DETEKSI BACTERIAL KEY SPECIES PADA HUTAN SEKUNDER DAN HUTAN TANAMAN INDUSTRI: SEBAGAI UPAYA PENENTUAN BARKODE DNA

Abstract

Biosphere Reserve GSK-BB is an area of peat ecosystem that has been largely converted, causing a decrease in the quality of the peat. Generally, the parameters of peat quality use biological, physical and chemical factors. This parameter has not shown high sensitivity. Therefore, Bacterial Key Species (BKS) was developed from 16S rRNA gene sequences as sensitive parameters by DNA barcode. This study aimed to find the DNA barcode of the detected BKS and the specific primer design and in silico primer testing. The method of determination was carried out by selecting sequences based on phylogenetic trees and BLASTn. Furthermore, the primer design and specificity test were carried out using the in silico PCR technique. The results of the study detected 5 BKS groups from secondary forest and HTI (BKS-SHI) and 5 DNA barcode candidates. Candidates for DNA barcode after primer design and specificity test obtained one DNA barcode namely barcode DNA BKS-SHI3. Specific primers obtained from the DNA barcode BKS-SHI3 contained 6 primers, BKS-SHI3-P2, BKS-SHI3-P3, BKS-SHI3-P5, BKS-SHI3-P7, BKS-SHI3-P8, and BKS-SHI3-P9. The detected DNA barcode BKS-SHI3 can be used as a peat monitoring tool, after the DNA barcode has been registered into GenBank.