Fine mapping of LrSV2, a race-specific adult plant leaf rust resistance gene on wheat chromosome 3BS

Diéguez, M. J.; Pergolesi, M. F.; Velasquez, Silvia M.; Ingala, Lorena Romina; López, María Gabriela; Darino, Martin; Paux, Etienne; Feuillet, Catherine; Sacco, F.

doi:10.1007/s00122-014-2285-z

Cited by 18 publications

(16 citation statements)

References 56 publications

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“…Insertion site‐based polymorphism markers have already been developed from BESs to anchor gene poor chromosome regions (Lucas et al, 2012); apart from this purpose, the ISBPs derived from minimum tiling paths are supposed to be evenly located along the chromosome arms, so they may be also of great value to assist the map‐based cloning of agronomically important genes. Also the SSRs developed from BES have been very useful in fine‐mapping projects in common wheat (Diéguez et al, 2014). The BESs were employed in the present work (i) to develop a new version of 5A GZ, anchoring contigs (in which the BESs are included) to the Brachypodium reference zipper and (ii) for anchoring contigs (developed with FPC and LTC assemblies) to the Illumina sequence contigs obtained from the IWGSC CSS, as detailed below.…”

Section: Resultsmentioning

confidence: 99%

Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach

Barabaschi¹,

Magni

Volante³

et al. 2015

The Plant Genome

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The huge size, redundancy, and highly repetitive nature of the bread wheat [Triticum aestivum (L.)] genome, makes it among the most difficult species to be sequenced. To overcome these limitations, a strategy based on the separation of individual chromosomes or chromosome arms and the subsequent production of physical maps was established within the frame of the International Wheat Genome Sequence Consortium (IWGSC). A total of 95,812 bacterial artificial chromosome (BAC) clones of short-arm chromosome 5A (5AS) and longarm chromosome 5A (5AL) arm-specific BAC libraries were fingerprinted and assembled into contigs by complementary analytical approaches based on the FingerPrinted Contig (FPC) and Linear Topological Contig (LTC) tools. Combined anchoring approaches based on polymerase chain reaction (PCR) marker screening, microarray, and sequence homology searches applied to several genomic tools (i.e., genetic maps, deletion bin map, neighbor maps, BAC end sequences (BESs), genome zipper, and chromosome survey sequences) allowed the development of a high-quality physical map with an anchored physical coverage of 75% for 5AS and 53% for 5AL with high portions (64 and 48%, respectively) of contigs ordered along the chromosome. In the genome of grasses, Brachypodium [Brachypodium distachyon (L.) Beauv.], rice (Oryza sativa L.), and sorghum [Sorghum bicolor (L.) Moench] homologs of genes on wheat chromosome 5A were separated into syntenic blocks on different chromosomes as a result of translocations and inversions during evolution. The physical map presented represents an essential resource for fine genetic mapping and map-based cloning of agronomically relevant traits and a reference for the 5A sequencing projects.

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Section: Resultsmentioning

confidence: 99%

Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach

Barabaschi¹,

Magni

Volante³

et al. 2015

The Plant Genome

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“…triticina ), Pm13 to powdery mildew (caused by Blumeria graminis f. sp. tritici ), Fhb1 to Fusarium head blight (caused by Fusarium graminearum Schwabe), and Wsm2 to WSMV (Mago et al, 2011; Hao et al, 2012; Lu et al, 2012; Diéguez et al, 2014; Liu et al, 2014). Research has shown that a higher number of gene loci are on the B genome compared with A and D genomes (IWGSC).…”

Section: Discussionmentioning

confidence: 99%

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

et al. 2017

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Wheat streak mosaic virus (WSMV) can cause significant yield loss in wheat (Triticum aestivum L.) in the Great Plains of North America. A recently identified WSMV resistance gene, Wsm2, was mapped to chromosome 3BS in germplasm line ‘CO960293–2’. Effective genetic markers tightly linked to the gene will enhance the selection of WSMV‐resistant lines through marker‐assisted selection. We have mapped Wsm2 using a high‐density map developed from the wheat 90K Infinium iSelect single‐nucleotide polymorphism (SNP) array with recombinant inbred lines from the cross between CO960293–2 and susceptible cultivar ‘TAM 111’. Array‐based SNPs that mapped within 4 cM of Wsm2 on chromosome 3BS were converted to Kompetitive Allele Specific Polymerase Chain Reaction (KASP) assays in this study. Six KASP SNPs were validated in two doubled haploid populations developed from crosses of ‘RonL’ × ‘Ripper’ and ‘Snowmass’ × ‘Antero’. RonL and Snowmass possess the Wsm2 gene from CO960293–2. Three closely linked KASP SNPs, converted from IAAV6442, BS00018764_51, and wsnp_Ra_c16264_24873670, showed high sensitivity and specificity (0.83 ≤ sensitivity ≤ 0.97, 0.89 ≤ specificity ≤ 0.99). The latter two were also validated in six F2 breeding populations. These three KASP SNPs were effective in differentiating resistant and susceptible genotypes. Comparative mapping was performed using sequences of SNPs flanking Wsm2 and identified candidate genes and regions in Brachypodium and rice (Oryza sativa L. ssp. japonica). The KASP SNPs developed in this study should be useful for marker‐assisted selection of Wsm2 in wheat breeding programs, and the newly constructed map will also facilitate map based cloning of Wsm2.

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“…Even if Lr27 + Lr31 were present in the RIL population, these would not have provided effective resistance in the field tests at St. Paul. Diéguez et al (2014) identified an adult plant leaf rust resistance gene on chromosome 3BS with a hypersensitive resistance response, designated as LrSV2. LrSV2 cosegregated with cfb5006 that mapped closest to the 3BS QTL derived from Caldwell.…”

Section: Resultsmentioning

confidence: 99%

Adult Plant Leaf Rust Resistance Derived from the Soft Red Winter Wheat Cultivar ‘Caldwell’ Maps to Chromosome 3BS

et al. 2018

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‘Caldwell’ is a US soft red winter wheat (Triticum aestivum L.) that has partial, adult plant resistance to the leaf rust pathogen Puccinia triticina Eriks. A line of ‘Thatcher∗2/Caldwell’ with adult plant resistance derived from Caldwell was crossed with ‘Thatcher’ to develop a population of recombinant inbred lines (RILs). The parents and RIL population were evaluated for segregation of leaf rust resistance in four field tests. A genetic map of the RIL population was constructed using 90K single‐nucleotide polymorphism (SNP) markers with the Illumina Infinium iSelect 90K wheat bead array. Significant effects for reduction of leaf rust severity in all four tests were found for a quantitative trait locus on chromosome 3BS. Simple sequence repeat (SSR) markers linked to the adult plant resistance gene Lr74 and kompetitive allele specific polymerase chain reaction (KASP) assay markers were added to the map on chromosome 3BS. Thatcher and the resistant Thatcher∗2/Caldwell parent were negative for the presence of Sr2 on chromosome 3BS based on the tightly linked marker csSr2. The SSR marker cfb5006 linked closely to Lr74 mapped the closest to the logarithm of odds peak for leaf rust resistance on chromosome 3BS. The SNP and SSR markers on chromosome 3BS can be used to add Caldwell leaf rust resistance to wheat breeding germplasm.

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Fine mapping of LrSV2, a race-specific adult plant leaf rust resistance gene on wheat chromosome 3BS

Cited by 18 publications

References 56 publications

Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach

Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach

Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

Adult Plant Leaf Rust Resistance Derived from the Soft Red Winter Wheat Cultivar ‘Caldwell’ Maps to Chromosome 3BS

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