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Author Kim, Kyung Seok ♦ Ratcliffe, Susan T. ♦ French, B. Wade ♦ Liu, Lei ♦ Thomas ♦ Sappington, W.
Source CiteSeerX
Content type Text
File Format PDF
Subject Domain (in DDC) Computer science, information & general works ♦ Data processing & computer science
Subject Keyword Est-derived Ssrs ♦ Population Genetics Marker ♦ Simple Sequence Repeat ♦ Distinct Population ♦ Genetic Diversity ♦ Insect Diabrotica Virgifera ♦ Future Genetic Study ♦ Anonymous Ssrs ♦ Neutrality Test ♦ Genomic Dna ♦ Population Structure ♦ Est Library ♦ Valuable Source ♦ Conventional Strategy ♦ Diabrotica Population ♦ Null Allele ♦ Entire Genome ♦ Population Assignment ♦ Family Chrysomelidae ♦ Sequence Tag ♦ Cross-species Amplification ♦ Exclusion Test ♦ Nontranscribed Region ♦ Anonymous Genomic Ssrs ♦ Positive Selection ♦ Population Genetics Study ♦ Comparative Population Genetic Analysis ♦ Marker Development Time
Abstract Microsatellite, or simple sequence repeat (SSR), loci can be identified by mining expressed sequence tag (EST) databases, and where these are available, marker development time and expense can be decreased considerably over conventional strategies of probing the entire genome. However, it is unclear whether they provide information on population structure similar to that generated by anonymous genomic SSRs. We performed comparative population genetic analyses between EST-derived SSRs (EST-SSRs) and anonymous SSRs developed from genomic DNA for the same set of populations of the insect Diabrotica virgifera, a beetle in the family Chrysomelidae. Compared with noncoding, nontranscribed regions, EST-SSRs were generally less polymorphic but had reduced occurrence of null alleles and greater cross-species amplification. Neutrality tests suggested the loci were not under positive selection. Across all populations and all loci, the genomic and EST-SSRs performed similarly in estimating genetic diversity, FIS, FST, population assignment and exclusion tests, and detection of distinct populations. These findings, therefore, indicate that the EST-SSRs examined can be used with confidence in future genetic studies of Diabrotica populations and suggest that EST libraries can be added as a valuable source of markers for population genetics studies in insects and other animals. Because they are common, hypervariable, and have co-
Educational Role Student ♦ Teacher
Age Range above 22 year
Educational Use Research
Education Level UG and PG ♦ Career/Technical Study
Publisher Date 2008-01-01