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https://www.readbyqxmd.com/read/28524769/machine-learning-for-epigenetics-and-future-medical-applications
#1
Lawrence B Holder, M Muksitul Haque, Michael K Skinner
Understanding epigenetic processes holds immense promise for medical applications. Advances in Machine Learning (ML) are critical to realize this promise. Previous studies used epigenetic data sets associated with the germline transmission of epigenetic transgenerational inheritance of disease and novel ML approaches to predict genome-wide locations of critical epimutations. A combination of Active Learning (ACL) and Imbalanced Class Learning (ICL) was used to address past problems with ML to develop a more efficient feature selection process and address the imbalance problem in all genomic data sets...
May 19, 2017: Epigenetics: Official Journal of the DNA Methylation Society
https://www.readbyqxmd.com/read/28523009/transgenerational-defense-priming-for-crop-protection-against-plant-pathogens-a-hypothesis
#2
Gabriela Ramírez-Carrasco, Keren Martínez-Aguilar, Raúl Alvarez-Venegas
Throughout evolution, plants have developed diverse mechanisms of defense that "prime" their innate immune system for more robust and active induction of defense responses against different types of stress. Nowadays there are numerous reports concerning the molecular bases of priming, as well as the generational priming mechanisms. Information concerning transgenerational priming, however, remains deficient. Some reports have indicated, nonetheless, that the priming status of a plant can be inherited to its offspring...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28521626/experimental-evolution-of-resistance-against-bacillus-thuringiensis-in-the-insect-model-host-galleria-mellonella-results-in-epigenetic-modifications
#3
Krishnendu Mukherjee, Ekaterina Grizanova, Ekaterina Chertkova, Ruediger Lehmann, Ivan Dubovskiy, Andreas Vilcinskas
Epigenetic mechanisms have been proposed to translate environmental stimuli into heritable transgenerational phenotypic variations that can significantly influence natural selection. An intriguing example is exposure to pathogens, which imposes selection for host resistance. To test this hypothesis, we used larvae of the greater wax moth Galleria mellonella as model host to experimentally select for resistance to Bacillus thuringiensis (Bt), the most widely used bacterial agent for the biological control of pest insects...
May 19, 2017: Virulence
https://www.readbyqxmd.com/read/28515076/vertically-transmitted-symbionts-as-mechanisms-of-transgenerational-effects
#4
Pedro E Gundel, Jennifer A Rudgers, Kenneth D Whitney
PREMISE OF THE STUDY: A transgenerational effect occurs when a biotic or abiotic environmental factor acts on a parental individual and thereby affects the phenotype of progeny. Due to the importance of transgenerational effects for understanding plant ecology and evolution, their underlying mechanisms are of general interest. Here, we introduce the concept that inherited symbiotic microorganisms could act as mechanisms of transgenerational effects in plants. METHODS: We define the criteria required to demonstrate that transgenerational effects are microbially mediated and review evidence from the well-studied, vertically transmitted plant-fungal symbiosis (grass-Epichloë spp...
May 17, 2017: American Journal of Botany
https://www.readbyqxmd.com/read/28512301/maternal-antioxidant-provisioning-mitigates-pollutant-induced-oxidative-damage-in-embryos-of-the-temperate-sea-urchin-evechinus-chloroticus
#5
Kathryn N Lister, Miles D Lamare, David J Burritt
One mechanism of pollution resistance in marine populations is through transgenerational plasticity, whereby offspring capacity to resist pollution reflects parental exposure history. Our study aimed to establish correlations between oxidative stress biomarkers and key reproductive fitness parameters in the temperate sea urchin Evechinus chloroticus following exposure to dietary polycyclic aromatic hydrocarbons (PAHs). PAH-exposed adults exhibited total gonad tissue concentrations of PAHs in excess of 4 and 5 times baseline levels, for females and males respectively...
May 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28484240/paternal-spatial-training-enhances-offspring-s-cognitive-performance-and-synaptic-plasticity-in-wild-type-but-not-improve-memory-deficit-in-alzheimer-s-mice
#6
Shujuan Zhang, Xiaoguang Li, Zhouyi Wang, Yanchao Liu, Yuan Gao, Lu Tan, Enjie Liu, Qiuzhi Zhou, Cheng Xu, Xin Wang, Gongping Liu, Haote Chen, Jian-Zhi Wang
Recent studies suggest that spatial training can maintain associative memory capacity in Tg2576 mice, but it is not known whether the beneficial effects can be inherited from the trained fathers to their offspring. Here, we exposed male wild-type and male 3XTg Alzheimer disease (AD) mice (3-m old) respectively to spatial training for one week and assessed the transgenerational effects in the F1 offspring when they were grown to 7-m old. We found that the paternal spatial training significantly enhanced progeny's spatial cognitive performance and synaptic transmission in wild-type mice...
May 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28464002/mercury-induced-epigenetic-transgenerational-inheritance-of-abnormal-neurobehavior-is-correlated-with-sperm-epimutations-in-zebrafish
#7
Michael J Carvan, Thomas A Kalluvila, Rebekah H Klingler, Jeremy K Larson, Matthew Pickens, Francisco X Mora-Zamorano, Victoria P Connaughton, Ingrid Sadler-Riggleman, Daniel Beck, Michael K Skinner
Methylmercury (MeHg) is a ubiquitous environmental neurotoxicant, with human exposures predominantly resulting from fish consumption. Developmental exposure of zebrafish to MeHg is known to alter their neurobehavior. The current study investigated the direct exposure and transgenerational effects of MeHg, at tissue doses similar to those detected in exposed human populations, on sperm epimutations (i.e., differential DNA methylation regions [DMRs]) and neurobehavior (i.e., visual startle and spontaneous locomotion) in zebrafish, an established human health model...
2017: PloS One
https://www.readbyqxmd.com/read/28463237/epigenetic-and-transgenerational-mechanisms-in-infection-mediated-neurodevelopmental-disorders
#8
REVIEW
U Weber-Stadlbauer
Prenatal infection is an environmental risk factor for various brain disorders with neurodevelopmental components, including autism spectrum disorder and schizophrenia. Modeling this association in animals shows that maternal immune activation negatively affects fetal brain development and leads to the emergence of behavioral disturbances later in life. Recent discoveries in these preclinical models suggest that epigenetic modifications may be a critical molecular mechanism by which prenatal immune activation can mediate changes in brain development and functions, even across generations...
May 2, 2017: Translational Psychiatry
https://www.readbyqxmd.com/read/28442628/papers-of-note-in-science356-6335
#9
Annalisa M VanHook
This week's articles highlight a peptide that controls myoblast fusion; a metabolic adaptation that enables naked mole-rats to resist the detrimental effects of anoxia; a transcription factor that coordinates signaling in the mammary epithelial stem cell niche; and transgenerational epigenetic inheritance of the response to an environmental stimulus.
April 25, 2017: Science Signaling
https://www.readbyqxmd.com/read/28436983/stable-polycomb-dependent-transgenerational-inheritance-of-chromatin-states-in-drosophila
#10
Filippo Ciabrelli, Federico Comoglio, Simon Fellous, Boyan Bonev, Maria Ninova, Quentin Szabo, Anne Xuéreb, Christophe Klopp, Alexei Aravin, Renato Paro, Frédéric Bantignies, Giacomo Cavalli
Transgenerational epigenetic inheritance (TEI) describes the transmission of alternative functional states through multiple generations in the presence of the same genomic DNA sequence. Very little is known about the principles and the molecular mechanisms governing this type of inheritance. Here, by transiently enhancing 3D chromatin interactions, we established stable and isogenic Drosophila epilines that carry alternative epialleles, as defined by differential levels of Polycomb-dependent trimethylation of histone H3 Lys27 (forming H3K27me3)...
April 24, 2017: Nature Genetics
https://www.readbyqxmd.com/read/28431793/alcohol-effects-on-the-epigenome-in-the-germline-role-in-the-inheritance-of-alcohol-related-pathology
#11
REVIEW
Lucy G Chastain, Dipak K Sarkar
Excessive alcohol exposure has severe health consequences, and clinical and animal studies have demonstrated that disruptions in the epigenome of somatic cells, such as those in brain, are an important factor in the development of alcohol-related pathologies, such as alcohol-use disorders (AUDs) and fetal alcohol spectrum disorders (FASDs). It is also well known that alcohol-related health problems are passed down across generations in human populations, but the complete mechanisms for this phenomenon are currently unknown...
May 2017: Alcohol
https://www.readbyqxmd.com/read/28428426/transgenerational-transmission-of-environmental-information-in-c-elegans
#12
Adam Klosin, Eduard Casas, Cristina Hidalgo-Carcedo, Tanya Vavouri, Ben Lehner
The environment experienced by an animal can sometimes influence gene expression for one or a few subsequent generations. Here, we report the observation that a temperature-induced change in expression from a Caenorhabditis elegans heterochromatic gene array can endure for at least 14 generations. Inheritance is primarily in cis with the locus, occurs through both oocytes and sperm, and is associated with altered trimethylation of histone H3 lysine 9 (H3K9me3) before the onset of zygotic transcription. Expression profiling reveals that temperature-induced expression from endogenous repressed repeats can also be inherited for multiple generations...
April 21, 2017: Science
https://www.readbyqxmd.com/read/28413451/differential-dna-methylation-at-conserved-non-genic-elements-and-evidence-for-transgenerational-inheritance-following-developmental-exposure-to-mono-2-ethylhexyl-phthalate-and-5-azacytidine-in-zebrafish
#13
Jorke H Kamstra, Liana Bastos Sales, Peter Aleström, Juliette Legler
BACKGROUND: Exposure to environmental stressors during development may lead to latent and transgenerational adverse health effects. To understand the role of DNA methylation in these effects, we used zebrafish as a vertebrate model to investigate heritable changes in DNA methylation following chemical-induced stress during early development. We exposed zebrafish embryos to non-embryotoxic concentrations of the biologically active phthalate metabolite mono(2-ethylhexyl) phthalate (MEHP, 30 µM) and the DNA methyltransferase 1 inhibitor 5-azacytidine (5AC, 10 µM)...
2017: Epigenetics & Chromatin
https://www.readbyqxmd.com/read/28387355/transgenerational-transmission-of-a-stress-coping-phenotype-programmed-by-early-life-stress-in-the-japanese-quail
#14
Cédric Zimmer, Maria Larriva, Neeltje J Boogert, Karen A Spencer
An interesting aspect of developmental programming is the existence of transgenerational effects that influence offspring characteristics and performance later in life. These transgenerational effects have been hypothesized to allow individuals to cope better with predictable environmental fluctuations and thus facilitate adaptation to changing environments. Here, we test for the first time how early-life stress drives developmental programming and transgenerational effects of maternal exposure to early-life stress on several phenotypic traits in their offspring in a functionally relevant context using a fully factorial design...
April 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28371392/exercise-and-epigenetic-inheritance-of-disease-risk
#15
REVIEW
Joshua Denham
Epigenetics is the study of gene expression changes that occur in the absence of altered genotype. Current evidence indicates a role for environmentally induced alterations to epigenetic modifications leading to health and diseases changes across multiple generations. This phenomenon is called intergenerational or transgenerational epigenetic inheritance of health or disease. Environmental insults, in the form of toxins, plastics and particular dietary interventions, perturb the epigenetic landscape and influence the health of F1 through to F4 generations in rodents...
March 30, 2017: Acta Physiologica
https://www.readbyqxmd.com/read/28343968/met-2-dependent-h3k9-methylation-suppresses-transgenerational-small-rna-inheritance
#16
Itamar Lev, Uri Seroussi, Hila Gingold, Roberta Bril, Sarit Anava, Oded Rechavi
In C. elegans, alterations to chromatin produce transgenerational effects, such as inherited increase in lifespan and gradual loss of fertility. Inheritance of histone modifications can be induced by double-stranded RNA-derived heritable small RNAs. Here, we show that the mortal germline phenotype, which is typical of met-2 mutants, defective in H3K9 methylation, depends on HRDE-1, an argonaute that carries small RNAs across generations, and is accompanied by accumulated transgenerational misexpression of heritable small RNAs...
April 24, 2017: Current Biology: CB
https://www.readbyqxmd.com/read/28336253/mitochondrial-matters-mitochondrial-bottlenecks-self-assembling-structures-and-entrapment-in-the-female-germline
#17
Florence L Marlow
Mitochondrial replacement therapy, a procedure to generate embryos with the nuclear genome of a donor mother and the healthy mitochondria of a recipient egg, has recently emerged as a promising strategy to prevent transmission of devastating mitochondrial DNA diseases and infertility. The procedure may produce an embryo that is free of diseased mitochondria. A recent study addresses important fundamental questions about the mechanisms underlying maternal inheritance and translational questions regarding the transgenerational effectiveness of this promising therapeutic strategy...
March 15, 2017: Stem Cell Research
https://www.readbyqxmd.com/read/28328093/race-in-an-epigenetic-time-thinking-biology-in-the-plural
#18
Maurizio Meloni
The notion that biological memories of environmental experiences can be embedded in the human genome and even transmitted transgenerationally is increasingly relevant in the postgenomic world, particularly in molecular epigenetics, where the genome is conceptualized as porous to environmental signals. In this article I discuss the current rethinking of race in epigenetic rather than genetic terms, emphasizing some of its paradoxical implications, especially for public policy. I claim in particular that: (i) if sociologists want to investigate race in a postgenomic world they should pay more attention to this novel plastic and biosocial view of race; and (ii) there are no reasons to believe that an epigenetic view will extinguish race, or that soft-inheritance claims will produce a less exclusionary discourse than genetics (hard heredity)...
March 22, 2017: British Journal of Sociology
https://www.readbyqxmd.com/read/28297802/-influence-of-high-fat-diet-in-paternal-c57bl-6-mice-on-liver-fat-deposition-in-offspring
#19
J Zhang, H G Li, L Fu, F S Di
Objective: To investigate the influence of high-fat diet (HFD) in paternal C57BL/6 mice on HFD-induced liver fat deposition in male offspring, as well as transgenerational inheritance caused by paternal HFD and related mechanisms. Methods: A total of 20 male C57BL/6 mice aged 3 weeks (F0) were randomly divided into normal control group (C, 10 mice) and HFD group (HF, 10 mice). After 12 weeks of HFD intervention, the male mice in the HFD group mated with female ones treated with normal diet and pups were obtained...
February 20, 2017: Zhonghua Gan Zang Bing za Zhi, Zhonghua Ganzangbing Zazhi, Chinese Journal of Hepatology
https://www.readbyqxmd.com/read/28286118/maternal-exposure-to-di-2-ethylhexyl-phthalate-dehp-promotes-the-transgenerational-inheritance-of-adult-onset-reproductive-dysfunctions-through-the-female-germline-in-mice
#20
Paola Pocar, Nadia Fiandanese, Anna Berrini, Camillo Secchi, Vitaliano Borromeo
Endocrine disruptors (EDs) are compounds known to promote transgenerational inheritance of adult-onset disease in subsequent generations after maternal exposure during fetal gonadal development. This study was designed to establish whether gestational and lactational exposure to the plasticizer di(2-ethylhexyl)phthalate (DEHP) at environmental doses promotes transgenerational effects on reproductive health in female offspring, as adults, over three generations in the mouse. Gestating F0 mouse dams were exposed to 0, 0...
May 1, 2017: Toxicology and Applied Pharmacology
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