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Genetic analysis of resistance to stripe rust in durum wheat (Triticum turgidum L. var. durum)

, Alexander Loladze, Julio Huerta-Espino, Curtis J. Pozniak. Methodology: Xue Lin. Project administration: Curtis J. Pozniak. Resources: Hadley R. Kutcher, John M. Clarke, Yuefeng Ruan, Ron Knox, Andrew G ... . Sharpe, Curtis J. Pozniak. Supervision: Curtis J. Pozniak. Validation: Xue Lin. Writing ? original draft: Xue Lin, Amidou N'Diaye, Hadley R. Kutcher. Writing ? review & editing: Xue Lin, Sean

High density mapping and haplotype analysis of the major stem-solidness locus SSt1 in durum and common wheat

Breeding for solid-stemmed durum (Triticum turgidum L. var durum) and common wheat (Triticum aestivum L.) cultivars is one strategy to minimize yield losses caused by the wheat stem sawfly (Cephus cinctus Norton). Major stem-solidness QTL have been localized to the long arm of chromosome 3B in both wheat species, but it is unclear if these QTL span a common genetic interval. In...

Genome wide SNP identification in chickpea for use in development of a high density genetic map and improvement of chickpea reference genome assembly

Background In the whole genome sequencing, genetic map provides an essential framework for accurate and efficient genome assembly and validation. The main objectives of this study were to develop a high-density genetic map using RAD-Seq (Restriction-site Associated DNA Sequencing) genotyping-by-sequencing (RAD-Seq GBS) and Illumina GoldenGate assays, and to examine the alignment...

A Mutant Brassica napus (Canola) Population for the Identification of New Genetic Diversity via TILLING and Next Generation Sequencing

We have generated a Brassica napus (canola) population of 3,158 EMS-mutagenised lines and used TILLING to demonstrate that the population has a high enough mutation density that it will be useful for identification of mutations in genes of interest in this important crop species. TILLING is a reverse genetics technique that has been successfully used in many plant and animal...

Comparison of Five Major Trichome Regulatory Genes in Brassica villosa with Orthologues within the Brassicaceae

Coding sequences for major trichome regulatory genes, including the positive regulators GLABRA 1(GL1), GLABRA 2 (GL2), ENHANCER OF GLABRA 3 (EGL3), and TRANSPARENT TESTA GLABRA 1 (TTG1) and the negative regulator TRIPTYCHON (TRY), were cloned from wild Brassica villosa, which is characterized by dense trichome coverage over most of the plant. Transcript (FPKM) levels from RNA...

Conserved microstructure of the Brassica B Genome of Brassica nigra in relation to homologous regions of Arabidopsis thaliana, B. rapa and B. oleracea

Background The Brassica B genome is known to carry several important traits, yet there has been limited analyses of its underlying genome structure, especially in comparison to the closely related A and C genomes. A bacterial artificial chromosome (BAC) library of Brassica nigra was developed and screened with 17 genes from a 222 kb region of A. thaliana that had been well...

Comprehensive Transcriptome Assembly of Chickpea (Cicer arietinum L.) Using Sanger and Next Generation Sequencing Platforms: Development and Applications

A comprehensive transcriptome assembly of chickpea has been developed using 134.95 million Illumina single-end reads, 7.12 million single-end FLX/454 reads and 139,214 Sanger expressed sequence tags (ESTs) from >17 genotypes. This hybrid transcriptome assembly, referred to as Cicer arietinum Transcriptome Assembly version 2 (CaTA v2, available at http://data.comparative-legumes...

A high-density SNP genotyping array for Brassica napus and its ancestral diploid species based on optimised selection of single-locus markers in the allotetraploid genome

Key message The Brassica napus Illumina array provides genome-wide markers linked to the available genome sequence, a significant tool for genetic analyses of the allotetraploid B. napus and its progenitor diploid genomes. Abstract A high-density single nucleotide polymorphism (SNP) Illumina Infinium array, containing 52,157 markers, was developed for the allotetraploid Brassica...

Genomic DNA Enrichment Using Sequence Capture Microarrays: a Novel Approach to Discover Sequence Nucleotide Polymorphisms (SNP) in Brassica napus L

Targeted genomic selection methodologies, or sequence capture, allow for DNA enrichment and large-scale resequencing and characterization of natural genetic variation in species with complex genomes, such as rapeseed canola (Brassica napus L., AACC, 2n=38). The main goal of this project was to combine sequence capture with next generation sequencing (NGS) to discover single...

Ancient orphan crop joins modern era: gene-based SNP discovery and mapping in lentil

Background The genus Lens comprises a range of closely related species within the galegoid clade of the Papilionoideae family. The clade includes other important crops (e.g. chickpea and pea) as well as a sequenced model legume (Medicago truncatula). Lentil is a global food crop increasing in importance in the Indian sub-continent and elsewhere due to its nutritional value and...

Gene-based SNP discovery and genetic mapping in pea

Key message Gene-based SNPs were identified and mapped in pea using five recombinant inbred line populations segregating for traits of agronomic importance. Abstract Pea (Pisum sativum L.) is one of the world’s oldest domesticated crops and has been a model system in plant biology and genetics since the work of Gregor Mendel. Pea is the second most widely grown pulse crop in the...

The draft genome and transcriptome of Cannabis sativa

Background Cannabis sativa has been cultivated throughout human history as a source of fiber, oil and food, and for its medicinal and intoxicating properties. Selective breeding has produced cannabis plants for specific uses, including high-potency marijuana strains and hemp cultivars for fiber and seed production. The molecular biology underlying cannabinoid biosynthesis and...

De novo sequence assembly of Albugo candida reveals a small genome relative to other biotrophic oomycetes

Background Albugo candida is a biotrophic oomycete that parasitizes various species of Brassicaceae, causing a disease (white blister rust) with remarkable convergence in behaviour to unrelated rusts of basidiomycete fungi. Results A recent genome analysis of the oomycete Hyaloperonospora arabidopsidis suggests that a reduction in the number of genes encoding secreted...

A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes

Gardiner 1 Ron MacLachlan 7 Pierre Hucl 7 Krysta Wiebe 7 Debbie Wong 6 Kerrie L Forrest 6 IWGS Consortium Andrew G Sharpe 5 Christine HD Sidebottom 5 Neil Hall 1 Christopher Toomajian 0 Timothy Close 4 Jorge

A consensus map of rapeseed (Brassica napus L.) based on diversity array technology markers: applications in genetic dissection of qualitative and quantitative traits

Harsh Raman 0 Rosy Raman 0 Andrzej Kilian Frank Detering Yan Long David Edwards Isobel AP Parkin Andrew G Sharpe Matthew N Nelson Nick Larkan Jun Zou Jinling Meng M Naveed Aslam Jacqueline Batley

Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea

Bancroft Boulos Chalhoub 2 Andrew G Sharpe 0 0 National Research Council Canada , 110 Gymnasium Place, Saskatoon S7N0W9 , Canada 1 Agriculture and Agri-Food Canada , 107 Science Place, Saskatoon S7N0X2

Sequence and structure of Brassica rapa chromosome A3

Yang Hee-Ju Yu Ik-Young Choi Beom-Soon Choi Su Ryun Choi Nirala Ramchiary Yong Pyo Lim Fiona Fraser Nizar Drou Eleni Soumpourou Martin Trick Ian Bancroft Andrew G Sharpe Isobel AP Parkin Jacqueline