Table 1.

Summary of mutations in the BVDV 3′ terminal region from experiments on miRNA independence.

BVDV genome	Engineered sequence	S2 reversion	Clones	3′ terminus
BVDV-WT	UAACAGCCCCC		N/A	UAACAGCCCC(C)
BVDV-WT+AG	UAACAGAGCCCCC		N/A	UAACAG__CCCC
BVDV-let-7/let-7p3,4+AG	UAACAGAGCCCCC	No	3	UAACAGAGCCCC
			1	UAACAGAGCCC _
			1	UAACAGAGCCCU
			1	UAACAGAGCCUC
			1	UAACAGAGCCUU
			1	UAACAGAGCCUUU
			1	UAACAGAC___
BVDV-let-7/let-7p3,4+AG+mimic	UAACAGAGCCCCC	No	N/A	UAACAG__UCCC
BVDV-WT+2N	UAACAGNNCCCCC		10	UAACAG__CCCCC
BVDV-let-7/let-7p3,4+2N	UAACAGNNCCCCC	No	7	UAACAGAGCCC_
			2	UAACAGAGCCG_
			1	UAACAGAGCAC_
BVDV-let-7/miR-17p3,4+2N	UAACAGNNCCCCC	Yes	6	UAACAG__CACCC
			1	UAACAG__CCCCC
			1	UAACAG__CACC
			1	UAACAG__CACUU
			1	UAACAG__CACU
BVDV-miR-17/miR-17p3,4+2N first passage	UAACAGNNCCCCC	No	4	UAAUAAUUUCUC
		No	4	UAACAG__CCCCU
		Yes	1	UAACAG__CCCCCCU
		Yes	1	UAACAG__CCCC
BVDV-miR-17/miR-17p3,4+2N second passage	UAACAGNNCCCCC	Yes	4	UAACAG__CCCC
BVDV-miR-17/miR-17p3,4-UAAUUUCUC	UAAUAAUUUCUC	No	2	UAAUAAU__CCC
			2	UAAUAAU__C__
			1	UAAUAAUU____
			1	UAAUAAUUU_U_
			1	UAAUAAUUAUU_
			1	UAAUAAUU_CU_
			1	UAAUAAUCCCU_
			1	UAAUAAUUCUCAUAG

Analysis was done for individual bacterial clones acquired after purifying and cloning RNA from supernatant passaged twice to naïve cells unless otherwise indicated. Engineered sequences are underlined to discriminate from the parental sequence and resulting changes are bold italicized. Deletions of the engineered or the consensus sequence are indicated by underscores. The number of bacteria clones that had the reported sequence are indicated, except for cases of bulk sequencing (N/A).