Species Validation of Mole Crabs Based on Molecular Marker of 16s rRNA from Bantul and Purworejo waters

Journal of Tropical Fisheries Management

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Title Species Validation of Mole Crabs Based on Molecular Marker of 16s rRNA from Bantul and Purworejo waters
Validasi Spesies Undur-Undur Laut Berdasarkan Penanda Molekuler 16s rRNA dari Perairan Bantul dan Purworejo
 
Creator Butet, Nurlisa A
Dewi, Inge Anggraeni Bela Putri
Zairion, Zairion
Hakim, Agus Alim
 
Description Mole crabs live in intertidal areas of sandy beaches. Identification of aquatic species is often due misidentification cause by the cryptic phenomenon, so it is needed identification technique with a molecular approach by DNA barcoding. The study was purposed to validity and analyze kinship of the mole crabs based on 16S rRNA molecular marker from Bantul and Purworejo waters. Commercial kit of Gene Aid was used to isolation and extraction of DNA and was produced three total DNA from each location. DNA total with good quality was continued to amplified process using PCR technique with a primer of 16S rRNA. Sequence products of 16S rRNA gene were aligned with several sequences of species other from genus Emerita, Scylla, and Portunus that was found from GenBank. Species validation was performed using BLASTn. Genetic distance and phylogenetic tree were obtained MEGA 5.0 program. The samples of mole crab from Bantul and Purworejo were insignificantly different and the samples were from the same genetic sources.
 
Undur-undur laut hidup pada habitat intertidal pantai berpasir. Identifikasi spesies akuatik sering mengalami kesalahan yang diakibatkan oleh fenomena cryptic spesies, sehingga diperlukan teknik identifikasi dengan pendekatan molekuler yaitu DNA barcoding. Penelitian ini bertujuan untuk menvalidasi dan menganalisis hubungan kekerabatan dari undur-undur laut berdasarkan marka molekuler gen 16S rRNA dari perairan Bantul dan Purworejo. Kit komersil berupa Gene Aid digunakan untuk isolasi dan ekstraksi DNA dan dihasilkan tiga DNA total dari setiap lokasi. DNA total dengan kualitas baik dilanjutkan pada proses amplifikasi menggunakan teknik PCR dengan primer 16S rRNA. Hasil sekuen gen 16S rRNA sampel undur-undur laut disejajarkan dengan beberapa sekuen dengan spesies lain dari genus Emerita, Scylla, dan Portunus yang berasal dari GeneBank. Validasi spesies dilakukan dengan mengunakan BLASTn. Jarak genetik dan pohon filogenik didapatkan dari program MEGA 5.0. Sampel undur-undur laut yang berasal dari Bantul dan Purworejo tidak berbeda nyata dan sampel berasal dari sumber genetik yang sama.
 
Publisher IPB PRESS
 
Date 2019-11-09
 
Type info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
Peer-reviewed Article
 
Format application/pdf
 
Identifier http://journal.ipb.ac.id/index.php/jurnalppt/article/view/30434
10.29244/jppt.v3i2.30434
 
Source Journal of Tropical Fisheries Management; Vol. 3 No. 2 (2019): Journal of Tropical Fisheries Management; 28-35
2614-8641
2598-8603
 
Language ind
 
Relation http://journal.ipb.ac.id/index.php/jurnalppt/article/view/30434/19843
 
Rights Copyright (c) 2019 Journal of Tropical Fisheries Management
 

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