Suggested mechanisms for Zika virus causing microcephaly: what do the genomes tell us?

Table 1 Adaptive evolution analysis.

Protein	Reference protein		Residue in the Event I, II, and III				Probability (ω > 1)
Protein	Accession	Site	Before Event I	After Event I	After Event II	After Event III	Probability (ω > 1)
C	YP_009227206	R101	R	K	K	K	0.508
C	YP_009227206	I110	I	V	V	V	0.519
NS2A	YP_009227200	V208	I(12), V(3)	L	L	L	0.578
pre-M	YP_009227197	V31	V	V	M	M	0.572
NS2A	YP_009227200	A143	A	A	V	V	0.621
NS4B	YP_009227204	L49	L	L	F	F	0.603
		V184	V	V	I	I	0.629
		L186	L	L	S	S	0.841
NS5	YP_009227205	S703	S	S	D	D	0.941
pre-M	YP_009227197	S17	S	S	S	N	0.696

The branch-site model was performed with the pre-specified lineages noted by Events I, II, and III in Fig. 2. The positions are inferred from the proteins of reference genome strain MR 766 (NC_012532), for which the accession numbers are specified. For the site V208 in NS2A, two amino acid letters were observed before Event I, and numbers in parenthesis indicate their occurrence

ISSN: 1471-2105