TY - JOUR TI - A new experimental platform facilitates assessment of the transcriptional and chromatin landscapes of aging yeast AU - Hendrickson, David G AU - Soifer, Ilya AU - Wranik, Bernd J AU - Kim, Griffin AU - Robles, Michael AU - Gibney, Patrick A AU - McIsaac, R Scott A2 - Kaeberlein, Matt A2 - Weigel, Detlef VL - 7 PY - 2018 DA - 2018/10/18 SP - e39911 C1 - eLife 2018;7:e39911 DO - 10.7554/eLife.39911 UR - https://doi.org/10.7554/eLife.39911 AB - Replicative aging of Saccharomyces cerevisiae is an established model system for eukaryotic cellular aging. A limitation in yeast lifespan studies has been the difficulty of separating old cells from young cells in large quantities. We engineered a new platform, the Miniature-chemostat Aging Device (MAD), that enables purification of aged cells at sufficient quantities for genomic and biochemical characterization of aging yeast populations. Using MAD, we measured DNA accessibility and gene expression changes in aging cells. Our data highlight an intimate connection between aging, growth rate, and stress. Stress-independent genes that change with age are highly enriched for targets of the signal recognition particle (SRP). Combining MAD with an improved ATAC-seq method, we find that increasing proteasome activity reduces rDNA instability usually observed in aging cells and, contrary to published findings, provide evidence that global nucleosome occupancy does not change significantly with age. KW - ATAC-Seq KW - rDNA KW - transposons KW - proteasome KW - longevity KW - gene expression JF - eLife SN - 2050-084X PB - eLife Sciences Publications, Ltd ER -