Comparative genomics of human Lactobacillus crispatus isolates reveals genes for glycosylation and glycogen degradation: implications for in vivo dominance of the vaginal microbiota

Table 1 Overview and properties of 28 L. crispatus strains isolated from vaginal swabs with Lactobacillus-dominated vaginal microbiota or dysbiotic vaginal microbiota

Strain information		Clinical information vaginal sample				Pan-genome overview
Accession no.	ID	Group	Nugent score	VM cluster [4]	Urogenital infection	Genome size (Mb)	GC content	No. of core genes	No. of accessory genes	No. of unique genes
NKLQ00000000	RL03	LVM	0	II	None	2.52	36.86	1429	846	12
NKLP00000000	RL05	LVM	0	II	None	2.53	36.39	1429	553	243
NKLO00000000	RL06	LVM	0	II	None	2.16	36.92	1429	481	11
NKLM00000000	RL08	LVM	0	I	None	2.25	36.82	1429	606	43
NKLL00000000	RL09	LVM	0	II	None	2.25	36.83	1429	559	21
NKLK00000000	RL10	LVM	0	I	None	2.15	36.91	1429	612	31
NKLJ00000000	RL11	LVM	0	II	None	2.17	36.90	1429	482	5
NKLF00000000	RL16	LVM	3	II	None	2.56	36.49	1429	855	27
NKKX00000000	RL26	LVM	3	II	None	2.21	36.90	1429	525	103
NKKW00000000	RL27	LVM	3	I	None	2.51	36.84	1429	815	78
NKKU00000000	RL29	LVM	2	II	None	2.20	36.88	1429	501	44
NKKR00000000	RL32	LVM	1	II	CA	2.34	36.97	1429	644	63
NKLR00000000	RL02	DVM	9	III	None	2.22	36.88	1429	528	13
NKLN00000000	RL07	DVM	10	IV	None	2.16	36.94	1429	498	6
NKLI00000000	RL13	DVM	9	V	None	2.19	36.89	1429	488	28
NKLH00000000	RL14	DVM	9	V	None	2.56	36.76	1429	837	63
NKLG00000000	RL15	DVM	8	V	CT	2.27	36.79	1429	593	74
NKLE00000000	RL17	DVM	8	III	None	2.31	37.08	1429	605	250
NKLD00000000	RL19	DVM	8	V	None	2.41	36.93	1429	527	117
NKLC00000000	RL20	DVM	10	III	Candida	2.49	36.47	1429	660	41
NKLB00000000	RL21	DVM	9	V	None	2.49	36.79	1429	807	72
NKLA00000000	RL23	DVM	10	III	None	2.30	36.84	1429	621	1
NKKZ00000000	RL24	DVM	9	III	None	2.37	36.72	1429	682	9
NKKY00000000	RL25	DVM	9	V	None	2.32	36.84	1429	618	16
NKKV00000000	RL28	DVM	10	IV	None	2.17	36.88	1429	489	63
NKKT00000000	RL30	DVM	10	IV	None	2.27	36.76	1429	603	20
NKKS00000000	RL31	DVM	10	IV	CA	2.31	36.93	1429	652	48
NKKQ00000000	RL33	DVM	8	I†	TV	2.37	36.73	1429	631	31

VM vaginal microbiota, LVM Lactobacillus-dominated VM, DVM dysbiotic VM, CT Chlamydia trachomatis, CA Condylomata accuminata, TV Trichomonas vaginalis, VM clusters: I—L. iners, II—L. crispatus, III—G. vaginalis-Sneathia, IV—Sneathia-Lachnospiraceae, V—Sneathia
† This sample clustered together with L. iners-dominated samples, but contained many reads belonging to BV-associated bacteria

ISSN: 2049-2618