Molecular Characterization of Indonesia Indigenous Chickens Based on Mitochondrial DNA Displacement (D)-Loop Sequences  

Oleh:

Sulandari, Sri Agustini ; Sartika, Tike ; Zein, Moch Syamsul Arifin

Jenis: Article from Journal - ilmiah nasional - terakreditasi DIKTI
Dalam koleksi: Hayati Journal of Biosciences vol. 15 no. 4 (Dec. 2008), page 145-154.
Topik: Indonesia Indigenous Chickens; Mitochondrial DNA; (D)-Loop; Haplotype; Phylogenetic Analysis and Clade
Fulltext: 10.pdf (508.72KB)

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Perpustakaan Pusat (Semanggi) Nomor Panggil: HH13.10 Non-tandon: 1 (dapat dipinjam: 0) Tandon: tidak ada

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Isi artikel

The Mitochondrial DNA Displacement (D)-loop Sequences were used to study the genetic diversity and relationship of Indonesia indigenous chickens. A total of 483 individuals belonging to 15 population breeds and 43 individuals belonging to 6 populations of jungle fowl (2 populations of Gallus gallus and 4 populations of Gallus varius) were sampled. The hypervariable I (HVI) segment of D-loop was PCR amplified and subsequently sequenced. The sequence of the first 397 nucleotides were used for analysis. Sixty nini haplotypes were identified from 54 polymorphic sites with polymorphism between nucletides 167 and 397 contributing 94.5% of the sequence variation. Phylogenetic analysis indicates that Indonesia indigenous chickens can be grouped into five distinct clades (clade I, II, IIIc, IIId, and IV) of the previously identified seven clades in Asian indigenous chickens. Fifty haplotypes belong to clade II, seven haplotypes are in clade IV, six are in clade IId, three are in clade I and one haplotype is in clade IIIc. There was no breed-specific clade. Analysis of MOlecular Variation (AMOVA) based on partial D-loop sequences of Indonesia chicken indicates that 67.85% of the total sequence variation between haplotypes was present within the population and 32.15% between populations. One of the haplotypes was shared by all populations, suggesting that these populations may share same maternal ancestor. These results show a high mitochondrial D-loop diversity and indicate muktiple maternal origins for Indonesia indigenous chickens.

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