Non-CpG DNA methylation

This 2017 Korean review compared and contrasted CpG and non-CpG DNA methylation: “Non-CpG methylation is restricted to specific cell types, such as pluripotent stem cells, oocytes, neurons, and glial cells. Accumulation of methylation at non-CpG sites and CpG sites in neurons seems to be involved in development and disease etiology. Non-CpG methylation is established during … Continue reading Non-CpG DNA methylation

Epigenetic clocks and entropy

Two epigenetic clock papers, starting with a 2022 rodent study: “We tested performance of new pan-tissue and liver-specific epigenetic mouse clocks, evaluating how these related to metabolic states, genotype-dependent life expectancy, and methylome entropy. Entropy, a measure of noise and information loss, increases as a function of time and age. In context of the methylome, … Continue reading Epigenetic clocks and entropy

Eat broccoli sprouts for depression, Part 2

Here are three papers that cited last year’s Part 1. First is a 2021 rodent study investigating a microRNA’s pro-depressive effects: “Depressive rat models were established via chronic unpredicted mild stress (CUMS) treatment. Cognitive function of rats was assessed by a series of behavioral tests. Nrf2 was weakly expressed in CUMS-treated rats, whereas Nrf2 upregulation … Continue reading Eat broccoli sprouts for depression, Part 2

Lifespan Uber Correlation

This 2022 study developed new epigenetic clocks: “Maximum lifespan is deemed to be a stable trait in species. The rate of biological function decline (i.e., aging) would be expected to correlate inversely with maximum species lifespan. Although aging and maximum lifespan are intimately intertwined, they nevertheless appear in some investigations to be distinct processes. Some … Continue reading Lifespan Uber Correlation

Your lungs and Nrf2 activity

Two 2021 papers of Nrf2 activation effects on lung diseases, with the first a McGill University review: “Oxidative stress and subsequent activation of Nrf2 have been demonstrated in many human respiratory diseases. The purpose of this review is to summarize involvement of Nrf2 and its inducers in acute respiratory distress syndrome, chronic obstructive pulmonary disease … Continue reading Your lungs and Nrf2 activity

Is liver damage reversible?

This 2021 rodent study measured sequential liver changes caused by a high-fat diet: “Using a longitudinal mouse study of diet-induced obesity in male mice, we investigated kinetics of hepatic DNA methylation and gene expression compared to those of obesity-induction to assess if they could be causal for development of insulin resistance. We aimed to find … Continue reading Is liver damage reversible?

Human agency vs. brain dysfunction

This 2021 human study used epigenetic clock technology to assess chronic inflammation as a driver of cognitive decline through its effects on brain structure: “An epigenetic measure of C-reactive protein (DNAm CRP) was assembled for each participant. We found that higher inflammatory burden, indexed by DNAm CRP scores, associated with poor cognitive and neuroimaging brain … Continue reading Human agency vs. brain dysfunction

Endless shingles

This 2021 review subject was the follow-on condition of chicken pox: “Varicella-zoster virus (VZV) is a pathogenic human alpha herpes virus which is a significant cause of morbidity. VZV causes a primary infection, usually in children, called varicella (chicken pox), following which it establishes ganglionic latency in neurons. Latency is established in ganglia throughout the … Continue reading Endless shingles

Do genes determine monogamy / polygamy?

This 2021 rodent study developed epigenetic clocks for deer mice: “We have undertaken a genome-wide analysis of DNA methylation in Peromyscus, spanning different species, stocks, sexes, tissues, and age cohorts. We present CpGs and enriched pathways that relate to different conditions such as chronological age, high altitude, and monogamous behavior. Analysis involved tails, whole brain, … Continue reading Do genes determine monogamy / polygamy?

Part 2 of Improving epigenetic clocks’ signal-to-noise ratio

Another excellent blog post by Josh Mitteldorf, A New Approach to Methylation Clocks, that curated the same study: “The Levine/Horvath PhenoAge epigenetic clock was calibrated using a combination of metabolic factors that correlate with health, including inflammation, DNA transcription, DNA repair, and mitochondrial activity. Evolution is not an engineer. Living things are not constructed out … Continue reading Part 2 of Improving epigenetic clocks’ signal-to-noise ratio

PTSD susceptibility?

This 2021 rodent study investigated post-traumatic stress disorder (PTSD) susceptibility: “PTSD is an incapacitating trauma-related disorder, with no reliable therapy. We show distinct DNA methylation profiles of PTSD susceptibility in the nucleus accumbens (NAc). Data analysis revealed overall hypomethylation of different genomic CpG sites in susceptible animals. Is it possible to treat PTSD by targeting … Continue reading PTSD susceptibility?

Improving epigenetic clocks’ signal-to-noise ratio

This 2021 computational study investigated several methods of improving epigenetic clock reliability: “Epigenetic clocks are widely used aging biomarkers calculated from DNA methylation data. Unfortunately, measurements for individual CpGs can be surprisingly unreliable due to technical noise, and this may limit the utility of epigenetic clocks. Noise produces deviations up to 3 to 9 years … Continue reading Improving epigenetic clocks’ signal-to-noise ratio

Repositioning DNA methylation

This 2021 human study found: “We report on a randomized controlled clinical trial conducted among 43 healthy adult males between the ages of 50-72. The 8-week treatment program included diet, sleep, exercise and relaxation guidance, and supplemental probiotics and phytonutrients. This is the first randomized controlled study to suggest that specific diet and lifestyle interventions … Continue reading Repositioning DNA methylation

A bat epigenetic clock

This 2021 study subject was bats: “Exceptionally long-lived species, including many bats, rarely show overt signs of aging, making it difficult to determine why species differ in lifespan. Here, we use DNA methylation (DNAm) profiles from 712 known-age bats, representing 26 species, to identify epigenetic changes associated with age and longevity. Hypermethylated age- and longevity-associated … Continue reading A bat epigenetic clock

Eat broccoli sprouts for your heart

This 2021 rodent study investigated mechanisms of sulforaphane’s persistent cardiac protection: “Sulforaphane (SFN) reduced Ang II‐induced CpG hypermethylation and promoted Ac‐H3 [histone H3 acetylation] accumulation in the Nrf2 promoter region, accompanied by inhibition of global DNMT [DNA methyltransferase] and HDAC [histone deacetylase] activity, and a decreased protein expression of key DNMT and HDAC enzymes. Overall, … Continue reading Eat broccoli sprouts for your heart