Bridging the genotyping gap: using genotyping by sequencing (GBS) to add high-density SNP markers and new value to traditional bi-parental mapping and breeding populations

A comparative transcriptomic study of an allotetraploid and its diploid progenitors illustrates the unique advantages and challenges of RNA-seq in plant species

(2012) Daniel C. Ilut et al.   AMERICAN JOURNAL OF BOTANY

A map of rice genome variation reveals the origin of cultivated rice

(2012) Xuehui Huang et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

QTL mapping in three tropical maize populations reveals a set of constitutive and adaptive genomic regions for drought tolerance

(2012) Gustavo Dias Almeida et al.   THEORETICAL AND APPLIED GENETICS

High-throughput single nucleotide polymorphism genotyping for breeding applications in rice using the BeadXpress platform

(2011) Michael J. Thomson et al.   MOLECULAR BREEDING

Relationship between transmission ratio distortion and genetic divergence in intraspecific rice crosses

(2011) Kazuki Matsubara et al.   MOLECULAR GENETICS AND GENOMICS

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Three-Dimensional Root Phenotyping with a Novel Imaging and Software Platform

(2011) R. T. Clark et al.   PLANT PHYSIOLOGY

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Genetic Architecture of Aluminum Tolerance in Rice (Oryza sativa) Determined through Genome-Wide Association Analysis and QTL Mapping

(2011) Adam N. Famoso et al.   PLoS Genetics

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

A Genetic Model for the Female Sterility Barrier Between Asian and African Cultivated Rice Species

(2010) A. Garavito et al.   GENETICS

Comparative analyses of linkage maps and segregation distortion of two F2 populations derived from japonica crossed with indica rice

(2010) Yong-Pei Wu et al.   HEREDITAS

Genetic Analysis of Water Use Efficiency in Rice (Oryza sativa L.) at the Leaf Level

(2010) Dominique This et al.   Rice

High-throughput genotyping by whole-genome resequencing

(2009) X. Huang et al.   GENOME RESEARCH

SNP deserts of Asian cultivated rice: genomic regions under domestication

(2009) L. WANG et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One