In Silico Characterization and Primer Design of Fasciclin-Like Arabinogalactan proteins (FLAs) gene in Kelampayan

Nor Shazlina, Mohamed Mizan (2022) In Silico Characterization and Primer Design of Fasciclin-Like Arabinogalactan proteins (FLAs) gene in Kelampayan. [Final Year Project Report] (Unpublished)

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Abstract

The fasciclin-like arabinogalactan proteins (FLAs) have crucial functions in the growth and environmental adaption of the Kelampayan tree. The Kelampayan tree is a big, rapidly expanding tree that is high in demand due to its many advantages, including in medicine and the timber industry. The problem statement for this research is the lack of genetic information related to the function of the FLAs gene specificallythe in Kelampayan tree compared to other species. By using bioinformatics methods, the research focused on the in silico characterization and primer design of the FLAs gene in Kelampayan. To have a better understanding of the evolution of the FLAs gene family of the Kelampayan ESTs, the Conserved Domain Database and the MEME suite serve were used to characterise the motif and conserved domain analysis of 49 FLA-related genes from several plant species. Primer-BLAST was used to compare the criteria for each FLAs gene in Keltoorder to choose the optimal primer. The efficiency of the primer was confirmed using OligoAnalyzer and BLAST. The classification of these FLAs into two classes is mainly based on phylogenetic analysis of plant FLAs. This research discovered two distinct clades based on the similarity of genes across species. After this study, the FLAs gene characterization and primer design in Kelampayan will enable future research to determine how FLAs genes will contribute to Kelampayan tree growth. The results provide insight into the potential future applications of the data, including full-length FLA gene isolation, SNP assay, etc.

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