Genetic diversity and haplogroups distributions of Kampung chickens using hypervariable-I mitochondrial DNA control region

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dc.creator Arifin Zein, M Syamsul
dc.creator Sulandari, S
dc.date 2013-05-08
dc.date.accessioned 2018-06-04T06:47:07Z
dc.date.available 2018-06-04T06:47:07Z
dc.date.issued 2013-05-08
dc.identifier http://medpub.litbang.pertanian.go.id/index.php/jitv/article/view/686
dc.identifier 10.14334/jitv.v17i2.686
dc.identifier.uri http://repository.pertanian.go.id/handle/123456789/2760
dc.description Until now no studies evaluating the position of Kampung chickens in chicken clade of Asia. Thus studies based on molecular DNA sequence hipervariable-I on Kampung chicken is needed. Molecular studies based on DNA sequences hyper variable-I of Kampong chicken was done to confirm the results of previous evaluations conducted on 15 families of local chickens of Indonesia. An analysis of 210 individuals Kampung chicken (Aceh, North Sumatra, Lampung, Banten, Central Java, Lombok, Sulawesi, Ternate, Morotai and Halmahera) resulted in 51 haplotypes derived from 62 polymorphic sites. Polymorphic sites among the highest seen at 112-397 (93.22%). The highest haplotype frequencies contained in the haplotype H-4 (36.19%), followed by H-1 (18.57%) and H-5 (10, 95%). Kampung chicken phylogeny analysis formed four haplogroups/clade from 7 references of Asian chicken clade. Four haplogroups are clade II = 84.31% (43 haplotypes), clade IIIC = 1.96% (1 haplotype), clade IIID = 3.92% (2 haplotypes), clade IV = 7.84% (4 haplotypes). The results prove of that Indonesian local and indigenous chickens were equally dominated clade II. Analysis of genetic diversity showed haplotype diversity of 0.825 ± 0.021, nucleotide diversity of 0.00600 on average, the genetic distance between populations ranged from 0.003 to 0.011, and the genetic distance within populations ranged from 0.00395 to 0.01031. Genetic distance between individuals in all populations of Kampung chickens was significantly different (P < 0.01). Fu's Fs values was negative, indicating high genetic diversity and population expansion on native chicken in Indonesia. Other important result was shown with the major haplotype spread from western to eastern Indonesia, and had strengthened the position of Indonesia as one of the centers of domestication of the chicken. Key Words: Kampung Chicken, Hypervariable-I, Control Region, Mitochondrial DNA, Haplotype, Clade en-US
dc.format application/pdf
dc.language eng
dc.publisher Indonesian Animal Sciences Society en-US
dc.relation http://medpub.litbang.pertanian.go.id/index.php/jitv/article/view/686/695
dc.rights Copyright (c) 1970 Indonesian Journal of Animal and Veterinary Sciences en-US
dc.rights http://creativecommons.org/licenses/by/4.0 en-US
dc.source 2252-696X
dc.source 0853-7380
dc.source Indonesian Journal of Animal and Veterinary Sciences; Vol 17, No 2 (2012): JUNE 2012; p.120-131 en-US
dc.title Genetic diversity and haplogroups distributions of Kampung chickens using hypervariable-I mitochondrial DNA control region en-US
dc.type info:eu-repo/semantics/article
dc.type info:eu-repo/semantics/publishedVersion
dc.type Peer-reviewed Article en-US


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