Reverse Transcription in the Saccharomyces cerevisiae Long-Terminal Repeat Retrotransposon Ty3

Rausch, Jason W.; Miller, Jennifer T.; Grice, Stuart F. J. Le

doi:10.3390/v9030044

Cited by 6 publications

(5 citation statements)

References 53 publications

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“…During reverse transcription of retrotransposons and retroviral mRNAs, the synthesis of plus-strand cDNA is initiated from an RNA primer that corresponds to a purine-rich sequence located upstream and adjacent to the 3′ UTR ( Wilhelm and Wilhelm 2001 ; Rausch and Le Grice 2004 ; Rausch et al . 2017 ).…”

Section: Resultsmentioning

confidence: 99%

A high-quality reference genome for the fission yeast Schizosaccharomyces osmophilus

Jia

Zhang

Liang

et al. 2023

G3: Genes, Genomes, Genetics

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Fission yeasts are an ancient group of fungal species that diverged from each other from tens to hundreds of million years ago. Among them is the preeminent model organism Schizosaccharomyces pombe, which has significantly contributed to our understandings of molecular mechanisms underlying fundamental cellular processes. The availability of the genomes of S. pombe and three other fission yeast species S. japonicus, S. octosporus, and S. cryophilus has enabled cross-species comparisons that provide insights into the evolution of genes, pathways, and genomes. Here, we performed genome sequencing on the type strain of the recently identified fission yeast species S. osmophilus and obtained a complete mitochondrial genome and a nuclear genome assembly with gaps only at rRNA gene arrays. A total of 5098 protein-coding nuclear genes were annotated and orthologs for more than 95% of them were identified. Genome-based phylogenetic analysis showed that S. osmophilus is most closely related to S. octosporus and these two species diverged around 16 million years ago. To demonstrate the utility of this S. osmophilus reference genome, we conducted cross-species comparative analyses of centromeres, telomeres, transposons, the mating-type region, Cbp1 family proteins, and mitochondrial genomes. These analyses revealed conservation of repeat arrangements and sequence motifs in centromere cores, identified telomeric sequences composed of two types of repeats, delineated relationships among Tf1/sushi group retrotransposons, characterized the evolutionary origins and trajectories of Cbp1 family domesticated transposases, and discovered signs of interspecific transfer of two types of mitochondrial selfish elements.

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Section: Resultsmentioning

confidence: 99%

A high-quality reference genome for the fission yeast Schizosaccharomyces osmophilus

Jia

Zhang

Liang

et al. 2023

G3: Genes, Genomes, Genetics

View full text Add to dashboard Cite

show abstract

“…For example, studies of yeast killer viruses have helped us to study cellular necrosis and apoptosis during virus-host interaction 14 15 16 17 , and to understand potential cellular viral restriction factors toward viral infections 18 19 . Since the integration process of yeast retrotransposons resembles in many ways retroviral integration, molecular studies of fission yeast Tf elements or budding yeast Ty elements provided insights into functions of retroviruses such as HIV or murine leukemia viruses 20 21 22 .…”

Section: Introductionmentioning

confidence: 99%

Yeast for virus research

Zhao¹

2017

Microb Cell

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Budding yeast (Saccharomyces cerevisiae) and fission yeast (Schizosaccharomyces pombe) are two popular model organisms for virus research. They are natural hosts for viruses as they carry their own indigenous viruses. Both yeasts have been used for studies of plant, animal and human viruses. Many positive sense (+) RNA viruses and some DNA viruses replicate with various levels in yeasts, thus allowing study of those viral activities during viral life cycle. Yeasts are single cell eukaryotic organisms. Hence, many of the fundamental cellular functions such as cell cycle regulation or programed cell death are highly conserved from yeasts to higher eukaryotes. Therefore, they are particularly suited to study the impact of those viral activities on related cellular activities during virus-host interactions. Yeasts present many unique advantages in virus research over high eukaryotes. Yeast cells are easy to maintain in the laboratory with relative short doubling time. They are non-biohazardous, genetically amendable with small genomes that permit genome-wide analysis of virologic and cellular functions. In this review, similarities and differences of these two yeasts are described. Studies of virologic activities such as viral translation, viral replication and genome-wide study of virus-cell interactions in yeasts are highlighted. Impacts of viral proteins on basic cellular functions such as cell cycle regulation and programed cell death are discussed. Potential applications of using yeasts as hosts to carry out functional analysis of small viral genome and to develop high throughput drug screening platform for the discovery of antiviral drugs are presented.

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“…During reverse transcription of retrotransposons and retroviral mRNAs, the synthesis of plus-strand cDNA is initiated from an RNA primer that corresponds to a purine-rich sequence located upstream and adjacent to the 3' UTR (Wilhelm and Wilhelm 2001;Rausch and Le Grice 2004;Rausch et al 2017). This sequence is termed the polypurine tract (PPT) (Majors and Varmus 1981).…”

Section: Retrotransposons In S Osmophilus and Their Evolutionary Rela...mentioning

confidence: 99%

A high-quality reference genome for the fission yeastSchizosaccharomyces osmophilus

Jia

Zhang

Liang

et al. 2022

Preprint

View full text Add to dashboard Cite

Fission yeasts are an ancient group of fungal species that diverged from each other from tens to hundreds of million years ago. Among them is the preeminent model organismSchizosaccharomyces pombe, which has significantly contributed to our understandings of molecular mechanisms underlying fundamental cellular processes. The availability of the genomes ofS. pombeand three other fission yeast speciesS. japonicus,S. octosporus, andS. cryophilushas enabled cross-species comparisons that provide insights into the evolution of genes, pathways, and genomes. Here, we performed genome sequencing on the type strain of the recently identified fission yeast speciesS. osmophilusand obtained a complete mitochondrial genome and a nuclear genome assembly with gaps only at rRNA gene arrays. A total of 5098 protein-coding nuclear genes were annotated and orthologs for more than 95% of them were identified. Genome-based phylogenetic analysis showed thatS. osmophilusis most closely related toS. octosporusand these two species diverged around 16 million years ago. To demonstrate the utility of thisS. osmophilusreference genome, we conducted cross-species comparative analyses of centromeres, telomeres, transposons, the mating-type region, Cbp1 family proteins, and mitochondrial genomes. These analyses revealed conservation of repeat arrangements and sequence motifs in centromere cores, identified telomeric sequences composed of two types of repeats, delineated relationships among Tf1/sushi group retrotransposons, characterized the evolutionary origins and trajectories of Cbp1 family domesticated transposases, and discovered signs of interspecific transfer of two types of mitochondrial selfish elements.

show abstract

Reverse Transcription in the Saccharomyces cerevisiae Long-Terminal Repeat Retrotransposon Ty3

Cited by 6 publications

References 53 publications

A high-quality reference genome for the fission yeast Schizosaccharomyces osmophilus

A high-quality reference genome for the fission yeast Schizosaccharomyces osmophilus

Yeast for virus research

A high-quality reference genome for the fission yeastSchizosaccharomyces osmophilus

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