DNA Barcoding of Swamp Sediment Bacterial Isolates for Swamp Aquaculture Probiotic

Abstract

Bacteria derived from swamp sediments and aquaculture ponds potential to be probiotics. The study aims to determine the sequence of 16S r RNA gene of isolate of probiotics candidate bacteria from sediment of swamp, to determine the phylogenetic tree between the bacterial species from isolates and Gene Bank data central for their potential as probiotic. The samples of bacteria resulted from pure isolation selected from the sediment of pond cultivation and swamp waters at Lebung Karangan Reservation, Ogan Ilir Regency, Indralaya, South Sumatra. This study was started from cultivating bacteria, extracting DNA of bacteria, amplification 16S r RNA genes by PCR, running electrophoresis, and sequencing the amplicon for determining DNA barcodes of bacteria from sediment of swamp and rearing pond. The result of BLAST analysis showed that KA isolate had the highest similarity 97% with Streptomyces sp. Hjorring101 from Denmark and RA isolate had the highest similarity 98% with Streptomyces sp. BD99 from Pakistan. KE isolate had the highest similarity 99% with Bacillus subtilis CESi5 from Japan and RE isolate had the highest similarity 93% with Bacillus sp.2bFR from Manado. All of isolates were bacteria potentially as swamp aquaculture probiotics.