Sequencing of the Triticum monococcum Hardness locus reveals good microcolinearity with rice

Chantret, Nathalie; Cenci, Alberto; Sabot, François; Anderson, Olin D.; Dubcovsky, Jorge

doi:10.1007/s00438-004-0991-y

Cited by 87 publications

(60 citation statements)

References 69 publications

(71 reference statements)

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“…However, Gsp, but not the puroindolines, showed a match at the amino acid level to a rice sequence predicted to be a nonfunctional gene, possibly indicating loss of this gene in rice. It is hypothesized that Gsp gene after the splitting of the wheat rice lineage was duplicated in the wheat lineage and gave rise to the puroindoline genes (33). A similar scenario has been proposed for the evolution of gluten genes that control bread-making properties in wheat and are missing in rice, but both lineages share related globulin genes (34).…”

Section: Random Vs Localized Genome Evolutionmentioning

confidence: 80%

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Gene evolution at the ends of wheat chromosomes

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Brooks

Nelson

et al. 2006

Proc. Natl. Acad. Sci. U.S.A.

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Wheat ESTs mapped to deletion bins in the distal 42% of the long arm of chromosome 4B (4BL) were ordered in silico based on blastn homology against rice pseudochromosome 3. The ESTs spanned 29 cM on the short arm of rice chromosome 3, which is known to be syntenic to long arms of group-4 chromosomes of wheat. Fine-scale deletion-bin and genetic mapping revealed that 83% of ESTs were syntenic between wheat and rice, a far higher level of synteny than previously reported, and 6% were nonsyntenic (not located on rice chromosome 3). One inversion spanning a 5-cM region in rice and three deletion bins in wheat was identified. The remaining 11% of wheat ESTs showed no sequence homology in rice and mapped to the terminal 5% of the wheat chromosome 4BL. In this region, 27% of ESTs were duplicated, and it accounted for 70% of the recombination in the 4BL arm. Globally in wheat, no sequence homology ESTs mapped to the terminal bins, and ESTs rarely mapped to interstitial chromosomal regions known to be recombination hot spots. The wheat–rice comparative genomics analysis indicated that gene evolution occurs preferentially at the ends of chromosomes, driven by duplication and divergence associated with high rates of recombination.

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Section: Random Vs Localized Genome Evolutionmentioning

confidence: 80%

“…Additional evidence of the plasticity within telomeric regions can be observed in the wheat-rice colinear region containing the grain hardness genes puroindolines pinA and pinB and the grain softness protein gene Gsp (33). These genes showed no homology with rice at the nucleotide level.…”

Section: Random Vs Localized Genome Evolutionmentioning

confidence: 99%

Gene evolution at the ends of wheat chromosomes

See

Brooks

Nelson

et al. 2006

Proc. Natl. Acad. Sci. U.S.A.

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“…The 5B homeologous GSP locus is linked closely to the crossability gene SKr: The rice homologous gene to GBR0233 near SKr, Os12g44150, is separated by only two genes in the rice genome annotation from a group of genes (Os12g44180-Os12g44250) that were identified previously as orthologous to the regions carrying the grain softness protein (GSP) gene on the short arm of wheat chromosomes group 5 (Sourdille et al 1996;Turner et al 1999;Igrejas et al 2002;Chantret et al 2004) (Figure 4) and the short arm of chromosome 5H in barley (Caldwell et al 2004). To assess whether SKr is in the vicinity of the GSP locus on 5B and derive new markers, SSR and insertion site-based polymorphism (ISBP) markers (Paux et al 2006) were designed from the sequence of the BAC clone 1793L02 (GenBank acc.…”

Section: Resultsmentioning

confidence: 99%

Fine Mapping and Marker Development for the Crossability Gene SKr on Chromosome 5BS of Hexaploid Wheat (Triticum aestivum L.)

et al. 2009

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Most elite wheat varieties cannot be crossed with related species thereby restricting greatly the germplasm that can be used for alien introgression in breeding programs. Inhibition to crossability is controlled genetically and a number of QTL have been identified to date, including the major gene Kr1 on 5BL and SKr, a strong QTL affecting crossability between wheat and rye on chromosome 5BS. In this study, we used a recombinant SSD population originating from a cross between the poorly crossable cultivar Courtot (Ct) and the crossable line MP98 to characterize the major dominant effect of SKr and map the gene at the distal end of the chromosome near the 5B homeologous GSP locus. Colinearity with barley and rice was used to saturate the SKr region with new markers and establish orthologous relationships with a 54-kb region on rice chromosome 12. In total, five markers were mapped within a genetic interval of 0.3 cM and 400 kb of BAC contigs were established on both sides of the gene to lay the foundation for map-based cloning of SKr. Two SSR markers completely linked to SKr were used to evaluate a collection of crossable wheat progenies originating from primary triticale breeding programs. The results confirm the major effect of SKr on crossability and the usefulness of the two markers for the efficient introgression of crossability in elite wheat varieties.

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“…Of the three diploid ancestors of polyploid wheat, bacterial artificial chromosome (BAC) sequences of the Ha genomic region of A-and D-genome ancestors were reported previously (Chantret et al, 2004(Chantret et al, , 2005. We undertook sequence analysis of a BAC from the S genome of A. speltoides.…”

Section: Phylogeny Of Polyploid Wheat and Genetic Nomenclature Of Locimentioning

confidence: 99%

“…Sequencing the Ha loci of T. monococcum (Chantret et al, 2004) and A. tauschii (Chantret et al, 2005) showed that Gsp (Gene2), Pina (Gene4), and Pinb (Gene6) are located in an interval of approximately 70 kb. A hypothetical gene (Gene3) was found between Gsp and Pina and a function-unknown gene (Gene5) between Pina and Pinb.…”

mentioning

confidence: 99%

Recurrent Deletions of Puroindoline Genes at the GrainHardnessLocus in Four Independent Lineages of Polyploid Wheat

Huang

Gill

2007

Plant Physiology

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Polyploidy is known to induce numerous genetic and epigenetic changes but little is known about their physiological bases. In wheat, grain texture is mainly determined by the Hardness (Ha) locus consisting of genes Puroindoline a (Pina) and b (Pinb). These genes are conserved in diploid progenitors but were deleted from the A and B genomes of tetraploid Triticum turgidum (AB). We now report the recurrent deletions of Pina-Pinb in other lineages of polyploid wheat. We analyzed the Ha haplotype structure in 90 diploid and 300 polyploid accessions of Triticum and Aegilops spp. Pin genes were conserved in all diploid species and deletion haplotypes were detected in all polyploid Triticum and most of the polyploid Aegilops spp. Two Pina-Pinb deletion haplotypes were found in hexaploid wheat (Triticum aestivum; ABD). Pina and Pinb were eliminated from the G genome, but maintained in the A genome of tetraploid Triticum timopheevii (AG). Subsequently, Pina and Pinb were deleted from the A genome but retained in the A m genome of hexaploid Triticum zhukovskyi (A m AG). Comparison of deletion breakpoints demonstrated that the Pina-Pinb deletion occurred independently and recurrently in the four polyploid wheat species. The implications of Pina-Pinb deletions for polyploid-driven evolution of gene and genome and its possible physiological significance are discussed.

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Sequencing of the Triticum monococcum Hardness locus reveals good microcolinearity with rice

Cited by 87 publications

References 69 publications

Gene evolution at the ends of wheat chromosomes

Gene evolution at the ends of wheat chromosomes

Fine Mapping and Marker Development for the Crossability Gene SKr on Chromosome 5BS of Hexaploid Wheat (Triticum aestivum L.)

Recurrent Deletions of Puroindoline Genes at the GrainHardnessLocus in Four Independent Lineages of Polyploid Wheat

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