Genomic and Pathogenic Characteristics of Virulent Newcastle Disease Virus Isolated from Chicken in Live Bird Markets and Backyard Flocks in Kenya

Table 2

Percent (%) similarity of isolate KE001/2015 to nucleotide coding sequences of NDV reference strains.

Strain	Genome	Coding regions
		NP	P	V	M	F	HN	L
KE0811/2016 (Mombasa)	98.94	97.34	98.82	96.19	98.99	96.49	96.85	99.06
KE0698/2016 (Malaba)	96.63	96.8	96.54	95.87	97.35	96.18	96.73	97.0
A48-Vd	95.61	97.82	—	—	97.44	97.21	97.66	97.64
Mt15/Tanzania-Vd	96.76	97.75	96.46	96.50	96.80	96.61	97.02	97.56
Largo/71-Vb	92.25	93.06	90.65	90.79	91.87	91.89	92.13	93.87
rAnhinga-Va	89.15	90.27	87.20	87.61	91.87	89.89	89.45	91.44
Italien-IV	86.28	88.29	84.34	83.80	86.21	87.47	87.0	88.72
QH1-VIII	86.49	88.23	85.10	84.12	84.01	86.02	85.95	88.90
AV324/96-VI	85.53	87.68	82.82	81.90	86.48	86.87	86.71	87.73
Mukteswar-III	84.79	85.23	81.81	82.22	85.11	85.84	85.02	87.52
ZJ/1/86/Ch-IX	84.58	86.73	82.40	81.26	84.65	85.60	84.79	87.64
Mali/ML007/08-XIV	84.50	85.98	83.41	80.89	84.56	84.87	84.79	87.21
ZA/AL495/04-VII	84.22	85.91	81.39	83.43	85.75	85.48	86.07	87.34
499-31/2008-XVI	83.36	86.19	80.55	81.26	84.47	83.0	84.32	85.97
MG/1992/08-XI	82.78	84.28	80.97	78.02	83.37	82.87	83.04	84.84
I-2-I	82.69	83.87	78.70	79.04	83.28	83.0	82.98	85.48
BHG-I	82.32	83.46	78.70	79.68	81.73	83.24	82.69	85.30
LaSota-II	82.12	84.14	80.30	79.68	81.91	83.36	82.68	85.10

NP: nucleoprotein; P: phosphoprotein; F: fusion protein; M: matrix protein; HN: hemagglutinin neuraminidase protein; L: RNA-dependent RNA polymerase.