Dengue virus (DENV) of the Flaviviridae family is a mosquito-borne virus
which cause dengue disease in several tropical and sub-tropical areas. It is transmitted
by Aedes mosquitoes, and Ae. aegypti is the main vector. Many studies focused on the
functions of protein-coding genes in virus-host interaction. Non-coding genes such as
long non-coding RNAs (lncRNAs) have shown to have potential role in virus-host
interaction. Previous studies showed that lncRNAs have important roles such as
development, virus-host interaction and immunity. However, information on the
functions of Ae. aegypti lncRNAs are still incomplete. Thus, in this research, in order to
complete the set of lncRNAs in the reference genome a genome-wide identification and
characterization of Ae. aegypti lncRNAs were performed using high depth RNAsequencing
data sets and vigorous bioinformatics tools. Total number of 4689 novel
long non-coding RNAs were systematically identified and characterized, and they were
added to the reference genome. Among these novel long non-coding RNAs, 2,064 were
intergenic, 2076 and 549 were intronic and antisense respectively. Moreover, it was
found that the characteristics of Ae. aegypti novel lncRNAs were similar to lncRNAs
discovered in other species like lower GC content, shorter in length, more repeat
sequences, and lower sequence conservation compared to protein-coding genes.
Furthermore, list of accurate and vigorous differentially expressed genes was one of the
targets in this project. As a result, transcriptome profile of A
