TABLE 2.
Nucleotide changes in parental rCan upon serial passage in the presence and absence of 1 mM AmCl
| Nucleotide (nt) | Stock |
p10 no AmCl |
p21 AmCl |
|||
|---|---|---|---|---|---|---|
| nt changea (% reads) | Amino acid change | nt change (% reads) | Amino acid change | nt change (% reads) | Amino acid change | |
| S RNA | ||||||
| 5′ end | 1–8 missing | 1–8 missing | 1–8 missing | |||
| 311 | T→C (63) | GP1 F75L | ||||
| 977 | C→T (25) | GP2 H297Y | ||||
| 1367 | A→T (94) | GP2 I427F | ||||
| 1793 | A→T (27) | NP T514S | ||||
| 2217 | C→T (38) | NP D372 silent | ||||
| 3406 (3′-UTR) | A→T (67) | A→T (53) | ||||
| 3′ end | 3413 missing | |||||
| L RNA | ||||||
| 5′ end | 1–4 missing | 1–5 missing | 1–5 missing | |||
| 150 | G→A (65) | Z A23T | ||||
| 3′ end | 7114 missing | 7109–7114 missing | 7111–7114 missing | |||
a
Changes present in ≥10% of reads relative to the sequence of reverse genetics plasmids used to construct rCan viruses (28). The raw RNA-Seq data originally were aligned to Candid#1 S and L RNA reference genomes (AY746353.1 and AY746354.1, respectively).