Waqas ALI, Mudasser HABIB, Rai Shafqat Ali KHAN, Muhammad Ashir ZIA, Muhammad Usman MAZHAR, Asad JAVED, Muhammad FAROOQ, Muhammad Salah Ud Din SHAH

P1 Coding Region Diversity of Group VII (Sind-08) Serotype Asia-1 Foot-and-Mouth Disease Virus

In this study, the capsid protein coding region of serotype Asia-1 viruses (n=131) were analyzed, giving importance to the viruses circulating since 2011 within the Group VII (Sind-08). The isolates recovered during 2011-2017 were found to group within the re-emerging cluster of Group VII (Sind-08). The time of the most recent common ancestor for this cluster was estimated to be approximately 2004. In comparison to the older isolates of Group VII (2001-2004), the re-emerging viruses showed variation at fourteen amino acid positions, including substitutions at the antigenically critical residues VP1140, VP1142 and VP277. In Group VII (Sind-08), all three major antigenic sites have mutations (Site I and II had four consensus changes at positions 140, 141 and 77, 79 respectively, while site IV had a replacement at position 59) relative to the internationally recommended vaccine strain (Shamir 89). This study also explains the development and optimization of a new RT-PCR method that may be employed to amplify and sequence a 2901 base pair (bp) section covering entire capsid coding region (P1) of the FMDV genome. This method offers a tool that can be employed for antigenic profiling and phylogenetic analyses of FMDV to help vaccine matching or strain selection in the episode of outbreaks.

Grup VII (Sind-08) Serotip Asya-1 Şap Hastalığı Virüsünün P1 Kodlayan Bölge Çeşitliliği

Bu çalışmada, 2011’den bu güne kadar Grup VII (Sind-08) içerinde yer alarak dolaşan virüslere vurgu yapılmak suretiyle serotip Asya1 virüslerinin (n=131) kapsid proteinini kodlayan bölgesi analiz edildi. 2011-2017 yılları süresince elde edilen izolatların Grup VII (Sind-08)’nin yeniden çıkış gösteren topluluğu içerisinde gruplandığı tespit edildi. Bu topluluk için en güncel ortak atanın zamanı, yaklaşık 2004 olarak tahmin edildi. Grup VII (2001-2004)’nin eski izolatları ile karşılaştırıldığında, yeniden çıkış gösteren virüsler on dördüncü amino asit pozisyonunda antijenik olarak önemli rezidüler olan VP1140, VP1142 ve VP277’de yer değiştirmeleri içeren varyasyonlar göstermekteydi. Uluslararası tavsiye edilen aşı suşları (Shamir 89) ile karşılaştırıldığında, Grup VII (Sind-08)’de tüm üç majör antijenik bölgede (Bölge I ve II’de sırasıyla 140, 141 ve 77, 79 pozisyonlarında dört konsensüs değişiklik ve bölge IV’de pozisyon 59’da yer değiştirme) mutasyon bulunmaktaydı. Bu çalışma ile Şap Hastalığı Virüsü genomunun tüm kapsid kodlayan bölgesini (P1) içeren 2901 baz çifti bölgesini amlifiye etme ve sekanslamada yeni bir RTPCR metodunun geliştirilmesi ve optimizasyonu açıklanmıştır. Bu metot, salgınlarda aşı eşleştirme veya suş seçimine yardım etmek için Şap Hastalığı Virüsünün antijenik profili ve filogenetik analizi amacıyla kullanılabilir.

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