Simple sequences are ubiquitous repetitive components of eukaryotic genomes

Simple sequences are ubiquitous repetitive components of eukaryotic genomes

1984 | Diethard Tautz* and Manfred Renz
Simple sequences are repetitive DNA regions consisting of one or a few tandemly repeated nucleotides, such as poly(dA), poly(dT), poly(dG-dT), or poly(dC-dA). These sequences are widespread in eukaryotic genomes and have been found in various regions, including near genes, introns, histone gene clusters, and immunoglobulin gene regions. Two main types, AA/TT and GT/CA, have been shown to be interspersed repetitive elements in eukaryotic DNA. Simple sequences differ from satellite sequences in that they are interspersed in the genome and are often transcribed into RNA. Different types of simple sequences can be clustered in small DNA regions. In this study, synthetic simple sequence DNA was hybridized to genome blots of phylogenetically different organisms. The results showed that many, possibly all, types of simple sequences are repetitive components of eukaryotic genomes. These sequences are likely generated by common mechanisms such as slippage replication and unequal crossover. They may not have a general function in gene expression. This is supported by the observation that simple sequences are found in the metabolically inactive micronucleus of the protozoan Stylonychia, but not in the metabolically active macronucleus. Simple sequences were detected in various eukaryotic species, including human, Drosophila, sea urchin, Stylonychia, and yeast. Hybridization experiments showed that simple sequences are present in all five species. However, some sequences, like GA/CT, showed strong hybridization signals in certain species. The results suggest that simple sequences are interspersed in the genome, though this is not definitive proof. The hybridization conditions were chosen to detect sequences longer than 15 bp, as shorter sequences would not hybridize effectively. The study also found that simple sequences up to about 20-25 bp yield low signals under the employed conditions. This was observed in the hybridization of restriction fragments containing short tracts of A-residues. The results indicate that simple sequences are present in eukaryotic genomes and may contribute significantly to the overall DNA content. However, their exact function remains unclear. The study suggests that simple sequences may serve as hotspots for recombination and contribute to genetic variation. The presence of simple sequences in the micronucleus but not in the macronucleus suggests they may not be essential for normal gene expression. The study also notes that the distribution of simple sequences in Stylonychia is opposite to that of GT/CA sequences, indicating that GT/CA sequences may not form Z-DNA in vivo.Simple sequences are repetitive DNA regions consisting of one or a few tandemly repeated nucleotides, such as poly(dA), poly(dT), poly(dG-dT), or poly(dC-dA). These sequences are widespread in eukaryotic genomes and have been found in various regions, including near genes, introns, histone gene clusters, and immunoglobulin gene regions. Two main types, AA/TT and GT/CA, have been shown to be interspersed repetitive elements in eukaryotic DNA. Simple sequences differ from satellite sequences in that they are interspersed in the genome and are often transcribed into RNA. Different types of simple sequences can be clustered in small DNA regions. In this study, synthetic simple sequence DNA was hybridized to genome blots of phylogenetically different organisms. The results showed that many, possibly all, types of simple sequences are repetitive components of eukaryotic genomes. These sequences are likely generated by common mechanisms such as slippage replication and unequal crossover. They may not have a general function in gene expression. This is supported by the observation that simple sequences are found in the metabolically inactive micronucleus of the protozoan Stylonychia, but not in the metabolically active macronucleus. Simple sequences were detected in various eukaryotic species, including human, Drosophila, sea urchin, Stylonychia, and yeast. Hybridization experiments showed that simple sequences are present in all five species. However, some sequences, like GA/CT, showed strong hybridization signals in certain species. The results suggest that simple sequences are interspersed in the genome, though this is not definitive proof. The hybridization conditions were chosen to detect sequences longer than 15 bp, as shorter sequences would not hybridize effectively. The study also found that simple sequences up to about 20-25 bp yield low signals under the employed conditions. This was observed in the hybridization of restriction fragments containing short tracts of A-residues. The results indicate that simple sequences are present in eukaryotic genomes and may contribute significantly to the overall DNA content. However, their exact function remains unclear. The study suggests that simple sequences may serve as hotspots for recombination and contribute to genetic variation. The presence of simple sequences in the micronucleus but not in the macronucleus suggests they may not be essential for normal gene expression. The study also notes that the distribution of simple sequences in Stylonychia is opposite to that of GT/CA sequences, indicating that GT/CA sequences may not form Z-DNA in vivo.
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