High pathogenicity and low genetic evolution of avian paramyxovirus type I (Newcastle disease virus) isolated from live bird markets in Uganda

Byarugaba, Denis K; Mugimba, Kizito K; Omony, John B; Okitwi, Martin; Wanyana, Agnes; Otim, Maxwell O; Kirunda, Halid; Nakavuma, Jessica L; Teillaud, Angélique; Paul, Mathilde C; Ducatez, Mariette F

doi:10.1186/1743-422X-11-173

Virology Journal

Table 2 Estimates of evolutionary distances (in number of substitutions per site) over sequence pairs between genotypes of class II

From: High pathogenicity and low genetic evolution of avian paramyxovirus type I (Newcastle disease virus) isolated from live bird markets in Uganda

Genotype (number of sequences analyzed)	I	II	III	IV	IX	V	VI	VII	XII	VIII	X	XI	XIII	XIV	XVI	XVII	XVIII
I (n = 113)		0.009	0.009	0.008	0.008	0.011	0.010	0.012	0.010	0.008	0.013	0.011	0.011	0.013	0.011	0.012	0.012
II (n = 128)	0.118		0.010	0.010	0.010	0.013	0.012	0.014	0.011	0.009	0.015	0.014	0.013	0.017	0.013	0.014	0.013
III (n = 9)	0.103	0.118		0.008	0.009	0.011	0.010	0.012	0.010	0.010	0.013	0.012	0.011	0.014	0.011	0.013	0.011
IV (n = 6)	0.101	0.115	0.074		0.008	0.010	0.009	0.011	0.008	0.010	0.010	0.011	0.010	0.012	0.009	0.011	0.011
IX (n = 25)	0.104	0.120	0.081	0.073		0.011	0.010	0.012	0.010	0.010	0.012	0.012	0.011	0.014	0.011	0.012	0.011
V (n = 124)	0.179	0.193	0.163	0.140	0.161		0.009	0.010	0.009	0.013	0.014	0.011	0.010	0.012	0.010	0.011	0.010
VI (n = 139)	0.161	0.179	0.149	0.120	0.148	0.144		0.009	0.008	0.011	0.013	0.008	0.008	0.011	0.009	0.010	0.009
VII (n = 312)	0.170	0.195	0.154	0.133	0.157	0.158	0.124		0.010	0.013	0.015	0.009	0.009	0.011	0.011	0.010	0.009
XII (n = 8)	0.139	0.154	0.125	0.097	0.121	0.131	0.106	0.119		0.011	0.013	0.009	0.008	0.011	0.009	0.010	0.010
VIII (n = 4)	0.104	0.109	0.118	0.114	0.114	0.185	0.166	0.175	0.151		0.014	0.013	0.012	0.015	0.012	0.013	0.013
X (n = 19)	0.177	0.188	0.161	0.115	0.151	0.206	0.197	0.212	0.181	0.185		0.015	0.014	0.017	0.013	0.015	0.015
XI (n = 4)	0.171	0.193	0.154	0.135	0.155	0.160	0.114	0.103	0.114	0.173	0.211		0.007	0.010	0.011	0.008	0.008
XIII (n = 27)	0.167	0.189	0.154	0.129	0.146	0.154	0.121	0.105	0.115	0.173	0.203	0.096		0.009	0.010	0.008	0.007
XIV (n = 52)	0.203	0.234	0.197	0.170	0.196	0.184	0.150	0.140	0.151	0.208	0.250	0.126	0.126		0.013	0.010	0.010
XVI (n = 4)	0.151	0.172	0.142	0.111	0.139	0.152	0.138	0.154	0.118	0.157	0.191	0.150	0.141	0.180		0.012	0.011
XVII (n = 54)	0.171	0.202	0.172	0.149	0.162	0.161	0.136	0.127	0.134	0.182	0.216	0.114	0.112	0.127	0.164		0.008
XVIII (n = 15)	0.176	0.189	0.163	0.145	0.155	0.159	0.122	0.119	0.127	0.178	0.208	0.104	0.101	0.125	0.159	0.104

The number of base substitutions per site from averaging over all sequence pairs between groups are shown. Standard error estimate(s) are shown above the diagonal, in italic font. Analyses were conducted using the Maximum Composite Likelihood model. The rate variation among sites was modeled with a gamma distribution (shape parameter = 1). All positions containing gaps and missing data were eliminated. Numbers in boldface refer to genotype V viruses.

Back to article page

ISSN: 1743-422X

Contact us

Submission enquiries: journalsubmissions@springernature.com