ArticleProceedings of the National Academy of Sciences of the United States of America2016
Riches of phenotype computationally extracted from microbial colonies.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
6 citing papers in PubMed.
- [PSI]-CIC: A Deep-Learning Pipeline for the Annotation of Sectored Saccharomyces cerevisiae Colonies.Bulletin of mathematical biology · 2024Article
- Nucleosome Positioning Regulates the Establishment, Stability, and Inheritance of Heterochromatin inProceedings of the National Academy of Sciences of the United States of America · 2020Article
- Ccp1 modulates epigenetic stability at centromeres and affects heterochromatin distribution inThe Journal of biological chemistry · 2018Article
- Pivotal roles of PCNA loading and unloading in heterochromatin function.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
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Authors and funding
5 authors.
Funding
Abstract
The genetic, epigenetic, and physiological differences among cells in clonal microbial colonies are underexplored opportunities for discovery. A recently developed genetic assay reveals that transient losses of heterochromatic repression, a heritable form of gene silencing, occur throughout the growth of Saccharomyces colonies. This assay requires analyzing two-color fluorescence patterns in yeast colonies, which is qualitatively appealing but quantitatively challenging. In this paper, we developed a suite of automated image processing, visualization, and classification algorithms (MORPHE) that facilitated the analysis of heterochromatin dynamics in the context of colonial growth and that can be broadly adapted to many colony-based assays in Saccharomyces and other microbes. Using the features that were automatically extracted from fluorescence images, our classification method distinguished loss-of-silencing patterns between mutants and wild type with unprecedented precision. Application of MORPHE revealed subtle but significant differences in the stability of heterochromatic repression between various environmental conditions, revealed that haploid cells experienced higher rates of silencing loss than diploids, and uncovered the unexpected contribution of a sirtuin to heterochromatin dynamics.
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Registered trials
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