Transmitting Learned Behavior to Future Generations (in Worms)

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Parents pass along DNA, RNA, proteins and all the contents of cytoplasm directly to their offspring, but not memories. So parental experiences don’t directly inform the behavior of their children… unless those children are roundworms. Two recent papers describe mechanisms that allow parental experiences to be transmitted to their offspring, sometimes for several generations, in the roundworm Caenorhabditis elegans ( C.elegans — nobody says the full name). In both cases transgenerational behavior effects were dependent on small RNA populations, adding another function to the already diverse set of roles that RNA can accomplish. There is no evidence that other species, especially large complex ones like humans, exhibit anything like these mechanisms—but these papers have created a legitimate avenue of investigating if similar pathways exist in other animals and how the experiences of the parents might directly effect the behavior of their offspring.

Longer summaries can be found in the Neuroscience News and Science Daily, and summaries and links to the two original articles are listed below. Neither article is easy reading but the summaries are pretty good.

Posner et al. (2019) Neuronal Small RNAs Control Behavior Transgenerationally. Cell

Summary

It is unknown whether the activity of the nervous system can be inherited. In Caenorhabditis elegans nematodes, parental responses can transmit heritable small RNAs that regulate gene expression transgenerationally. In this study, we show that a neuronal process can impact the next generations. Neurons-specific synthesis of RDE-4-dependent small RNAs regulates germline amplified endogenous small interfering RNAs (siRNAs) and germline gene expression for multiple generations. Further, the production of small RNAs in neurons controls the chemotaxis behavior of the progeny for at least three generations via the germline Argonaute HRDE-1. Among the targets of these small RNAs, we identified the conserved gene saeg-2, which is transgenerationally downregulated in the germline. Silencing of saeg-2 following neuronal small RNA biogenesis is required for chemotaxis under stress. Thus, we propose a small-RNA-based mechanism for communication of neuronal processes transgenerationally.

Moore et al. (2019) Piwi/PRG-1 Argonaute and TGF-β Mediate Transgenerational Learned Pathogenic Avoidance. Cell

Summary

The ability to inherit learned information from parents could be evolutionarily beneficial, enabling progeny to better survive dangerous conditions. We discovered that, after C. eleganshave learned to avoid the pathogenic bacteria Pseudomonas aeruginosa (PA14), they pass this learned behavior on to their progeny, through either the male or female germline, persisting through the fourth generation. Expression of the TGF-β ligand DAF-7 in the ASI sensory neurons correlates with and is required for this transgenerational avoidance behavior. Additionally, the Piwi Argonaute homolog PRG-1 and its downstream molecular components are required for transgenerational inheritance of both avoidance behavior and ASI daf-7 expression. Animals whose parents have learned to avoid PA14 display a PA14 avoidance-based survival advantage that is also prg-1 dependent, suggesting an adaptive response. Transgenerational epigenetic inheritance of pathogenic learning may optimize progeny decisions to increase survival in fluctuating environmental conditions.


Use It and Never Loose It: Embryonic Enhancers Remain Available

Cells recall the way they were

Jessica Lau, HSCRB Communications

When cells grow up, they remember their childhoods.

Use It and Never Loose It: Embryonic Enhancers Remain Available

A new study has found that adult cells keep a record of which genes were activated during their early development. Even more surprisingly, the memory is retrievable: Under certain lab conditions, cells can play the story of their development in reverse, switching on genes that were active before. The study, by researchers at the Dana-Farber Cancer Institute (DFCI), Brigham and Women’s Hospital, Harvard Medical School, and the Harvard Stem Cell Institute, was published in Molecular Cell.

“We discovered that adult cells maintain a catalog of all of the genes used early in development — a record when organs and tissues are formed within the embryo,” said senior author Ramesh Shivdasani, professor of medicine at Harvard Medical School and DFCI, and faculty member of the Harvard Stem Cell Institute.

“Beyond the sheer existence of this archive, we were surprised to find that it doesn’t remain permanently locked away but can be accessed by cells under certain conditions,” he said. “This discovery has potentially profound implications for how we think about cells’ capabilities, and for the future treatment of degenerative and other diseases.”


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Selective Serotonin reuptake of by Chromatin

Mood-Altering Messenger Goes Nuclear

Francis Collins, NIH Director's Blog

Selective Serotonin reuptake of by Chromatin

Serotonin is best known for its role as a chemical messenger in the brain, helping to regulate mood, appetite, sleep, and many other functions. It exerts these influences by binding to its receptor on the surface of neural cells. But startling new work suggests the impact of serotonin does not end there: the molecule also can enter a cell’s nucleus and directly switch on genes.

While much more study is needed, this is a potentially groundbreaking discovery. Not only could it have implications for managing depression and other mood disorders, it may also open new avenues for treating substance abuse and neurodegenerative diseases.

To understand how serotonin contributes to switching genes on and off, a lesson on epigenetics is helpful. Keep in mind that the DNA instruction book of all cells is essentially the same, yet the chapters of the book are read in very different ways by cells in different parts of the body. Epigenetics refers to chemical marks on DNA itself or on the protein “spools” called histones that package DNA. These marks influence the activity of genes in a particular cell without changing the underlying DNA sequence, switching them on and off or acting as “volume knobs” to turn the activity of particular genes up or down.

The marks include various chemical groups—including acetyl, phosphate, or methyl—which are added at precise locations to those spool-like proteins called histones. The addition of such groups alters the accessibility of the DNA for copying into messenger RNA and producing needed proteins.

In the study reported in Nature, researchers led by Ian Maze and postdoctoral researcher Lorna Farrelly, Icahn School of Medicine at Mount Sinai, New York, followed a hunch that serotonin molecules might also get added to histones [1]. There had been hints that it might be possible. For instance, earlier evidence suggested that inside cells, serotonin could enter the nucleus. There also was evidence that serotonin could attach to proteins outside the nucleus in a process called serotonylation.


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Functional genomics of Diabetes SNPs

Risk variants disrupting enhancers of TH1 and TREG cells in type 1 diabetes

Peng Gao, Yasin Uzun, Bing He, Sarah E. Salamati, Julie K. M. Coffey, Eva Tsalikian, & Kai Tan

PNAS (Research Article)

Functional genomics of Diabetes SNPs

Functional interpretation of noncoding genetic variants identified by genome-wide association studies is a major challenge in human genetics and gene regulation. We generated epigenomics data using primary cells from type 1 diabetes patients. Using these data, we identified and validated multiple novel risk variants for this disease. In addition, our ranked list of candidate risk SNPs represents the most comprehensive annotation based on T1D-specific T-cell data. Because many autoimmune diseases share some genetic underpinnings, our dataset may be used to understand causal noncoding mutations in related autoimmune diseases.


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Epigenetics: Fascinating but under appreciated sources and effects (original article)

Biological Invasion: The Influence of the Hidden Side of the (Epi)Genome

Abstract

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1.Understanding the mechanisms underlying biological invasions and rapid adaptation to global change remains a fundamental challenge, particularly in small populations lacking in genetic variation. Two under‐studied mechanisms that could facilitate adaptive evolution and adaptive plasticity are the increased genetic variation due to transposable elements, and associated or independent modification of gene expression through epigenetic changes.

2.Here we focus on the potential role of these genetic and non‐genetic mechanisms for facilitating invasion success. Because novel or stressful environments are known to induce both epigenetic changes and transposable element activity, these mechanisms may play an underappreciated role in generating phenotypic and genetic variation for selection to act on. We review how these mechanisms operate, the evidence for how they respond to novel or stressful environments, and how these mechanisms can contribute to the success of biological invasions by facilitating adaptive evolution and phenotypic plasticity.

3.Because genetic and phenotypic variations due to transposable elements and epigenetic changes are often well regulated or “hidden” in the native environment, the independent and combined contribution of these mechanisms may only become important when populations colonize novel environments. A focus on the mechanisms that generate and control the expression of this variation in new environments may provide insights into biological invasions that would otherwise not be obvious.

4.Global changes and human activities impact on ecosystems and allow new opportunities for biological invasions. Invasive species succeed by adapting rapidly to new environments. The degree to which rapid responses to environmental change could be mediated by the epigenome – the regulatory system that integrates how environmental and genomic variation jointly shape phenotypic variation ‐ requires greater attention if we want to understand the mechanisms by which populations successfully colonize and adapt to new environments.


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Informed speculation regarding upcoming Epigenetics Markets

Epigenetics Market 2019-2025 By (Growth Potential, Opportunities, Drivers, Industry-Specific Challenges And Risks)

Informed speculation regarding upcoming Epigenetics Markets - Genome Media

Report Titled “Epigenetics Market Exploration Report Forecast 2019-2025 includes a comprehensive study of the important sections to provide insights on the Epigenetics Market dynamics till 2025, which would enable the stakeholders to capitalize on prevailing market opportunities, newest industry data and Epigenetics Industry future trends, allowing you to identify the products and end users driving Revenue growth and effectiveness.


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Epigenetics of testicular tumors

The Role of DNA/Histone Modifying Enzymes and Chromatin Remodeling Complexes in Testicular Germ Cell Tumors - Beyond the Abstract

Epigenetics of testicular tumors

Despite being globally infrequent, testicular germ cell tumors (TGCTs) represent the most common neoplasms in young adult Caucasian men. They are challenging tumors, hallmarked by striking heterogeneity; however, they show very few mutations and share the same (almost) unifying cytogenetic abnormality, in the form of isochromosome 12p. This leaves room for Epigenetic phenomena to explain such diversity. Epigenetic mechanisms frequently deregulated in various cancer types include DNA methylation, non-coding RNAs, but also the effect on chromatin accessibility subsequent to histone post-translational modifications (PTMs) and to the action of chromatin remodeling complexes (ChRCs). These modifications are introduced by complex families of enzymes (DNA and histone modifying enzymes) which show, naturally, deregulated expression in cancer. However, and despite epigenetic (de)regulation being especially relevant in TGCTs, few studies have addressed the role of these enzymes in this tumor model.


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