PROFILING OF LONG NON-CODING RNA (LNCRNA) IN RIPENING PROCESS OF BANANA MUSA ACUMINATA CV. CAVENDISH

• Main Author: Akip Poapa, Muhammad
• Format: Theses
• Language: Indonesia
• Online Access: https://digilib.itb.ac.id/gdl/view/46982
• Institution: Institut Teknologi Bandung

Long non-coding RNA is one of RNA transcripts that does not code proteins. The characteristics of this transcript are the size of more than 200 nucleotides, does not have an open reading frame, and does not have the potential to be translated into proteins. LncRNA can bind to miRNA, making it unable to bind to the mRNA target, this mechanism is known as the sponge miRNA. Through this mechanism, lncRNA regulates various metabolic processes in cells. To this date, there has yet been a research conducted on Banana’s lncRNA despite banana being one of the biggest export of Indonesia fruit commodity. The aim of this study was to identify transcribed lncRNA during banana fruit ripening that was delayed using chitosan coating, lncRNA mechanism as sponges miRNA then validated using qPCR method. In this study the Musa acuminata cv transcriptomic data was used to identify the lncRNA. To validate the miRNA sponges mechanism, banana fruit pulp RNA were isolated in ripe and unripe states and with chitosan coating which served purpose to delayed the ripening of the fruit thus obtained a data of normal and delayed fruit ripening. To predict the interaction between lncRNA and miRNA, PsRobot was used.. A total of 65710 lncRNAs were identified, and as many as 6 lncRNAs were predicted to interact with miRNA lncRNA_00266745, lncRNA_00307579, lncRNA_00278214, lncRNA_00113430, lncRNA_00305751. The five lncRNAs are predicted to interact with three miRNAs, namely, macmiR156a, mac-miR160b, mac-miR166a. The interaction between miRNA and lncRNA plays a role in the regulation of expression of other genes including SPL17, PME, endo-1,3-beta-glucosidase which are genes that have a role in the ripening process of bananas. The results of validation with qPCR showed that from the 3 predicted interactions, the interaction between lncRNA_00307579, mac-miR166a and endo-1,3-beta-glucosidase genes had correlation coefficient values >0.8 indicating that there was an indirect interaction due to the mechanism of lncRNA as miRNA endogenous sponge or competing RNA.