Retrotransposable elements (RTEs) comprise approximately 45% of the human genome. RTEs are mobile DNA elements that can insert into new genomic positions using a copy and paste mechanism. This process, termed retrotransposition, can be deleterious at multiple levels by causing mutagenesis and genome structural instability, triggering epigenetic changes, and disrupting normal patterns of gene regulation. Numerous single- gene mutations in humans have been documented to result from germline retrotransposition. Organisms have evolved multiple transcriptional and post-transcriptional silencing mechanisms to protect their genomes against RTEs. Until recently RTEs were thought to be silent in the soma, however, new evidence points to activity in the brain and in cancer cells. Indeed, initial indications are that somatic retrotransposition is much more frequent than previously anticipated. We have reported that retrotransposition is activated during aging and cellular senescence, and hypothesized that it may represent a hitherto unappreciated molecular aging process. The long-term goal of our research is to determine the impact of retrotransposition on genome integrity during aging. As a first step, my objective in thi proposal is to study, using high throughput DNA sequencing methods, the mobilization of RTEs during cellular senescence.
In Aim 1 I will perform genome-wide profiling to determine where new insertions occur and evaluate whether these events have the potential to exert deleterious effects by disrupting regions of the genome important for cell function.
In Aim 2 I will examine the occurrence of unique retrotranspositions in individual cells. We have evidence that many new insertions likely occur in individual post-mitotic cells after they have ceased dividing. To comprehensively profile the spectrum and frequency of these events I will use single-cell whole genome DNA sequencing. My research will employ innovative state-of-the-art high-throughput sequencing strategies, and I will develop new bioinformatic tools to integrate and validate the output from multiple algorithms. The information obtained will address the question: To what extent is retrotransposition damaging to the genomes of somatic cells in our bodies, and is this a plausible mechanism of aging? The experience gained and tools developed will be highly informative for future studies aimed at examining these processed directly in aging tissues. My efforts will also inform whether proof- of-principle studies using interventions that inhibit retrotransposition should be investigated as potential therapeutics for age-associated diseases.

Public Health Relevance

Retrotransposable element (RTE) DNA sequences are parasitic, mobile, and normally repressed DNA elements that can insert into new genomic positions using a 'copy and paste' mechanism. Recently, it was discovered that retrotransposable elements become active in cellular senescence and aging. The goal of my proposal is to characterize the detrimental consequences of RTE derepression in cellular senescence and to assess whether RTEs may be damaging to the genome of somatic cells during aging.

National Institute of Health (NIH)
National Institute on Aging (NIA)
Predoctoral Individual National Research Service Award (F31)
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Special Emphasis Panel (ZRG1)
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Guo, Max
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Brown University
Schools of Medicine
United States
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Nelson, David M; Jaber-Hijazi, Farah; Cole, John J et al. (2016) Mapping H4K20me3 onto the chromatin landscape of senescent cells indicates a function in control of cell senescence and tumor suppression through preservation of genetic and epigenetic stability. Genome Biol 17:158
Criscione, Steven W; Theodosakis, Nicholas; Micevic, Goran et al. (2016) Genome-wide characterization of human L1 antisense promoter-driven transcripts. BMC Genomics 17:463
Criscione, Steven W; Teo, Yee Voan; Neretti, Nicola (2016) The Chromatin Landscape of Cellular Senescence. Trends Genet 32:751-761
Criscione, Steven W; De Cecco, Marco; Siranosian, Benjamin et al. (2016) Reorganization of chromosome architecture in replicative cellular senescence. Sci Adv 2:e1500882
Criscione, Steven W; Zhang, Yue; Thompson, William et al. (2014) Transcriptional landscape of repetitive elements in normal and cancer human cells. BMC Genomics 15:583