Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus
S., A., S., E., D., I., F., E., Khalifa, M., S., S. (2022). Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus. EKB Journal Management System, 14(2), 1-18. doi: 10.21608/eajbsg.2022.248724
Abdel Razek Fatma S.; El-Masry Samar S.; Ibrahim S. D.; El-Arabi T. F.; Mahmoud E. Khalifa; Sadik A. S.. "Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus". EKB Journal Management System, 14, 2, 2022, 1-18. doi: 10.21608/eajbsg.2022.248724
S., A., S., E., D., I., F., E., Khalifa, M., S., S. (2022). 'Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus', EKB Journal Management System, 14(2), pp. 1-18. doi: 10.21608/eajbsg.2022.248724
S., A., S., E., D., I., F., E., Khalifa, M., S., S. Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus. EKB Journal Management System, 2022; 14(2): 1-18. doi: 10.21608/eajbsg.2022.248724

Bioinformatics Analyses of The Complete DNA Genome of An Egyptian Isolate of Banana bunchy Top Virus

Egyptian Academic Journal of Biological Sciences, G. Microbiology
Article 1, Volume 14, Issue 2, December 2022, Page 1-18  XML PDF (1.15 MB)
Document Type: Original Article
DOI: 10.21608/eajbsg.2022.248724
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Authors
Abdel Razek Fatma S.1; El-Masry Samar S.1; Ibrahim S. D.2; El-Arabi T. F.1; Mahmoud E. Khalifa3; Sadik A. S.1
1Department of Agricultural Microbiology (Laboratory of Virology), Faculty of Agriculture, Ain Shams University, P.O. Box 68, Hadayek Shobra, Cairo, Egypt
2Agricultural Genetic Engineering Research Institute, Agricultural Research Center, 9 Gamaa st., P.O. Box, 12619, Giza, Egypt
3Botany and Microbiology Department, Faculty of Science, Damietta University, Damietta, Egypt
Abstract
Banana bunchy top disease (BBTD) caused by Banana bunchy top virus (BBTV) was recorded in the early twentieth century in Egypt. It is considered the most economic impact on banana yield productivity.Bioinformatics analyses of the complete genome of an Egyptian isolate of BBTV compared to overseas BBTV isolates or strains and other Nanoviruses were aimed. Banana leaf samples naturally infected with BBTD were collected from the open field and the presence of BBTV was detected via PCR. Bioinformatics analyzes of the BBTV-DNA genome were also studied. The experimental results showed that BBTV isolates of this study had a genome that consists of six encapsidated single-stranded DNA components (BBTV-DNA-R (LC468138, -U3 (LC468139), -S (LC468140), -M (LC468141), - C (LC468142) and –N (LC468143)) of ~ 1.1 kb in length, each with one open reading frame (ORF) in the virion-sense Two conserved regions (Common region-stem loop (CR-SL) and common region-M (RC-M)). TATA box, i.e., non-nucleotide potential TATA and polyadenylation signals adjacent to GC-rich regions that contain the TTG sequence were found. Differences ranging from 0.55 to 4.60% were recorded when BBTV components were compared to the most similar oversea BBTV strains of seven countries. Phylogenetic trees confirmed the genetic relationships among the high percentage of similarity between the compared BBTV strains. Families of Gene domains, restriction enzyme maps and differences between BBTV components and those of nano viruses were also discussed. The six BBTV-DNA components contain ORFs encoding the genes of rolling-circle replication initiation protein (rp < /em>, DNA-R), a protein of unknown function (DNA-U3), a coat protein peptide (cp < /em>, DNA-S), movement protein (mv, DNA-M), cell cycle link protein (ccl, DNA-C) and a nuclear shuttle protein (ns, DNA-N), respectively. Further studies should be done using molecular docking tools in a trial to find a suitable control strategy for BBTV.
Keywords
BBTD; BBTV; Bioinformatics analyzes; Genome; Domains; Nanoviruses
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