Detection of polymorphism of the elite rice lines and their parents using PCR based restriction analysis

Shaon Hossain

Date

4-1996

Degree

Bachelor of Science in Biology

College

College of Arts and Sciences (CAS)

Adviser/Committee Chair

Rebecca J. Nelson

Abstract

As part of an effort to determine the resistance genes carried in a set of elite rice breeding lines, allelic diversity and the degree of polymorphism were analyzed at marker loci linked to blast resistance genes. Among available molecular markers, two related polymerase chain reaction (PCR)-based techniques was chosen to analyze DNA variation in these lines: amplification of sequence tagged sites (STS), and PCR-based restriction analysis (PCR-based RFLP). These methods were used to analyze 14 loci on chromosomes 6 and 11, because these chromosomes carry many blast resistance genes. Only the G200 marker locus, which is near the Pi-z gene on chromosome 6, was polymorphic. The molecular basis of the detected polymorphisms were analyzed. The most common allele was 100 base pairs larger than the expected size of the amplified product. Heterozygosity was also observed. A third allele had probably a small duplication. Alleles at the G200 locus were traced in the pedigree of one of the lines, and the advanced line was found to carry the allele present in most of the parents. Available inoculation data for 10 pathogen isolates were also analyzed, in hopes of finding an association of marker alleles with disease reaction, but no association between the marker alleles and resistance phenotypes were observed. PCR-based RFLP is a relatively easy and expensive technique, but it did not reveal sufficient polymorphism to be useful for determining allelic diversity and for contributing to the identification of resistance genes.

Language

English

Location

UPLB Main Library Special Collections Section (USCS)

Call Number

Thesis

Document Type

Thesis

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