Table 1 Positive selection analyses of C4(AC4) or C1(AC1) gene sequences from begomovirus and curtovirus species.

From: Positive selection and intrinsic disorder are associated with multifunctional C4(AC4) proteins and geminivirus diversification

Coding region

Nucleotides in coding region

Amino acids

ωa

Positively selected sitesb

Gene sequences of 200 begomoviruses

C4/AC4

255

85

1.528

30 (23)c

3S, 6S, 8C, 9L, 10F, 11S, 14E, 16T, 17T, 19K, 21N, 27Y, 29Q, 30P, 31G, 37Q, 43Q, 44A, 52T, 57P, 58L, 62N, 67E, 73A, 74A, 75R, 76T, 80L, 82Q, 84P

C1/AC1

255

85

0.127

–

Gene sequences of 91 begomovirus extensions

C4/AC4

33

11

0.935

3 (1)d

4A, 6S, 7L

C1/AC1

33

11

0.321

–

Gene sequences of 11 curtovirus isolates

C4

255

85

1.143

23 (3)e

4L, 9C, 16F, 17R, 19Q, 20I, 23Y, 26W, 27Y, 29Q, 30P, 31G, 33H, 34I, 37Q, 45A, 50P, 53T, 68V, 77Q, 81H, 82M, 85R

C1

255

85

0.194

–

CP

762

254

0.041

–

  1. aMean ratio of the nonsynonymous (dN) and the synonymous substitution rates (dS). ω < 1 represents purifying selection; ω = 1 neutral selection; and ω > 1 positive selection.
  2. bNumber of amino acid sites under positive selection based on Bayes empirical Bayes analysis. Amino acid residue number and single letter amino acid designation having a posterior probability of P > 90% in regular font and of P ≥ 95% in bold font.
  3. cAmino acid positions and amino acids refer to HE616777 (African cassava mosaic Burkina Faso virus; ACMBFV).
  4. dAmino acid positions and amino acids refer to AJ851005 (Ageratum leaf curl virus; ALCuV).
  5. eAmino acid positions and amino acids refer to M24597 (Beet curly top virus; BCTV/CA/Logan).
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