Molecular Characteristics of Cytochrome B for Mackerel Barcoding

  • Deden Yusman Maulid 1Departemen Teknologi Hasil Perairan, Fakultas Perikanan dan Ilmu Kelautan, Institut Pertanian Bogor, Institut Pertanian Bogor, Kampus IPB Darmaga, Jalan Agatis, Bogor 16680, Jawa Barat Telepon (0251) 8622915, Faks (0251) 8622916
  • Mala Nurilmala 1Departemen Teknologi Hasil Perairan, Fakultas Perikanan dan Ilmu Kelautan, Institut Pertanian Bogor, Institut Pertanian Bogor, Kampus IPB Darmaga, Jalan Agatis, Bogor 16680, Jawa Barat Telepon (0251) 8622915, Faks (0251) 8622916
  • Nurjanah Nurjanah 1Departemen Teknologi Hasil Perairan, Fakultas Perikanan dan Ilmu Kelautan, Institut Pertanian Bogor, Institut Pertanian Bogor, Kampus IPB Darmaga, Jalan Agatis, Bogor 16680, Jawa Barat Telepon (0251) 8622915, Faks (0251) 8622916
  • Hawis Maddupa

Abstract

Cytochrome b (cyt b) is one of the genes in mitochondrial DNA that is often used as a molecular
marker to identify species through DNA Barcoding. The aim of the present study was to investigate the
bioinformatic of cyt b that isolated from mackerel fish. PCR amplification showed the length of DNA cyt
b from king mackerel was 803 bp within purine 312 bp and pyrimidine 491 bp while Korean mackerel 791
bp within purine 316 bp and pyrimidine 475 bp. Phylogenetic analysis showed all sample join in mackerel
groups (Scomberomorus commerson and Scomberomorus koreanus). The Isoelectric point value of cyt b from
king mackerel is 6.38 and molecular weight is 29826.23; Korean mackerel are 8.67 and molecular weight is
29372.77. Hydrophaty plot showed cyt b of mackerel more hydrophobic. Based on 3D modelling both of
them have eight different sections showing by different colors.
Keywords: characteristic molecular, cytochrome b, Mackerel

Published
2016-04-26