The Effect of Restriction Enzyme on the Results of mtDNA Sequence of Eel Fish from Cimandiri River Palabuhanratu

Abstract

Research has been carried out on genetic diversity of eel from the estuary of the Cimandiri Palabuhanratu River located in the southern part of Palabuhanratu bay. Until now, research on the genetic diversity of eels that enter the estuary of the river has not been done much. Even though it is very important to maintain genetic resources, species and ecosystems of eels. Genetic resources are the basic stages in an effort to protect eel resources in Indonesia. This study used eel fish from the genus Anguilla taken from the mouth of the Cimandiri River, Pelabuhanratu. The samples were then preserved with absolute ethanol solution (96%), followed by an extraction process, amplification of PCR (Polymerase Chain Reaction), electrophoresis, and restriction of DNA sequences by enzymes HaeIII, Hin6I, RsaI, TaqI and NdeII). From the results of PCR analysis that eel on the Cimandiri River has three species, namely Anguilla bicolor short-finned,Anguilla nebulosa colored camouflage, and Anguilla marmorata. Namely is whiteeel. mtDNA D-Loop sequence eel for Anguilla nebulosa, bacillus PCR has a length of about 395 bp.Anguilla bicolor species has a length of 230 bp and Anguilla marmorata bacillus PCR has a length of about 620 bp. Of the five restriction enzymes used to cut DNA sequences (HaeIII), Hin6I, RsaI, TaqI and NdeII) all have cutting sites. Retention enzymes are enzymes that can cut DNA molecules, in phosphate sugar sequences without damaging base pairs. The main function of the restrict enzyme is to cut DNA sequences to study the organization of functions and structure of genes. Restriction enzymes that influence the cutting of mtDNA D-Loop sequences in Anguilla nebulosa, namely Hin6I, RsaI, TaqI and NdeII from the site location of 395 bp became 390 bp, 394 bp, 390 bp and 391 bp respectively. The restriction enzymes that affect the cutting of mtDNA D-Loop sequences on Anguilla bicolor, namely Hin6I, TaqI and NdeII from the site location of 230 bp became 235 bp, 232 bp and 233bp respectively. Restriction enzymes that affect the cutting of the mtDNA D-Loop sequence in the amamorta namely HaeIII, Hin6I, RSa I. and TaqI from the site of the 620 bp site to 630 bp, 600 bp, 625 bp, 610 bp respectively.