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Genetic Diversity of Indigenous Chicken Populations from Cambodia Using 20 Microsatellite DNA Markers

Author: YinJuan
Tutor: LuoYuZhu；HanJianLin
School: Gansu Agricultural University
Course: Animal Genetic Breeding and Reproduction
Keywords: Chicken Microsatellite Genetic Diversity DNA sequence Covert microsatellite
CLC: S831.2
Type: Master's thesis
Year: 2011
Downloads: 21
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Abstract


In this study, 20 microsatellite DNA markers to analyze the genetic diversity of the five local chicken populations in Cambodia . Nei's standard genetic distance (DS) and Nei 's genetic distance (DA), using the unweighted pair method with arithmetic mean (UPGMA) and neighbor-joining (NJ) to build molecular clustering tree STRUCTURE derivation of population genetic structure . The results show that : the 214 alleles were found in five groups of 300 samples , the average number of alleles per locus was 10.7 ± 8.1 , high polymorphism . Population genetic diversity , average expected heterozygosity 0.655-0.707 between 20 sites polymorphic information content in addition to MCW0222, MCW0014 and MCW0081 between 0.4-0.5 , the rest of the sites are more than 0.5 , manifested as highly polymorphic . UPGMA cluster tree the CKC with CKP kinship in the five groups can be drawn closer and closer relationship of CSR and COD . Genetic structure analysis showed that the five groups of similar genetic background . The allele distribution relationship microsatellite loci to understand dinucleotide chicken microsatellite loci MCW0330 and LEI0094 the major allele PCR products were directly sequenced and compare DNA sequences of structural changes and genotyping determination . The results showed that : a repeating unit LEI0094 locus is simple dinucleotide repeat , the repeating unit structure of the majority of the alleles of the (AC) n, few inserted one or two alleles in the (AC) n the the GA unit ; MCW0330 sites is a very complex composite microsatellite , it is a repeating unit constituted by the three types of CACAGACACA, CAGACACA and CTCAGACA ; the MCW0330 with LEI0094 bit points flanking sequences as well as the specific combination of the repeating units are found SNPs , this shows that it has different alleles in the fragment size and sequence structure ; identical alleles , the sequence structure of the fragment size may also be different , which causes the peak type difference generated by genotyping . Fragments of the same size but different sequence structure hidden allele can lead to underestimate of diversity , or deviations explain microsatellite data .

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CLC: > Agricultural Sciences > Livestock, animal medicine,hunting,silkworm,bee > Poultry > Chicken > Genetics, Breeding
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