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. 2019 Oct;74:103917. doi: 10.1016/j.meegid.2019.103917

Table 4.

Estimates of evolutionary distances between genotypes of class II NDV.a, b

Genotype (number of analyzed sequences) No. of base substitutions per sitec
I II III IV V VI VII VIII IX X XI XII XIII XIV XVI XVII XVIII XIX XX
I (n = 120)
II (n = 17) 13.06
III (n = 6) 11.23 13.76
IV (n = 8) 12.79 14.86 10.11
V (n = 47) 18.06 19.69 16.25 15.03
VI (n = 265) 19.69 20.64 18.06 16.07 16.06
VII (n = 772) 18.92 21.63 17.34 15.85 16.12 14.62
VIII (n = 6) 15.53 16.92 13.78 12.41 12.89 13.35 14.15
IX (n = 6) 11.44 12.85 8.62 10.14 16.05 17.86 17.38 13.50
X (n = 22) 12.16 11.83 13.52 14.59 19.85 20.85 20.58 17.16 12.88
XI (n = 14) 20.12 22.60 18.52 15.08 21.76 23.72 24.27 20.56 17.33 22.43
XII (n = 23) 19.48 22.38 18.14 16.51 15.72 13.81 12.70 14.05 18.23 20.96 24.58
XIII (n = 70) 18.79 21.28 17.81 16.15 15.87 15.21 12.91 13.98 17.35 20.49 23.45 11.92
XIV (n = 77) 22.32 25.71 22.18 19.46 18.48 18.29 15.90 16.90 22.44 23.70 28.31 14.47 14.83
XVI (n = 4) 17.71 20.31 16.63 14.68 15.92 17.22 17.67 13.90 16.56 19.16 23.68 17.38 17.22 20.47
XVII (n = 85) 17.71 21.30 17.61 16.19 15.90 15.66 13.76 14.67 17.35 21.01 22.75 12.20 12.15 13.59 18.19
XVIII (n = 17) 18.75 21.55 17.95 16.34 15.92 14.53 13.26 14.46 17.37 20.66 23.27 12.03 11.99 13.95 17.74 10.48
XIX (n = 38) 20.60 21.49 18.80 17.49 10.12 17.71 17.26 15.00 18.41 21.93 24.47 18.12 17.69 20.57 18.56 17.94 18.03
XX (n = 17) 16.77 18.83 15.55 13.71 13.69 10.12 12.84 11.41 15.24 19.20 21.85 12.91 13.28 16.78 15.10 13.33 13.10 16.14
XXI (n = 51) 19.83 21.76 18.52 16.81 16.72 11.88 15.06 14.44 18.08 21.81 24.41 15.46 16.02 18.61 18.23 16.68 15.72 18.51 10.78
a

Inferred from the complete nucleotide F gene sequences.

b

The sequences from genotype XV are identified as recombinant forms and are not included in this analysis.

c

The number of base substitutions per site from averaging all sequence pairs between class II genotypes is shown. Analysis was conducted using the Maximum Composite Likelihood model (Tamura et al., 2004). The rate variation among sites was modeled with a gamma distribution (shape parameter = 1). The analysis involved 1664 nucleotide sequences (8 unclassified sequences not assigned as members of any genotype were excluded from the analysis, UNCL 1–8, see Supplemental Table. S2). Codon positions included were 1st, 2nd, 3rd and noncoding. All positions containing gaps and missing data were eliminated. Evolutionary analyses were conducted in MEGA6 (Tamura et al., 2013). Shaded cell represents inter-genotype nucleotide distance that is lower than 10%.