Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation

BMC Genomics

Table 1 Genome features of the 17 L . casei strains used in the study ¹

Strain	Origin	Ave. coverage	Number contigs	Total bp in contigs	% GC	Plasmid DNA	GenBank accession number	CDS features	tRNAs	Reference or source
ATCC 334	Swiss cheese	8X	2	2,924,325	46.6	1	NC_008526 and NC_008502	2,643	59	[21]
M36	Cheddar cheese	19X	78	3,152,126	46.3		AFYO00000000	3,001	57	[30]
UW1	Cheddar cheese	21X	143	2,865,538	46.4		AFYR00000000	2,826	54	[30]
UW4	Cheddar cheese	22X	122	2,758,298	46.4		AFYS00000000	2,689	57	[30]
Zhang	Koumiss	6X	2	2,898,335	46.4	1	NC_014334 and NC_011352	2,723	59	[44]
BD-II	Koumiss	381X	2	3,127,288	46.3	1	CP002618 and CP002619	3,069	59	[45]
LC2W	Dairy product	98X	2	3,077,434	46.3	1	CP002616 and CP002617	3,019	58	[46]
Lc-10	Dairy product	24X	76	2,951,397	46.4		AFYT00000000	2,780	58	This study
Lpc-37	Dairy product	133X	150	3,075,253	46.3		AFYU00000000	2,861	58	This study
BL23	Unknown	34X	1	3,079,196	46.3	0	NC_010999	2,977	60	[43]
12A	Corn silage	23X	28	2,885,619	46.4		AFYJ00000000	2,702	57	[30]
21/1	Corn silage	26X	75	3,215,878	46.2		AFYK00000000	3,080	57	[30]
32G	Corn silage	17X	42	3,011,496	46.4		AFYL00000000	2,920	57	[30]
A2-362	Wine	24X	167	3,361,266	46.1		AFYM00000000	3,262	58	[28]
UCD174	Wine	25X	116	3,071,637	46.4		AFYQ00000000	3,020	57	[28]
T71499	Human blood	30X	55	3,000,122	46.2		AFYP00000000	2,796	57	[30]
CRF28	Human blood	24X	57	3,036,548	46.3		AFYN00000000	2,911	54	[30]

¹Determined for all genomes using the ASAP database (https://asap.ahabs.wisc.edu).

ISSN: 1471-2164