Genetic Homogenity of Commerson’s Anchovy (Stolephorus commersonnii) in Segara Anakan Cilacap Central Java Inferred from PCR-RFLP Markers

‪Agus Nuryanto ,Hendro Pramono,Rani Eva Dewi

doi:10.24252/bio.v7i1.6352

‪Agus Nuryanto , Hendro Pramono + Show 1 more

Open Access

https://doi.org/10.24252/bio.v7i1.6352

Copy DOI

Abstract

Commerson’s anchovy (Stolephorus commersonnii) is a small pelagic fish that live in a group and its existence is very abundant in Segara Anakan Cilacap. This anchovy is widely consumed by communities live around Segara Anakan. This leads to a high exploitation rate. Exploited populations generally have low genetic diversity. This study aims to evaluate genetic diversity of commerson’s anchovy population in Segara Anakan Cilacap inferred from PCR-RFLP of the cytochrome c oxidase 1 (CO1) gene. This study was conducted from January to April 2018 and used survey method by applying random sampling. As many as 30 samples of anchovy were taken. Genomic mtDNA was isolated using modified Chelex method. Partial sequences of the COI gene were amplified using a pair forward commercially available primer. The lengths of 650 base pair of the PCR products were digested with four restriction enzymes. The HindIII enzyme produces PCR-RFLP fragment with the size of 416 bp and 234 bp lengths, VspI produces 435 bp and 214 bp, CO1-TaqI produces 556 bp and 94 bp and RsaI produces 319 bp, 183 bp, and 148 bp fragments, respectively. The PCR-RFLP fragments were obtained from all samples but they produced uniform band pattern for all 30 anchovy individuals. These results indicated that the anchovy population in Segara Anakan Cilacap has monomorphic allele for all PCR-RFLP markers. Hence, it can be concluded that genetic homogenity was observed on anchovy population in Segara Anakan Cilacap as inferred from PCR-RFLP COI gene.

Highlights

Commerson’s anchovy (Stolephorus commersonnii), which is locally known as “ikan teri”, is a popular small pelagic fish in Indonesia
There is no study has been done on exploitation rate and genetic diversity of commerson’s anchovy from Segara Anakan
Digestion of 650 bp PCR products of S. commersonnii using VspI enzyme resulted two RFLP markers with the size of 435 bp and 214 bp length, respectively (Figure 5). This result indicated that only one restriction site on the COI gene of S. commersonnii was recognized by that enzyme

Summary

INTRODUCTION

Commerson’s anchovy (Stolephorus commersonnii), which is locally known as “ikan teri”, is a popular small pelagic fish in Indonesia. It is important to study genetic diversity on commerson’s anchovy population in Segara Anakan Cilacap as a tool for estimating exploitation rates of that fish resource. Cytochrome c oxidase I (CO1) is a commonly used genetic marker on population study of animals (Hebert et al, 2003) This is due to that the COI gene has high evolution rates (Kurniasari et al, 2014). One of which is PCR-RFLP (Polymerase Chain Reaction-Restriction Fragment Length Polymorphism) This marker has been successfully used to show genetic diversity within population, such as in Polymesoda erosa from Segara Anakan (Nuryanto & Sastranegara, 2013) and genetic different among giant gourami populations (Nuryanto et al, 2017). We developed PCR-RFLP marker of the cytochrome c oxidase 1 gene in order to evaluate genetic diversity within commerson’s anchovy population in Segara Anakan, Cilacap, Central Java. The data can be used as vital information on formulating policies for sustainable use of commerson’s anchovy resources in Segara Anakan Cilacap

MATERIALS AND METHODS

RESULT

Findings

CONCLUSION