TABLE 1

Nucleotide and amino acid variability in RSV-A genotypes identified in Kilifi, Kenya, 2000-2001 to 2012-2013

Epidemic season% Variability (no. of sequences)a
GA2 and ON1bGA5Overall
NucleotidesAmino acidsNucleotidesAmino acidsNucleotidesAmino acids
2000-20010.78 (5)1.17 (5)0.30 (12)0.81 (12)4.26 (18)8.56 (18)
2001-20021.52 (18)2.66 (18)0.25 (21)0.22 (21)4.99 (40)9.49 (40)
2002-2003– (0)– (0)0.45 (25)0.67 (25)0.45 (25)0.67 (25)
2003-2004– (0)– (0)1.76 (7)3.11 (7)1.76 (7)3.11 (7)
2004-20050.12 (8)0.24 (8)0.97 (3)1.63 (3)4.72 (11)8.30 (11)
2005-20060.38 (56)0.83 (56)– (0)– (0)0.38 (56)0.83 (56)
2006-20071.90 (70)2.93 (70)0.32 (11)0.36 (11)3.75 (81)6.26 (81)
2007-20081.71 (18)3.31 (18)NA (1)NA (1)2.62 (19)4.97 (19)
2008-20092.04 (47)3.75 (47)2.04 (47)3.75 (47)
2009-20100.50 (87)0.70 (87)0.50 (87)0.70 (87)
2010-20110.66 (154)0.99 (154)0.66 (154)0.99 (154)
2011-20121.39 (20)2.76 (20)1.59 (51)3.37 (51)
0.43 (31)1.02 (31)
2012-20131.16 (7)0.98 (7)0.99 (53)1.59 (53)
0.37 (46)0.46 (46)
Entire period2.27 (567)3.66 (567)0.77 (80)1.23 (80)3.87 (649)6.44 (649)
  • a Nucleotide diversity, Pi (π), was calculated using DnaSP v5.10 (33). Amino acid diversity, p-distance, was calculated using MEGA v6.06 (32). NA, not applicable. −, no sample.

  • b ON1 values are indicated in boldface.