Table 4.

Genomic resequencing results from strains in the present study: large-scale sequence variations and their occurrence in each strain

Locus	Nucleotides	Description	LL1025 (WT)	M863	M1442	M2886
Tsac_0179		Engineered ldh deletion	WT	Deletion	Deletion	Deletion
Tsac_0389	424,393–424,493	Small deletion in CRISPR repeat region	WT	Deletion	Deletion	Deletion
Tsac_0832	875,581–875,753	Small deletion in intergenic repeat region	WT	Deletion	Deletion	Deletion
Tsac_1744–1745		Engineered pta/ack deletion	WT	Deletion	Deletion	Deletion
Tsac_2564	2618,783–2618,797	Transposon insertion in putative promoter of gene for PTS IIA subunit	WT	Putative transposon	Putative transposon	Putative transposon
Tsac_0795		Engineered deletion	WT	WT	Deletion	Deletion
Tsac_1474–1477		Engineered deletion of EPS gene cluster	WT	WT	Deletion	Deletion
Tsac_2114		Engineered mgs deletion/insertion	WT	WT	WT	Breakpoints in 23 % of reads b
Tsac_2491		Engineered perR deletion	WT	WT	WT	Deletion

^aThe pta/ack genes were re-introduced elsewhere in the genome

^bThe fraction of the reads supporting the mutation (left and right breakpoints averaged). This value was >90 % for all other breakpoints