Single feature polymorphism discovery in rice

The discovery of nucleotide diversity captured as single feature polymorphism (SFP) by using the expression array is a high-throughput and effective method in detecting genome-wide polymorphism. The efficacy of such method was tested in rice, and the results presented in the paper indicate high sens...

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Bibliographic Details
Published in:PloS one 2007-03, Vol.2 (3), p.e284-e284
Main Authors: Kumar, Rajesh, Qiu, Jing, Joshi, Trupti, Valliyodan, Babu, Xu, Dong, Nguyen, Henry T
Format: Article
Language:English
Subjects:
Arabidopsis
Arabidopsis thaliana
Arrays
Barley
Base Sequence
Biotechnology/Plant Biotechnology
Bond, Christopher S
Circadian rhythm
Cloning
Computer science
Deoxyribonucleic acid
DNA
DNA, Plant - genetics
Gene expression
Gene mapping
Genetic aspects
Genetic diversity
Genetic engineering
Genetics and Genomics/Functional Genomics
Genetics and Genomics/Genomics
Genetics and Genomics/Plant Genetics and Gene Expression
Genome, Plant
Genomes
Genomics
Hybridization
Life sciences
Mutation
Oligonucleotide Array Sequence Analysis
Oryza - genetics
Oryza sativa
Plant sciences
Polymorphism
Polymorphism, Genetic
Polymorphism, Single Nucleotide - genetics
Predictive Value of Tests
Rice
Sensitivity
Sensitivity and Specificity
Studies
Trends
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Description
Summary:The discovery of nucleotide diversity captured as single feature polymorphism (SFP) by using the expression array is a high-throughput and effective method in detecting genome-wide polymorphism. The efficacy of such method was tested in rice, and the results presented in the paper indicate high sensitivity in predicting SFP. The sensitivity of polymorphism detection was further demonstrated by the fact that no biasness was observed in detecting SFP with either single or multiple nucleotide polymorphisms. The high density SFP data that can be generated quite effectively by the current method has promise for high resolution genetic mapping studies, as physical location of features are well-defined on rice genome.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0000284