Sequence Tagged Sites STSs and Sequence Characterized Amplified Regions SCARs, More Specific Loci, High Level Polymorphism

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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)

Home >> Biotechnology and Genomics >> DNA-Based Molecular Markers in Biotechnology >>Sequence Tagged Sites STSs and Seuence Characterized Amplified Regions SCARs

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PCR methods using a pair of primers.

(a) Sequence-tagged sites (STSs) and sequence characterized amplified regions (SCARs).

A sequence tagged site (STS) is a short unique sequence that identifies one or more specific loci, which can be amplified through PCR. Each STS is characterized by a pair of PCR primers,

which are designed by partial sequencing of a RFLP probe (including genomic DNA and cDNA probes) representing a mapped low copy number DNA sequence.

STS primers can also be designed from the EST sequences available in database (see later).

Like STS primers, which identify RFLP loci, SCAR primers identify loci that are amplified in PCR-based marker systems including RAPD/AP-PCR, DAF, or AFLP/SAMPL (see later for AFLP/SAMPL).

However, a more suitable acronym for SCAR is STAR (sequence-tagged amplified region).

A higher level of polymorphism may also be detected by restriction. digestion of PCR amplified products obtained through the use of STS or SCAR primers.

The technique is then described as cleaved amplified polymorphic sequences (CAPS).

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