Genetic effects on microsatellite diversity in wild emmer wheat (Triticum dicoccoides) at the Yehudiyya microsite, Israel

Li, Y-C; Fahima, Tzion; Röder, Marion S.; Vm, Kirzhner; Beiles, Avigdor; Ab, Korol; Nevo, Eviatar

doi:10.1038/sj.hdy.6800190

Cited by 31 publications

(25 citation statements)

References 47 publications

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“…Li et al (2003) examined microsatellite diversity in wild emmer wheat, and they found a strong effect of the interaction between mean repeat length and SSR locus distance from the centromere on the number of alleles, and variance in repeat size at SSR loci. Future studies should be performed to determine the location of Rops15 in the R. pseudoacacia genome.…”

Section: Discussionmentioning

confidence: 99%

High somatic instability of a microsatellite locus in a clonal tree, Robinia pseudoacacia

et al. 2003

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Robinia pseudoacacia L. is a clonal tree species. To investigate a mutation within eight microsatellite loci of R. pseudoacacia, we analyzed DNA samples obtained from different leaf samples within each ramet, leaves from ramets within the genet, and seeds. Of the eight loci, locus Rops15 (AG motif) displayed hypermutability. The mutation rates of Rops15 within each ramet, among ramets within the genet, and offspring were 6.27% (ranging from 0 to 31.1%), 6.11% (from 0 to 25.0%) and 3.78% (from 0 to 10.9%), respectively. The mutation rate increased with allele size (13-71 repeat units). The mutation patterns observed in Rops15 were distinctive in two ways. First, there was a significant bias toward additions over deletions, and both addition and deletion of single repeats were dominant at alleles with lengths less than 232 bp (63 repeats). Second, for the longest allele of 248 bp (71 repeats), the number of losses was higher than the number of gains. These observations suggest that the mutation patterns of microsatellites in R. pseudoacacia may follow a generalized stepwise mutation model, and that the tendency of long alleles to mutate to shorter lengths acts to prevent infinite growth. Finally, the observation of somatic hypermutability at locus Rops15 highlights the need for caution when using highly polymorphic microsatellites for population genetic structure and paternity analysis in tree species.

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Section: Discussionmentioning

confidence: 99%

High somatic instability of a microsatellite locus in a clonal tree, Robinia pseudoacacia

et al. 2003

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“…There were more motif combinations in B. napus (716) than in B. rapa (304) or B. oleracea (214). The generation of SSR diversity in plants is a complex process which is affected by genetic factors such as replication slippage, recombination effects and mutational mechanisms that could be induced by ecological stresses (Li et al 2003). Mononucleotide SSRs might be the original SSRs from which long and compound motif SSRs were derived.…”

Section: Discussionmentioning

confidence: 99%

“…Variation in SSRs arises due to mutation of the nucleotide sequence of the motifs and changes in the number of repeat units (Li et al 2003). In related species, SSR motifs are in general conserved, thus most of the SSR variation depends on the number of repeats (Vigouroux et al 2003;Asp et al 2007;Gao et al 2009).…”

Section: Introductionmentioning

confidence: 99%

Characterization and comparison of gene-based simple sequence repeats across Brassica species

et al. 2011

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Simple sequence repeats (SSRs) are important components of eukaryotic genomes and may play an important role in regulating gene expression. However, the characteristics of genic SSRs and the effect of interspecific hybridization and polyploidization on genic SSRs seem not to have received desired attention in terms of scientific investigations. To determine the features of genic SSRs and elucidate their role in polyploidization process of the Brassica family, we identified SSRs in Plant Genome Database-assembled unique transcripts (PUTs) of Brassica species. A higher density of SSRs and a greater number of compound motif SSRs and mononucleotide motif types with large average number of repeats were detected in allotetraploid Brassica napus than in the diploid parental species (Brassica rapa and Brassica oleracea). In addition, a greater proportion of SSR-PUTs were found to be associated with the stress response and developmental processes in B. napus than in the parents. A negative correlation between the repeat number and the motif type and the total length, and a positive correlation between the repeat number and the total length of SSRs were observed. PUT-SSR might be generated from A/T-rich regions. The successful development of 123 pairs of SSR primers for Brassica PUTs showed that SSR-PUTs could be exploited as gene-based SSR functional markers for application in Brassica breeding. These results indicate that interspecific hybridization and polyploidization could trigger the amplification of SSRs, and long SSRs might become shorter to enable the plant to adapt to environmental and artificial selection.

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“…They reside primarily within or near genes [96]. Unequal crossing-over may be one of the major mechanisms responsible for the variation and instability of microsatellite loci [97][98][99][100]. Since microsatellite loci are usually located near or within genes, unequal crossing-over between the short repeats in the microsatellites may lead to novel alleles at microsatellite loci and the gene loci involved.…”

Section: Unequal Crossing-overmentioning

confidence: 99%

Meiosis-Driven Genome Variation in Plants

Cai¹,

Xu²

2007

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Meiosis includes two successive divisions of the nucleus with one round of DNA replication and leads to the formation of gametes with half of the chromosomes of the mother cell during sexual reproduction. It provides a cytological basis for gametogenesis and inheritance in eukaryotes. Meiotic cell division is a complex and dynamic process that involves a number of molecular and cellular events, such as DNA and chromosome replication, chromosome pairing, synapsis and recombination, chromosome segregation, and cytokinesis. Meiosis maintains genome stability and integrity over sexual life cycles. On the other hand, meiosis generates genome variations in several ways. Variant meiotic recombination resulting from specific genome structures induces deletions, duplications, and other rearrangements within the genic and non-genic genomic regions and has been considered a major driving force for gene and genome evolution in nature. Meiotic abnormalities in chromosome segregation lead to chromosomally imbalanced gametes and aneuploidy. Meiotic restitution due to failure of the first or second meiotic division gives rise to unreduced gametes, which triggers polyploidization and genome expansion. This paper reviews research regarding meiosis-driven genome variation, including deletion and duplication of genomic regions, aneuploidy, and polyploidization, and discusses the effect of related meiotic events on genome variation and evolution in plants. Knowledge of various meiosis-driven genome variations provides insight into genome evolution and genetic variability in plants and facilitates plant genome research.

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Genetic effects on microsatellite diversity in wild emmer wheat (Triticum dicoccoides) at the Yehudiyya microsite, Israel

Cited by 31 publications

References 47 publications

High somatic instability of a microsatellite locus in a clonal tree, Robinia pseudoacacia

High somatic instability of a microsatellite locus in a clonal tree, Robinia pseudoacacia

Characterization and comparison of gene-based simple sequence repeats across Brassica species

Meiosis-Driven Genome Variation in Plants

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