Pemodelan pemrograman dinamis pada multiple sequence alignment untuk perancangan primer Selulase

Abstract

The role of cellulase is absolutely very important to degrade cellulose which is abundant in environment like biomass waste. Many microorganisms have capability to produce cellulase. In order to improve the cellulase production by the microorganism, one of methods can be done by inserting the sequence gene of cellulase. The information of the sequence gene can be extracted from microorganisms of cellulase producer. The first step to predict the sequence gene of cellulase, we should design the primer of the sequence gene by summarizing the information from many microorganism which are cellulase producer. The purpose of this study is the potential cellulase primers design from DNA sequence encoding cellulase alignment to be performed by multiple sequence alignment techniques using progressive methods. The procedure of this research in general divided into 3 parts, which are data preparation, multiple sequence alignment with progressive methods and primer design. The data used in the form of genes encoding cellulase retrieved from NCBI GenBank (National Center for Biotechnology Information). This study, our approach to search for potential primer to increase the productivity of cellulase enzymes. In its design, the method used multiple sequence alignment (MSA), which uses progressive alignment algorithm. In the alignment phase, from 5 obtained a cellulase coding sequences conserved region 3 (conserved regions). While the template that is used to design the primer sequences potentially Solanum lycopersicum NM-001247953 from areas that have a high similarity (conserved region). Retrieved 46 primer pairs from conserved region 3. Each of the conserved region-1 to as many as 28 pairs of primers, conserved region-2 to as many as 13 pairs of primers and the conserved region of the 3 by 5 primer pairs.