Table 2 Nucleotide substitutions in the consensus sequences of the Qβ populations evolved at higher-than-optimal temperature.

From: Evolutionary adaptation of an RNA bacteriophage to the simultaneous increase in the within-host and extracellular temperatures

Virus population

Nucleotide substitution

A1088G

D342G

A2

U1295C

F411S

A2

G1312A

V417I

A2

U1766C

Syn

A1

A1956G

K204E

A1

C2201U

Syn

A1

U2776C

V141A

Rep

U3402C

S350P

Rep

A3798G

K482E

Rep

Qβ(wt)TR-1

L1

    

G

    

Qβ(wt)TR-1

L2

    

G

    

Qβ(wt)TR-2

L1

  

A + G

 

G

U

   

Qβ(wt)TR-2

L2

  

A + G

 

G

U

   

Qβ(wt)TR-3

L1

G

  

C

G

 

U + C

U + C

A + G

Qβ(wt)TR-3

L2

A + G

   

G

U

 

C

 

Qβ(A1956G)

TR-4

L1

A + G

 

A + G

 

G

  

C

 

Qβ(A1956G)

TR-4

L2

A + G

U + C

A + G

 

G

  

C

 
  1. Virus populations are described in Fig. 1 and in Methods. L1 and L2 represent replicate evolutionary lineage. Nucleotide substitutions were determined with respect to the sequence of the Qβ cDNA cloned in pBR32231,32. Polymorphisms are indicated as the sum of the two nucleotides present at that position. Blank cells indicate the presence of the wild-type nucleotide. Below each nucleotide substitution we show the corresponding change of amino acid (Syn stands for synonymous substitutions) and the protein where it is located [A2, A1, or Replicase (Rep)].
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