TABLE 1.

Streptococcus isolates sequenced in this study

Species	Strain	Source	Sequence platform	SRA no.	BioSample no.	GenBank WGS accession no.	No. of reads	Genome coverage (×)	No. of contigs	No. of predicted genes	Largest contig (bp)	Total length (bp)	N50 (bp)	GC (%)	BUSCO assessment (Benchmarking Universal Single-Copy Orthologs)
															Lineage_dataset	Complete	Missing	Total	%
S. salivarius	DS85_40Ba	Dietary supplementb	NextSeq 500/550	SRR11910125	SAMN15078926	JAIQWT000000000	3,817,804	119	58	2,181	307,204	2,320,947	124,435	39.4	lactobacillales_odb10	400	2	402	99.5
S. salivarius	DS85_40Aa	Dietary supplementb	NextSeq 500/550	SRR11910126	SAMN15078925	JAIQWS000000000	3,984,844	69	84	2,154	176,391	2,290,943	65,821	39.4	lactobacillales_odb10	400	2	402	99.5
S. thermophilus	DS14_14	Dietary supplementc	MiSeq	SRR5310871	SAMN06464115	JAIQWG000000000	3,061,692	392	62	1,836	207,436	1,776,323	73,135	38.9	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF2_14	Yogurt product	MiSeq	SRR5310876	SAMN06464117	JAIQWF000000000	814,748	92	76	1,824	194,267	1,742,651	53,094	39.0	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF1_14	Kefir product	MiSeq	SRR5310877	SAMN06464116	JAIQWE000000000	4,348,482	238	44	1,814	203,892	1,742,991	124,918	39.0	lactobacillales_odb10	388	14	402	95.5
S. thermophilus	DS76_14	Dietary supplementb	NextSeq 500/550	SRR11910219	SAMN15078890	JAIQWR000000000	6,496,696	202	62	1,822	122,821	1,736,106	63,115	38.9	lactobacillales_odb10	392	10	402	97.5
S. thermophilus	DS51_14	Dietary supplementb	NextSeq 500/550	SRR11910208	SAMN15078775	JAIQXB000000000	9,984,694	20	97	1,759	104,555	1,646,584	41,717	39.2	lactobacillales_odb10	398	4	402	99.0
S. thermophilus	CF5_14	Nondairy yogurt product	NextSeq 500/550	SRR11910326	SAMN15078648	JAIQWM000000000	6,256,254	565	56	1,849	137,000	1,777,217	65,705	38.9	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	DS45_14	Dietary supplementb	NextSeq 500/550	SRR11910242	SAMN15078736	JAIQWP000000000	2,494,996	89	64	1,867	122,822	1,774,216	61,113	38.9	lactobacillales_odb10	398	4	402	99.0
S. thermophilus	DS03_14	Dietary supplementb	MiSeq	SRR11910360	SAMN15078662	JAIQWK000000000	938,788	68	61	1,922	175,129	1,848,774	70,646	38.8	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	DS30_14	Dietary supplementb	NextSeq 500/550	SRR11910418	SAMN15078680	JAIQWH000000000	1,259,266	96	81	1,853	117,608	1,766,804	52,466	39.0	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF13_14	Yogurt product	NextSeq 500/550	SRR11910376	SAMN15078605	JAIQWJ000000000	1,669,016	105	46	1,892	174,923	1,808,551	93,887	38.9	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF12_14	Nondairy yogurt product	NextSeq 500/550	SRR11910216	SAMN15078601	JAIQWU000000000	9,134,166	484	55	1,925	313,755	1,848,466	100,076	38.8	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF3_14	Yogurt product	NextSeq 500/550	SRR11910321	SAMN15078635	JAIQWN000000000	8,713,470	173	52	1,778	204,361	1,704,260	97,302	38.9	lactobacillales_odb10	377	25	402	93.8
S. thermophilus	CF10_14	Cheese product	NextSeq 500/550	SRR11910350	SAMN15078596	JAIQWL000000000	1,720,144	123	59	1,847	145,424	1,759,255	70,976	39.0	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF4_14	Kefir product	NextSeq 500/550	SRR11910241	SAMN15078639	JAIQWQ000000000	5,057,426	88	69	1,866	158,655	1,771,462	62,823	38.9	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	DS61_14	Dietary supplementb	MiSeq	SRR11910392	SAMN15078830	JAIQWI000000000	4,364,456	550	49	1,847	162,842	1,778,590	71,039	38.9	lactobacillales_odb10	399	3	402	99.3
S. thermophilus	CF8_14	Yogurt product	NextSeq 500/550	SRR11910258	SAMN15078656	JAIQWO000000000	1,755,666	75	68	1,851	130,762	1,773,459	58,946	38.9	lactobacillales_odb10	399	3	402	99.3

^aTwo different strains from the same dietary supplement (DS85).

^bDietary supplement for general population.

^cDietary supplement for women.