SNP Discovery via Genomic Reduction, Barcoding, and 454‐Pyrosequencing in Amaranth

SNP Discovery via Genomic Reduction, Barcoding, and 454-Pyrosequencing in Amaranth

The grain amaranths are important pseudo-cereals native to the New World. During the last decade they have garnered increased international attention for their nutritional quality, tolerance to abiotic stress, and importance as a symbol of indigenous cultures. We report the development of a novel genomic reduction protocol based on restriction-site conservation and multiplex identifi ers (MID) ...

SNP discovery via 454 transcriptome sequencing

A massively parallel pyro-sequencing technology commercialized by 454 Life Sciences Corporation was used to sequence the transcriptomes of shoot apical meristems isolated from two inbred lines of maize using laser capture microdissection (LCM). A computational pipeline that uses the POLYBAYES polymorphism detection system was adapted for 454 ESTs and used to detect SNPs (single nucleotide polym...

Identification of Qanat fishes in Taft and Mehriz (Yazd-Iran) via DNA barcoding

In this study fish in 8 Qanats in Taft and Mehriz townships of the Yazd Province were compared to specimens from Sirvan, Karun, Mond, Kor Rivers, Kerman and Namak basins. In the studied Qanats, Capoeta saadi and Cyprinion sp. were observed. The haplotypic diversity in Qanats was zero. Capoeta saadi haplotype observed in Qanats was similar to haplotype observed in the Kor basin. Cyprinion sp. ha...

SNP discovery & haplotyping

Switchgrass Genomic Diversity, Ploidy, and Evolution: Novel Insights from a Network-Based SNP Discovery Protocol

Switchgrass (Panicum virgatum L.) is a perennial grass that has been designated as an herbaceous model biofuel crop for the United States of America. To facilitate accelerated breeding programs of switchgrass, we developed both an association panel and linkage populations for genome-wide association study (GWAS) and genomic selection (GS). All of the 840 individuals were then genotyped using ge...