Restriction Enzyme Maps of Circular Sequences of BBTV-DNA Components and Bioinformatics of Their Amino Acids

S., Abdel-Razek Fatma; D., Ibrahim S.; S., El-Masry Samar; A., Faiesal Abeer; S., Sadik A.

doi:10.21608/eajbsg.2022.260028

Restriction Enzyme Maps of Circular Sequences of BBTV-DNA Components and Bioinformatics of Their Amino Acids

Document Type : Original Article

Authors

¹ Department of Agricultural Microbiology (Virology Laboratory), Faculty of Agriculture, Ain Shams University, P.O. Box 68, Hadayek Shobra, 11241, Cairo, Egypt

² Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Center (ARC), 9 Gamaa St., P.O. Box12619, Giza, Egypt

³ Department of Basic and Applied Agricultural Sciences, Higher Institute for Agriculture Co-Operation, Shoubra EL-Kheima, Egypt

10.21608/eajbsg.2022.260028

Abstract

In this study, NEBcutter is used in generating the restriction enzymes map of the circular sequence of BBTV-DNA components (DNA-R, DNA-U3, DNA-S, DNA-M, DNA-M and DNA-N) appearing with each cleavage code and enzyme name code. Results showed that the closest enzymes at the 5' end of the restriction sites of HphI, ApoI,BtsIMutI, Fnu4HI, Hpy99Iand BccIwere detected for the six BBTV-DNA components, receptively. While, the restriction sites of Cac8I, AluI, Hpy166II, DpnII, AccI and AseI were detected as the closest enzymes at 3' end for the same components, respectively. These BBTV-DNA components were encoding the genes of replication-associated protein (BBJ34149.1, 278 aa), U3 protein (BBJ34150.1, 88 aa), capsid protein (BBJ34151.1, 175 aa), movement protein (BBJ34152.1, 102 aa), cell-cycle link protein (BBJ34153.1, 156 aa) and nuclear shuttle protein (BBJ34154.1, 129 aa), respectively. Similarity ranged from 95 to 100% found when sequences producing significant alignments were done between the ORFs of BBTV-DNA components and the most similar BBTV overseas strains. The number and type of domains of the ORFs of the six BBTV components and their families were determined. Two domains were found for DNA-R (viral rep and RNA_helicase domains). NA-U3 has a hypothetical protein belonging to un-characterized protein U3 domain, one domain called nanovirus_coat the protein family membership is Nanovirus coat protein recorded for DNA-S, DNA-Mhas one domain Babovirus_MP, DNA-C has a domain belonging to cell cycle protein and DNA-N has a domain belonging to nuclear shuttle protein domain.

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