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Asian-Australas J Anim Sci > Epub ahead of print
[Epub ahead of print] Published online May 31, 2018.
Genetic diversity and phylogenetic relationship analyzed by microsatellite markers in eight Indonesian local duck populations
Dwi Nur Happy Hariyono1  , Dyah Maharani1,*  , Sunghyun Cho2, Prabuddha Manjula2, Dongwon Seo2, Nuri Choi2, Jafendi Hasoloan Purba Sidadolog1, Jun-Heon Lee2
1Department of Animal Breeding and Reproduction, Faculty of Animal Science, Universitas Gadjah Mada, Yogyakarta, Indonesia
2Division of Animal and Dairy Science, College of Agriculture and Life Sciences, Chungnam National University, Daejeon, Korea
Correspondence:  Dyah Maharani, Tel: +62-274-513363, Fax: +62-274-521578, Email: d.maharani@ugm.ac.id
Received: 17 January 2018   • Revised: 13 April 2018   • Accepted: 22 May 2018
Abstract
Objective: At least eight local duck breeds have been recognized and documented as national germplasm of Indonesia so far. It is necessary to genetically characterize the local duck breeds for aiding conservation and future improvement strategies. Thus, this study was carried out to assess genetic diversity and phylogenetic relationship of eight local duck populations of Indonesia using microsatellite markers.

Methods

In total, 240 individuals (30 individuals each population) from Alabio (AL), Bayang (BY), Magelang (MG), Mojosari (MJ), Pegagan (PG), Pitalah (PT), Rambon (RM), and Turi (TR) duck populations were genotyped using 22 microsatellite markers.

Results

The results showed a moderate level of genetic diversity among populations, with a total of 153 alleles detected over all loci and populations, ranging from 3 to 22 alleles per locus. Observed (Ho) and expected heterozygosity (He), as well as polymorphism information content over all loci and populations were 0.440, 0.566, and 0.513, respectively. Heterozygote deficiency in the overall populations (FIT = 0.237), was partly due to the heterozygote deficiency within populations (FIS = 0.114) and moderate level of genetic differentiation among populations (FST = 0.137). The most diverse population was MG (He = 0.545) and the least diverse population was AL (He = 0.368). The majority of populations were relatively in heterozygote deficiency (except AL), due to inbreeding. The genetic distances, phylogenetic trees, and principal coordinates analysis concluded that the populations can be grouped into two major clusters, resulting AL, MG, and MJ in one cluster separated from the remaining populations.
Conclusion
The present study revealed a considerable genetic diversity of studied populations and thus, proper management strategies should be applied to preserve genetic diversity and prevent loss of alleles.
Keywords: Genetic Diversity; Indonesian Local Ducks; Microsatellite Markers; Phylogenetic Relationship


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