TY  - JOUR
AU  - Balakrishnan, Krishnan Nair 
AU  - Abdullah, Ashwaq Ahmed 
AU  - Abba, Yusuf 
AU  - Bala, Jamilu Abubakar 
AU  - Jesse Abdullah, Faez Firdaus 
AU  - Kamal, Farina Mustaffa 
AU  - Nazariah, Zeenathul Allaudin 
AU  - Aini, Ideris 
AU  - Mustapha, Noordin Mohamed 
AU  - Mohd Lila, Mohd Azmi 
PY  - 2015
TI  - Closing the Gaps in Rat Cytomegalovirus ALL-03 (Malaysian Strain) Genomic Scaffold
JF  - American Journal of Animal and Veterinary Sciences
VL  - 10
IS  - 3
DO  - 10.3844/ajavsp.2015.133.140
UR  - https://thescipub.com/abstract/ajavsp.2015.133.140
AB  - Next generation sequencing technologies has revolutionized genomic research by producing a large volume of sequence data and lowest per base cost compared to the traditional sanger method. Although this technology offers many advantages, gap occurrences are commonly found in draft assemblies. The same problem was observed with Rat Cytomegalovirus (RCMV) ALL-03 (Malaysia strain), where a complete genome sequence could not produce the complete genome due to the presence of gaps in the draft genome. This restrains our ability to take full advantage of genome data. This study aimed to identify the sequence data present in the gap regions and close these gaps in order to produce a complete genome sequence for RCMV ALL-03. Twenty sets of specific primers were designed between two adjacent contigs and PCR was carried out to obtain the appropriate sequences in respective gap regions. Sanger sequencing was employed in the PCR product to get the gap sequences. Out of the five identified gaps in the RCMV ALL-03 genome sequence, only three were confirmed to be true gaps, while the other two were due to sequence repeats. In conclusion, all the gaps were closed successfully and complete genome sequence of RCMV ALL-03 can now be explored in further studies.