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Importance Of Sequence Specific Primer PCR

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Sequence specific primer PCR
With the advancement of sequencing technology, vast information on DNA sequences of many animal genomes has been developed (Goff et al. 2002; Yu et al. 2002). In order to correlate DNA sequence information with particular a phenotype of a trait, sequence-specific molecular marker techniques have been designed. Expressed sequence tags (EST) analysis is one such type. By adopting this method, Expressed sequence tags of many animal species have been created and these sequences are subjected as putative functional genes by using advanced bioinformatics tools.
Allozyme markers
Allozymes are allelic variants of proteins produced by a single gene locus, and are of interest as markers because polymorphism exists and …show more content…

They usually exhibit simple Mendelian inheritance and codominant expression, making genetic interpretations easy. Disadvantages associated with allozymes include heterozygote deficiencies due to null (enzymatically inactive) alleles and the amount and quality of tissue samples required (Hillis et al., 1996). In addition, some changes in DNA sequence are masked at the protein level, reducing the level of detectable variation. Some changes in nucleotide sequence do not change the encoded polypeptide (silent substitutions), and some polypeptide changes do not alter the mobility of the protein in an electrophoretic gel (synonymous substitutions). Moreover, genetic variations caused by mutations are expressed as amino acid replacements due to changes in protein compositions, and are resolved as bands (alleles) on electrophoresis (DeYoung and Honeycutt, 2005). However, other limitations developed by allozymes are highly biased genomic sampling (only genes encoding well-documented, soluble proteins are detectable); a low number of markers, insufficient for examining major portions of the genome; occasional differences between tissues or ontogenetic stages; and difficulty in the standardization of experimental methods from laboratory to laboratory (DeYoung and Honeycutt, 2005). Low levels of genetic variation revealed in many allozyme studies of animal populations prompted a continued search for markers with greater genetic resolution.

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