Analysis of Amino Acid Changes in the Fusion Protein of Virulent Newcastle Disease Virus from Vaccinated Poultry in Nigerian Isolates

Table 4

Estimates of evolutionary divergence (%) between sequences calculated using aa substitutions between study isolates, traditional vaccine strains, and some isolates reported from West Africa.

NDV isolate	Amino acid homology
	OK491971	OK491972	OK491973	OK491974	OK491975	OK491976	OK491977
KU665482.1 LaSota.71.IR/2016	0.208	0.207	0.207	0.208	0.208	0.210	0.210
KT445901.1 Avian orthoavulavirus1strain Komarov	0.203	0.202	0.201	0.203	0.203	0.205	0.205
JF950509.1 Newcastle disease virus strain Mukteswar	0.193	0.191	0.188	0.188	0.190	0.193	0.091
JN872154.1 Avian orthoavulavirus 1 isolate Beaudette C	0.204	0.202	0.202	0.204	0.204	0.206	0.206
JN872151.1 Avian orthoavulavirus 1 isolate Hitchner	0.205	0.204	0.204	0.205	0.205	0.208	0.207
JX316216.1 Newcastle disease virus strain R2B	0.202	0.200	0.198	0.202	0.202	0.203	0.202
EU289028.1 Newcastle disease virus strain VG/GA	0.209	0.207	0.208	0.209	0.209	0.211	0.211
JN872152.1 Avian orthoavulavirus 1 isolate Ulster	0.178	0.175	0.176	0.175	0.178	0.179	0.182
KC987036.1 Newcastle disease virus strain F	0.207	0.204	0.204	0.207	0.205	0.208	0.207
KU058680.1 NDV/Duck/Nigeria/903/KUD U-113/1992	0.090	0.093	0.094	0.093	0.095	0.095	0.097
HF969167.1 NDV/Turkey/Nigeria/NIE 10082/2011	0.089	0.085	0.087	0.086	0.085	0.088	0.089
HF969143.1 NDV/Chicken/Nigeria/NIE 09-1597/2009	0.043	0.039	0.041	0.042	0.041	0.043	0.045
FJ772449.1 NDV/Avian-91333-Nigeria-2006	0.121	0.118	0.119	0.120	0.121	0.120	0.123
JX390609.1 NDV/Chicken/Togo/AKO18/2 009	0.123	0.120	0.122	0.122	0.123	0.122	0.126
HF969175.1 NDV/Chicken/Nigeria/NIE 10-306/2011	0.126	0.124	0.124	0.125	0.125	0.126	0.128
JF966385.1 NDV 2008_Mali_ML007_08	0.121	0.118	0.119	0.120	0.121	0.120	0.122
MT543153.1 NDV/Chicken/Niger/89/2019	0.016	0.013	0.017	0.013	0.019	0.018	0.095

The number of amino acid substitutions per site between sequences is shown. Analyses were conducted using the Poisson correction model [17]. This analysis involved 24 amino acid sequences. All positions with less than 95% site coverage were eliminated, i.e., fewer than 5% alignment gaps, missing data, and ambiguous bases were allowed at any position (partial deletion option). There were a total of 1662 positions in the final dataset. Evolutionary analyses were conducted in MEGA11 [16].