Molecular Maps in Cereals: Methodology and Progress

Varshney, Rajeev K.; Korzun, Viktor; Börner, Andreas

doi:10.1007/1-4020-2359-6_3

Cited by 19 publications

(26 citation statements)

References 258 publications

(91 reference statements)

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“…Considering the slight underestimation of chiasma number, the size should rather be between 2400 and 3000 cM. Wheat genetic maps that were developed initially were smaller than expected (1700-1800 cM; for a review see Varshney et al 2004). However, these maps covered only poorly the whole genome with sometimes chromosomes that were not represented (Cadalen et al 1997).…”

Section: Discussionmentioning

confidence: 96%

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

et al. 2009

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In wheat (Triticum aestivum L.), the crossover (CO) frequency increases gradually from the centromeres to the telomeres. However, little is known about the factors affecting both the distribution and the intensity of recombination along this gradient. To investigate this, we studied in detail the pattern of CO along chromosome 3B of bread wheat. A dense reference genetic map comprising 102 markers homogeneously distributed along the chromosome was compared to a physical deletion map. Most of the COs (90%) occurred in the distal subtelomeric regions that represent 40% of the chromosome. About 27% of the proximal regions surrounding the centromere showed a very weak CO frequency with only three COs found in the 752 gametes studied. Moreover, we observed a clear decrease of CO frequency on the distal region of the short arm. Finally, the intensity of interference was assessed for the first time in wheat using a Gamma model. The results showed m values of 1.2 for male recombination and 3.5 for female recombination, suggesting positive interference along wheat chromosome 3B.

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Section: Discussionmentioning

confidence: 96%

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

et al. 2009

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“…This is particularly relevant for rye, for which, at present, the genetic maps in the public domain involve RFLP, AFLP, RAPD, and SSR loci Philipp et al 1994;Senft and Wricke 1996;Korzun et al 2001;Bednarek et al 2003;Khlestkina et al 2004Khlestkina et al , 2005. None of these maps have a significant marker density (Varshney et al 2004).…”

Section: Development Of Functional Snp Markers For Ryementioning

confidence: 99%

Single nucleotide polymorphisms in rye (Secale cereale L.): discovery, frequency, and applications for genome mapping and diversity studies

et al. 2007

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To elucidate the potential of single nucleotide polymorphism (SNP) markers in rye, a set of 48 barley EST (expressed sequence tag) primer pairs was employed to amplify from DNA prepared from five rye inbred lines. A total of 96 SNPs and 26 indels (insertion-deletions) were defined from the sequences of 14 of the resulting amplicons, giving an estimated frequency of 1 SNP per 58 bp and 1 indel per 214 bp in the rye transcriptome. A mean of 3.4 haplotypes per marker with a mean expected heterozygosity of 0.66 were observed. The nucleotide diversity index (p) was estimated to be in the range 0.0059-0.0530. To improve assay cost-effectiveness, 12 of the 14 SNPs were converted to a cleaved amplified polymorphic sequence (CAPS) format. The resulting 12 SNP loci mapped to chromosomes 1R, 3R, 4R, 5R, 6R, and 7R, at locations consistent with their known map positions in barley. SNP genotypic data were compared with genomic simple sequence repeat (SSR) and EST-derived SSR genotypic data collected from the same templates. This showed a broad equivalence with respect to genetic diversity between these different data types.

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“…It has a nuclear genome, which is replete with gene duplicates and reiterated, noncoding DNA (Devos et al 1993;Devos and Gale 2000;Alkhimova et al 2004;Schulman et al 2004;Varshney et al 2004) and which is 64 times the size of the compact genome of A. thaliana. To assay the extent of similarity of meiosis in these two divergent plant species, and to relate any differences to vastly different genome architectures, it was decided to focus upon the expression and recruitment of meiosis-specific proteins associated with the SC, a structure that may be considered a paradigm for the assembly and interaction of structural and recombinogenic proteins.…”

mentioning

confidence: 99%

Molecular Assembly of Meiotic Proteins Asy1 and Zyp1 and Pairing Promiscuity in Rye (Secale cereale L.) and Its Synaptic Mutant sy10

et al. 2006

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Assembly of two orthologous proteins associated with meiotic chromosome axes in Arabidopsis thaliana (Asy1 and Zyp1) was studied immunologically at meiotic prophase of meiosis of wild-type rye (Secale cereale) and its synaptic mutant sy10, using antibodies derived from A. thaliana. The temporal and spatial expression of the two proteins were similar in wild-type rye, but with one notable difference. Unlike A. thaliana, in which foci of the transverse filament protein Zyp1 appear to linearize commensurately with synapsis, linear tracts of Asy1 and Zyp1 protein form independently at leptotene and early zygotene of rye and coalign into triple structures resembling synaptonemal complexes (SCs) only at later stages of synapsis. The sy10 mutant used in this study also forms spatially separate linear tracts of Asy1 and Zyp1 proteins at leptotene and early zygotene, and these coalign but do not form regular triple structures at midprophase. Electron microscopy of spread axial elements reveals extensive asynapsis with some exchanges of pairing partners. Indiscriminate SCs support nonhomologous chiasma formation at metaphase I, as revealed by multi-color fluorescence in situ hybridization enabling reliable identification of all the chromosomes of the complement. Scrutiny of chiasmate associations of chromosomes at this stage revealed some specificity in the associations of homologous and nonhomologous chromosomes. Inferences about the nature of synapsis in this mutant were drawn from such observations. T HE availability of advanced genomic and proteomic resources in tractable model organisms, such as yeast and Arabidopsis thaliana, has provided unprecedented access to the genes and proteins involved in the control of meiosis. This functional genomic infrastructure has also precipitated detailed comparisons of meiosis in closely and distantly related organisms, not only with the intention of isolating orthologs with key roles in the process, but also with the goal of assaying the degree of similarity of structure and function of key meiotic genes and proteins of organisms across the phylogenetic spectrum. Such comparisons have revealed that meiosis is conserved, insofar as a number of meiotic genes appear to have orthologs in a range of different organisms (for reviews see Zickler and

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Molecular Maps in Cereals: Methodology and Progress

Cited by 19 publications

References 258 publications

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

Single nucleotide polymorphisms in rye (Secale cereale L.): discovery, frequency, and applications for genome mapping and diversity studies

Molecular Assembly of Meiotic Proteins Asy1 and Zyp1 and Pairing Promiscuity in Rye (Secale cereale L.) and Its Synaptic Mutant sy10

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