Analysis of simple sequence repeats (SSRs)dynamics in fungus Fusarium graminearum |
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Authors: | Singh Rajender Sheoran Sonia Sharma Pradeep Chatrath Ravish |
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Institution: | Directorate of Wheat Research, Post Box 158, Karnal - 132001, India. |
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Abstract: | The abundance and inherent potential for variations in simple sequence repeats (SSRs) or microsatellites resulted in valuable source for genetic markers in
eukaryotes. We describe the organization and abundance of SSRs in fungus Fusarium graminearum (causative agent for Fusarium head blight or head
scab of wheat). We identified 1705 SSRs of various nucleotide repeat motifs in the sequence database of F. graminearum. It is observed that
mononucleotide repeats (62%) were most abundant followed by di- (20%) and trinucleotide repeats (14%). It is noted that tetra-, penta- and
hexanucleotide repeats accounted for only 4% of SSRs. The estimated frequency of Class I SSRs (perfect repeats ≥20 nucleotides) was one SSR per 124.5
kb, whereas the frequency of Class II (perfect repeats >10 nucleotides and ≫20 nucleotides) was one SSR per 25.6 kb. The dynamics of SSRs will be a
powerful tool for taxonomic, phylogenetic, genome mapping and population genetic studies as SSR based markers show high levels of allelic variation,
codominant inheritance and ease of analysis. |
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Keywords: | SSR microsatellites Fusarium graminearum EST |
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