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Kode batang DNA ikan lais genus Kryptopterus asal Sungai Mahakam Kalimantan Timur [Barcoding DNA of catfish species genus Kryptopterus from Sungai Mahakam Kalimantan Timur]
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Abstract
DNA barcoding of genus Kryptopterus catfish from Mahakam River, East Kalimantan by using mitochondrial DNA COI gene has been performed to obtain genetic marker (barcoding DNA), genetic characteristics and genetic tree. Amplification of mitochondrial COI gene regions was conducted by using COI Fish F1 and COI Fish R1 primers on the three catfish species consist of Kryptopterus apogon (N=3), K. micronema (N=6), and K. limpok (N=1). Based on partial COI mtDNA multiple alignment, we obtained three specific nucleotide site as genetic marker. Meanwhile, genetic characteristic analysis revealed 13.58% of nucleotide variation. Nucleotide substitution was greater at the third codon and transitional substitution was greater than transvertion. Genetic tree reconstruction based on p-distance separated the three catfish species with perfect bootstrap value.
Abstrak
Penelitian kode batang DNA spesies ikan lais genus Kryptopterus asal Sungai Mahakam Kalimantan Timur mengguna-kan gen COI DNA mitokondria dilakukan dengan tujuan untuk mengungkap penanda genetik (kode batang DNA), ka-rakterisasi genetik dan pohon genetik. Amplifikasi daerah gen COI DNA mitokondria dilakukan dengan menggunakan pasangan primer COI FishF1 dan COI FishR1 terhadap tiga spesies ikan lais yang terdiri atas Kryptopterus apogon (N=3), K. micronema (N=6), dan K. limpok (N=1). Hasil penelitian menunjukkan penyejajaran berganda pada gen par-sial COI DNA mitokondria antara spesies K. apogon, K. micronema, dan K. limpok diperoleh tiga situs nukleotida spe-sifik sebagai penanda genetik (kode batang DNA). Analisis karakterisasi genetik pada genus Kryptopterus berdasarkan gen parsial COI DNA mitokondria menunjukkan situs nukleotida yang bervariasi sebesar 13,58%, substitusi nukleotida lebih besar pada kodon ketiga dan bersifat transisi dari pada transversi. Konstruksi ulang pohon genetik berdasarkan ni-lai p-distance dapat memisahkan kelompok spesies K. apogon, K. micronema,dan K. limpok dengan nilai bootstrap sempurna.
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