Oligononucleotide Fingerprinting Using RAPD MP-PCR Fragments, Novel Strategy, Advantages of Oligonucleotide Fingerprinting, Genomic DNA, Microsatellite Complementary

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DNA-Based Molecular Markers in Biotechnology DNA-Based Molecular Markers in Biotechnology Introduction Types of Molecular Markers/Principles Methods and Uses Hybridization Based Molecular Markers Restridization Fragment Length Polymorphisms (RFLPs) List Acronyms for Different DNA Markers along with References Dispersed Repetitive DNA (drDNA) for DNA Fingerprinting PCR based Molecular Markers PCR Methods Using a Single Primer PCR Methods Using a Pair of Primers Sequence-tagged Sites (STSs) and Sequence Characterized Amplified Regions (SCARs) Simple Sequence Repeats (SSRs) Expressed Sequence tags (ESTs) and their use for STSs,SSRs and SNPs Important Plant Genomes Available in dbEST Random Amplified Microsatellite Polymorphism (RAMP) and Retroposon-Micro-Satellite Amplified Polymorphism (REMAP)

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Molecular markers based on PCR followed by hybridization
Oligonucleotide fingerprinting using RAPD/MP-PCR fragments.

A novel strategy was also developed which combines several advantages of oligonucleotide fingerprinting with RAPD-PCR and microsatellite primed PCR (MP-PCR). In this approach, genomic DNA is amplified with either a single arbitrary 10-mer primer or with a microsatellite-complementary 15-mer or 10-mer primer (as in MP-PCR analysis) and the PCR products are electrophoresed, blotted and hybridized to a γ³²P or digoxigenin-labelled SSR [eg. (CA)₈, (GA)₈, (GAC)₅, (GTG)₅, (GCGT)₄].

Subsequent autoradiography reveals reproducible, probe dependent fingerprints, polymorphic at the intraspeific level. This provides for speed of the assay along. This provides for speed of the assay along with high sensitivity, so that high level of polymorphism is detected. The method was variously termed as RAMPO (random amplified microsatellite polymorphism), RAHM (random amplified hybridization microsatellites), or RAMS (randomly amplified microsatellite sites).

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Amplifed Fragment Length Polymorphism (AFLP) Single Strand Conformation Polymorphism (SSCP) Molecular Markers based on PCR Followed by Hybridization Oligonucleotide Fingerprinting Using RAPD/MP-PCR Framents Sequence based Molecular Markers Single Nucleotide Polymorphisms (SNPs) Gel-based Assays of PCR Products for SNP Detection Non-Gel based Assays of PCR Products for SNP Detection Taqman Assay Use of Molecular Beacon Oligonucleotide Ligation Assay (OLA) DNA Chip/Microarray Dynamic Allele-specific Hybridization Minisequencing Pyrosequencing for SNP Genotyping Temperature Modulated Heteroduplex Analysis TMHA Using DHPLC Wave^TM System A Non PCR Invasive Clevage Assay and Maldi TOF-MS for SNP Detection Comparison of Different Types of Molecular Markers High Throughput Approach in Molecular Marker Technology Comparison of General Features of Different types of Molecular and their use