A Perfect Marker for Fragrance Genotyping in Rice |
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Authors: | Louis?M?T?Bradbury Email author" target="_blank">Robert?J?HenryEmail author Qingsheng?Jin Russell F?Reinke Daniel LE?Waters |
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Institution: | (1) Centre for Plant Conservation Genetics, Southern Cross University, 2480 Lismore, NSW , Australia;(2) Grain Foods CRC, Southern Cross University, 2480 Lismore, NSW , Australia;(3) Crop Research Institute, Zhejiang Academy of Agricultural Sciences, Hangzhou, China;(4) Yanco Agricultural Institute, 2703 Yanco, NSW, Australia |
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Abstract: | Allele specific amplification (ASA) is a low-cost, robust technique that can be utilised to discriminate between alleles that
differ by SNP's, insertions or deletions, within a single PCR tube. Fragrance in rice, a recessive trait, has been shown to
be due to an eight bp deletion and three SNP's in a gene on chromosome 8 which encodes a putative betaine aldehyde dehydrogenase
2 (BAD2). Here we report a single tube ASA assay which allows discrimination between fragrant and non-fragrant rice varieties
and identifies homozygous fragrant, homozygous non-fragrant and heterozygous non-fragrant individuals in a population segregating
for fragrance. External primers generate a fragment of approximately 580 bp as a positive control for each sample. Internal
and corresponding external primers produce a 355 bp fragment from a non-fragrant allele and a 257 bp fragment from a fragrant
allele, allowing simple analysis on agarose gels. |
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Keywords: | Aromatic Assay Basmati High-throughput Jasmine Oryza sativa |
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