The duck cytochrome oxidase I (COI) gene: Sequence and patterns analysis for potential barcoding tool

R. SUSANTI (Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Negeri Semarang. Gedung D6 Lantai 1, Kampus Sekaran, Gunungpati, Semarang 50229, Central Java, Indonesia.)
RETNO SRI ISWARI (Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Negeri Semarang. Gedung D6 Lantai 1, Kampus Sekaran, Gunungpati, Semarang 50229, Central Java, Indonesia.)
FIDIA FIBRIANA (Department of Integrated Science, Faculty of Mathematics and Natural Sciences, Universitas Negeri Semarang. Gedung D5 Lantai 1, Kampus Sekaran, Gunungpati, Semarang 50229, Central Java, Indonesia)
INDRIAWATI INDRIAWATI (Research Center for Biotechnology, Indonesian Institute of Sciences. Jl. Raya Bogor Km 46, Cibinong, Bogor 16911, West Java, Indonesia)

Biodiversitas Journal of Biological Diversity
Vol. 19 No. 3 (2018)

Susanti R, Iswari RS, Fibriana F, Indriawati. 2018. The duck cytochrome oxidase I (COI) gene: Sequence and patterns analysis for potential barcoding tool. Biodiversitas 19: 997-1003. The local duck DNA barcoding is still rarely conducted in Indonesia while DNA barcoding is extensively used as a tool of species identification and delineation tool. This study aimed to analyze the sequence and patterns of Central Javanese ducks mitochondrial cytochrome c oxidase subunit 1 (COI) gene. Feather samples of seven breeds of native duck were collected from traditional husbandries in Central Java. The samples were employed for DNA extraction and COI gene amplification. Five haplotypes were obtained from 35 samples, i.e., haplotype A, B, C, D, and E. Also, 9 variable sites with synonym substitution was detected in four nucleotides number 55, 61, 100, and 109; whereas five synonym substitutions were identified in the nucleotides number 36, 48, 51, 66, and 756. In conclusion, this study annotates that COI mtDNA gene is essential for local ducks barcoding system.