Article
De novo assembly of the pepper transcriptome (Capsicum annuum): a benchmark for in silico discovery of SNPs, SSRs and candidate genes.
BMC genomics - 30 Oct 2012
Ashrafi Hamid, Hill Theresa, Stoffel Kevin, Kozik Alexander, Yao Jiqiang, Chin-Wo Sebastian Reyes, Van Deynze Allen
Abstract excerpt
BACKGROUND: Molecular breeding of pepper (Capsicum spp.) can be accelerated by developing DNA markers associated with transcriptomes in breeding germplasm. Before the advent of next generation sequencing (NGS) technologies, the majority of sequencing data were generated by the Sanger sequencing method. By leveraging Sanger EST data, we have generated a wealth of genetic information for pepper including thousands...
Topics
- Capsicum
- DNA Shuffling
- Databases, Genetic
- Expressed Sequence Tags
- Genetic Association Studies
- Genotype
- Microsatellite Repeats
- Molecular Sequence Annotation
- Polymorphism, Single Nucleotide
- Proteomics
- Transcriptome