Recombination of Ty elements in yeast can be induced by a double-strand break.

Parket, Anat; Inbar, Ori; Kupiec, Martin

doi:10.1093/genetics/140.1.67

Cited by 41 publications

(1 citation statement)

References 45 publications

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“…In most previous studies of Ty1-Ty1 interactions, events were selected to involve a specific region of the genome, either because of the method used to identify recombinants [ 4 , 7 , 8 , 13 , 15 – 17 ] or because of the placement of the targets for site-specific endonucleases [ 15 – 17 ]. In our experiments, we used the CRISPR/Cas9 system to target all Ty1 elements in a diploid genome and identified Ty1-Ty1 recombination events without selection except for viability.…”

Section: Introductionmentioning

confidence: 99%

Shuffling the yeast genome using CRISPR/Cas9-generated DSBs that target the transposable Ty1 elements

Sui

Tang

et al. 2023

PLoS Genet

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Although homologous recombination between transposable elements can drive genomic evolution in yeast by facilitating chromosomal rearrangements, the details of the underlying mechanisms are not fully clarified. In the genome of the yeast Saccharomyces cerevisiae, the most common class of transposon is the retrotransposon Ty1. Here, we explored how Cas9-induced double-strand breaks (DSBs) directed to Ty1 elements produce genomic alterations in this yeast species. Following Cas9 induction, we observed a significant elevation of chromosome rearrangements such as deletions, duplications and translocations. In addition, we found elevated rates of mitotic recombination, resulting in loss of heterozygosity. Using Southern analysis coupled with short- and long-read DNA sequencing, we revealed important features of recombination induced in retrotransposons. Almost all of the chromosomal rearrangements reflect the repair of DSBs at Ty1 elements by non-allelic homologous recombination; clustered Ty elements were hotspots for chromosome rearrangements. In contrast, a large proportion (about three-fourths) of the allelic mitotic recombination events have breakpoints in unique sequences. Our analysis suggests that some of the latter events reflect extensive processing of the broken ends produced in the Ty element that extend into unique sequences resulting in break-induced replication. Finally, we found that haploid and diploid strain have different preferences for the pathways used to repair double-stranded DNA breaks. Our findings demonstrate the importance of DNA lesions in retrotransposons in driving genome evolution.

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Section: Introductionmentioning

confidence: 99%

Shuffling the yeast genome using CRISPR/Cas9-generated DSBs that target the transposable Ty1 elements

Sui

Tang

et al. 2023

PLoS Genet

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cDNA-mediated Ty recombination can take place in the absence of plus-strand cDNA synthesis, but not in the absence of the integrase protein

Nevo‐Caspi

Kupiec

1997

Current Genetics

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Ty elements belong to the family of LTR-containing retrotransposons. Ty RNA is reverse transcribed by Ty-encoded proteins. The cDNA then transposes to new locations in the genome by a process that involves the integrase protein encoded by the element. We have previously shown that the Ty cDNA molecule can participate in recombination events with genomic Tys. In this study we have analyzed the role of the integrase protein in cDNA-mediated Ty recombination. We found that this process involves the integrase protein in a temperature-dependent manner. In addition we have investigated whether double-stranded DNA is the only molecule that can participate in cDNA-mediated Ty recombination. We have shown that mutations in the polypurine tract that abolish plus-strand synthesis do not prevent cDNA-mediated recombination, implying that other types of intermediates from the reverse-transcription process (e.g. single-stranded DNA or a hybrid RNA-cDNA molecule) can participate in cDNA-mediated Ty recombination.

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Patterns of genetic variation in the Chinese endemic Psilopeganum sinense (Rutaceae) as revealed by nuclear microsatellites and chloroplast microsatellites

Tang

Yao

2014

Biochemical Systematics and Ecology

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Recombination of Ty elements in yeast can be induced by a double-strand break.

Cited by 41 publications

References 45 publications

Shuffling the yeast genome using CRISPR/Cas9-generated DSBs that target the transposable Ty1 elements

Shuffling the yeast genome using CRISPR/Cas9-generated DSBs that target the transposable Ty1 elements

cDNA-mediated Ty recombination can take place in the absence of plus-strand cDNA synthesis, but not in the absence of the integrase protein

Patterns of genetic variation in the Chinese endemic Psilopeganum sinense (Rutaceae) as revealed by nuclear microsatellites and chloroplast microsatellites

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