactococcus reticulitermitis

Strain Designation: Rs-Y01

Culture col. no.: DSM 105715, JCM 32106

Strain history: M. Ohkuma; RIKEN BRC-JCM, Japan; Rs-Y01.

NCBI tax ID(s): 2025039 (species)

SI-ID 402854

DSM 105715

Other strains from Lactococcus reticulitermitis

L. reticulitermitis JCM 32568

Section

Lactococcus reticulitermitis Rs-Y01 is a facultative anaerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from termite gut Reticulitermes speratus.

coccus-shaped
colony-forming
Gram-positive
facultative anaerobe
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	*Streptococcaceae*
	Genus	*Lactococcus*
	Species	**Lactococcus reticulitermitis**
	Full Scientific Name (LPSN)	Lactococcus reticulitermitis Yuki et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65425]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #65425]	Cell length	2.4 µm

[Ref.: #65425]	Cell width	0.8-1.5 µm

[Ref.: #65425]	Cell shape	coccus-shaped

[Ref.: #65425]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %93.846

[Ref.: #65425]	Colony size	1-2 mm
[Ref.: #65425]	Colony color	white to ivory
[Ref.: #65425]	Colony shape	circular
[Ref.: #65425]	Incubation period	2 days
[Ref.: #65425]	Cultivation medium used	trypto-soya agar

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65064]

Culture medium

PYG MEDIUM (MODIFIED) (DSMZ Medium 104)

[Ref.: #65064]

Culture medium growth

[Ref.: #65064]

Culture medium link

Medium recipe at MediaDive

[Ref.: #65064]

Culture medium composition

expand / minimize

[Ref.: #65425]

Culture medium

trypto-soya agar

[Ref.: #65425]

Culture medium growth

[Ref.: #65064]

Culture medium

SCHAEDLER BROTH (ROTH; 5772) (DSMZ Medium 1669)

[Ref.: #65064]

Culture medium growth

[Ref.: #65064]

Culture medium link

Medium recipe at MediaDive

[Ref.: #65064]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #65064]	growth	37 °C
[Ref.: #65425]	growth	10-40 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #65064]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65425]			growth	5-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65425]

Oxygen tolerance

facultative anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %99.979

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65425]		NaCl		optimum	0-4	%(w/v)

[Ref.: #65425]

Observation

the cell-wall peptidoglycan is type A3a, Lys-Ala1-2

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65425]	amygdalin ChEBI	+	builds acid from
[Ref.: #65425]	casein	-	hydrolysis
[Ref.: #65425]	cellobiose ChEBI	+	builds acid from
[Ref.: #65425]	D-fructose ChEBI	+	builds acid from
[Ref.: #65425]	D-galactose ChEBI	+	builds acid from
[Ref.: #65425]	D-glucose ChEBI	+	builds acid from
[Ref.: #65425]	D-mannitol ChEBI	-	builds acid from
[Ref.: #65425]	D-mannose ChEBI	+	builds acid from
[Ref.: #65425]	D-ribose ChEBI	-	builds acid from
[Ref.: #65425]	D-sorbitol ChEBI	+	builds acid from
[Ref.: #65425]	D-tagatose ChEBI	+	builds acid from
[Ref.: #65425]	D-xylose ChEBI	-	builds acid from
[Ref.: #65425]	gentiobiose ChEBI	+	builds acid from
[Ref.: #65425]	glucose ChEBI	+	fermentation
[Ref.: #65425]	glycogen ChEBI	+	builds acid from
[Ref.: #65425]	lactose ChEBI	-	builds acid from
[Ref.: #65425]	maltose hydrate	+	builds acid from
[Ref.: #65425]	melezitose ChEBI	-	builds acid from
[Ref.: #65425]	melibiose ChEBI	-	builds acid from
[Ref.: #65425]	methyl alpha-D-glucopyranoside ChEBI	-	builds acid from
[Ref.: #65425]	pectin ChEBI	+	fermentation
[Ref.: #65425]	raffinose ChEBI	-	builds acid from
[Ref.: #65425]	salicin ChEBI	+	builds acid from
[Ref.: #65425]	starch ChEBI	+	builds acid from
[Ref.: #65425]	starch ChEBI	+	fermentation
[Ref.: #65425]	sucrose ChEBI	-	builds acid from
[Ref.: #65425]	trehalose ChEBI	+	builds acid from
[Ref.: #65425]	turanose ChEBI	-	builds acid from
[Ref.: #65425]	xylan ChEBI	+	fermentation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #65425]		lactate ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #65425]	alkaline phosphatase	-	3.1.3.1
[Ref.: #65425]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65425]	alpha-glucosidase	-	3.2.1.20
[Ref.: #65425]	beta-glucosidase	+	3.2.1.21
[Ref.: #65425]	chymotrypsin	+	3.4.4.5
[Ref.: #65425]	esterase Lipase (C 8)	-
[Ref.: #65425]	valine arylamidase	-

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65425]

Fatty acid	Percentage
C18:1ω7c/C18:1ω6c	32
C16:0	29.7
C14:0	18.1
C17:1 iso I/anteisoB	5.4
C16:1ω7c/C16:1ω6c	5.1
C16:1ω9c	2.8
C16:1ω5c	2
C12:0	1.7

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	acetate fermentation	100	4 of 4
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	peptidoglycan biosynthesis	93.33	14 of 15
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	pyrimidine metabolism	71.11	32 of 45
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	non-pathway related	65.79	25 of 38
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	glutamate and glutamine metabolism	60.71	17 of 28
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	oxidative phosphorylation	59.34	54 of 91
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	heme metabolism	57.14	8 of 14
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	tryptophan metabolism	55.26	21 of 38
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	cysteine metabolism	44.44	8 of 18
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	degradation of sugar alcohols	43.75	7 of 16
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	sulfate reduction	38.46	5 of 13
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	lysine metabolism	35.71	15 of 42
[Ref.: #66794]	glutathione metabolism	35.71	5 of 14
[Ref.: #66794]	citric acid cycle	35.71	5 of 14
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	degradation of pentoses	35.71	10 of 28
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	L-lactaldehyde degradation	33.33	1 of 3
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	degradation of sugar acids	28	7 of 25
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
		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.: #65064]	Sample type/isolated from	termite gut Reticulitermes speratus
[Ref.: #65064]	Geographic location (country and/or sea, region)	Tsukuba
[Ref.: #65064]	Country	Japan
[Ref.: #65064]	Country ISO 3 Code	JPN
[Ref.: #65064]	Continent	Asia

[Ref.: #65425]	Sample type/isolated from	the gut of wood-feeding subterranean termite Reticulitermes speratus
[Ref.: #65425]	Enrichment culture	trypto-soya (TS; JCM medium no. 27) agar
[Ref.: #65425]	Enrichment culture duration	2 days
[Ref.: #65425]	Enrichment culture temperature	30 ̊C

[Ref.: #67770]	Sample type/isolated from	Gut of the subterranean termite Reticulitermes speratus
[Ref.: #67770]	Host species	Reticulitermes speratus
* marker position based on {}

Isolation sources categories

#Host	#Arthropoda	#Insecta
#Host Body-Site	#Gastrointestinal tract	-

What are isolation sources categories?

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]	Lactococcus reticulitermitis DNA, contig: Contig06, whole genome shotgun sequence	BEDT01000006	66913	ENA	2025039 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Lactococcus reticulitermitis Rs-Y01	GCA_002260845	contig	GenBank	2025039 tax ID
[Ref.: #66792]	Lactococcus sp. Rs-Y01	2025039.3	wgs	PATRIC	2025039 tax ID	*
[Ref.: #66792]	Lactococcus reticulitermitis Rs-Y01	2791355155	draft	JGI IMG/M	2025039 tax ID	*

[Ref.: #65064]	GC-content	41.3 mol%
[Ref.: #65425]	GC-content	41.3 mol%	sequence analysis
[Ref.: #67770]	GC-content	41.3 mol%	genome sequence analysis

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: Lactococcus sp. Rs-Y01 PATRIC: 2025039.3
[Ref.: #69481]	spore-forming	no	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lactococcus sp. Rs-Y01 PATRIC: 2025039.3
[Ref.: #69480]	motile	no	95.916	no
[Ref.: #69480]	gram-positive	yes	96.926	yes
[Ref.: #69480]	anaerobic	no	92.431	yes
[Ref.: #69480]	aerobic	no	98.354	yes
[Ref.: #69480]	halophile	yes	67.947	no
[Ref.: #69480]	spore-forming	no	93.588	no
[Ref.: #69480]	glucose-util	yes	87.25	no
[Ref.: #69480]	flagellated	no	97.751	yes
[Ref.: #69480]	thermophile	no	99.68	no
[Ref.: #69480]	glucose-ferment	yes	88.856	yes

Availability in culture collections External links

[Ref.: #65064]

Culture collection no.

DSM 105715, JCM 32106

[Ref.: #111192]

SI-ID 402854

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lactococcus reticulitermitis sp. nov., isolated from the gut of the subterranean termite Reticulitermes speratus.	Yuki M, Sakamoto M, Nishimura Y, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijsem.0.002549	2018	*

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 )

#65064

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105715

#65425

Masahiro Yuki, Mitsuo Sakamoto, Yuki Nishimura, Moriya Ohkuma: Lactococcus reticulitermitis sp. nov., isolated from the gut of the subterranean termite Reticulitermes speratus. IJSEM 68: 596 - 601 2018 ( DOI 10.1099/ijsem.0.002549 , PubMed 29300157 )

#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;

#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 )

#111192

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-ID402854.1 )

* These data were automatically processed and therefore are not curated

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Lactococcus sp. Rs-Y01

Lactococcus sp. Rs-Y01

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