Allele Specific PCR for Genotyping the Probable SNPs Mitochondrial Genome in Red Jungle Fowl and Domestic Chicken

• Published in: Journal of Applied Animal Research Vol. 38; no. 1; pp. 49 - 53
• Main Authors: Ahmed, S.U, Sharma, Deepak
• Format: Journal Article
• Language: English
• Published: Taylor & Francis Group 01.09.2010
• Subjects: Allele specific PCR; CHICKENS; GENETICA MITOCONDRIAL; GENETIQUE MITOCHONDRIALE; GENOMAS; GENOME; GENOMES; GENOTIPOS; GENOTYPE; GENOTYPES; http://www.fao.org/aos/agrovoc#c_1540; http://www.fao.org/aos/agrovoc#c_27859; http://www.fao.org/aos/agrovoc#c_3224; http://www.fao.org/aos/agrovoc#c_3225; http://www.fao.org/aos/agrovoc#c_34079; MITOCHONDRIAL GENETICS; mitochondrial genome; PCR; POLLO; POULET; red jungle fowl; SNP
• ISSN: 0971-2119; 0974-1844
• DOI: 10.1080/09712119.2010.9707153

Allelespecific PCR was used for genotyping the identified probable SNP in mitochondrial genome in red junglefowl and domestic chicken. Out of the total 67 nucleotide substitutions identified on sequence homology comparisonof eight complete mitochondrial genome sequences (four each from domestic chicken breeds and redjungle [oio! subspecies), 19 were found to be specific for domestic chicken. For six SNPs primers with goodscore could be designed hence, used for genotyping of the RJF and domestic chicken populations. Allelicfrequency nf allele specific to domestic fowl and RJF population were 0.94 and 0.89 at CO/-l14-C / .TSNP; 0.83 and 0.89 at CO/-255-0 /A SNP; 0.78 and 0.94 at COII-279-C / T SNP; 0.94 and 0.83 at ATP6- 294-G /A SNP; 0.83 and 0.94 at ND4-969-C / T SNP; and 0.94 and 0.78 at CYTB-543- T/C SNP, respectively. Thoughthe frequency of specific alleles in respective populations was uery high, but these alleles were not fixed in the populations hence these SNPs could not be used as population specific markers.