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CAPS Cleaved Amplified Polymorphic Sequence
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CAPS - CAPS (cleaved amplified polymorphic sequence) is also known as PCR-RFLPs (polymerase chain reaction-restriction fragment length polymorphisms). - it was developed after the emerge of PCR technique. - it was originally conceived as a technique to detect base changes in DNA sequences and therefore acts as a tool in the diagnosis of genetic diseases. - it was soon recognized that the technology would have much wider applications in genetic diversity studies.
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CAPS - CAPS is one of the many methods to detect sequence variation within a DNA fragment amplified by PCR. - it is an alternative to direct sequencing for detecting sequence variation. - it is rather a simple and inexpensive technique. - it requires a small amounts of relatively crude genomic DNA.
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CAPS PCR on specific DNA region using specific primers Digestion of PCR products by restriction enzymes Electrophoresis (agrose gel) of digested PCR products
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CAPS on chloroplast/mitochondrial DNA regions
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CAPS 580 bp 290 bp 180 bp 580 bp 180 bp 290 bp PCR products of the trnS-trnM region (cpDNA) restricted by TaqI
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CAPS 3000 bp 2000 bp 1000 bp 3000 bp 1000 bp2000 bp PCR products of the trnM-rbcL region (cpDNA) restricted by BclI
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CAPS 490 bp 420 bp 200 bp 420 bp PCR products of the rpl16 intron (cpDNA) restricted by EcoRI 80 bp 500 bp 490 bp 80 bp
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CAPS on nuclear DNA regions
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CAPS A nuclear DNA region was amplified by PCR and then digested by HincII. Segregation patterns of F 1 progenies. F 1 progenies C A M AM C C : Control A : Acacia auriculformis M : Acacia mangium AM : Acacia auriculformis x A. mangium
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CAPS - DNA variation due to: - presence/absence of restriction site - insertion/deletion - co-dominant marker if applied on nuclear genome.
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