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xix | |
Preface |
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xxiii | |
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SECTION 1 EPIGENETIC MECHANISMS IN AGING |
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Chapter 1 Aging Epigenetics: Changes and Challenges |
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3 | (30) |
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4 | (1) |
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2 Epigenetic Alterations and the Aging Process |
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5 | (6) |
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2.1 The `Aging Epigenome' |
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5 | (6) |
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2.2 Impact of Environmental Stimuli on the Aging Epigenome |
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11 | (1) |
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3 Significance of the Aging Epigenome |
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11 | (2) |
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3.1 Age-Related Loss of Transcriptional Precision |
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12 | (1) |
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3.2 Links Between Epigenetic and Genomic Instability With Age |
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12 | (1) |
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4 The Power of Genomics: Global Versus Genome-Wide Locus-Specific Age-Related Changes |
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13 | (3) |
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4.1 DNA-Methylation Profiling in Aged Human Cells |
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13 | (1) |
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4.2 Lessons From Genome-Wide Profiling of Chromatin Landscape With Aging... |
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14 | (1) |
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4.3 Advances in Epigenome Profiling in Human Cells |
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15 | (1) |
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5 Emerging Challenges in the Field of Aging Epigenomics |
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16 | (4) |
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5.1 Toward Epigenetic Longevity Drugs? |
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17 | (1) |
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5.2 Sex-Dimorphism and Implications |
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17 | (1) |
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5.3 Epigenomics of Immune System Aging |
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18 | (1) |
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5.4 The Challenges of Multiomic Data Integration and Interpretation |
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19 | (1) |
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5.5 Accounting for Cell Intrinsic Versus Cell Composition-Derived Changes With Epigenomic Aging |
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19 | (1) |
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20 | (13) |
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List of Acronyms and Abbreviations |
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21 | (1) |
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21 | (1) |
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21 | (1) |
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22 | (11) |
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Chapter 2 Defective DNA Methylation/Demethylation Processes Define Aging-Dependent Methylation Patterns |
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33 | (26) |
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33 | (1) |
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2 DNA Methylation/Demethylation in Mammals |
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34 | (5) |
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2.1 DNA Methylation Processes |
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34 | (2) |
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2.2 Distribution of the DNA Methylation Signal in the Genome |
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36 | (1) |
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2.3 DNA Demethylation Processes |
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37 | (1) |
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2.4 Distribution of the 5hmC Signal in the Genome |
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38 | (1) |
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3 Effect of Environmental Factors on DNA Epigenetic Modifications |
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39 | (1) |
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4 The Impact of Aging on DNA Epigenetic Modification Patterns |
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40 | (3) |
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4.1 Age-Associated DNA Hypomethylation |
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41 | (1) |
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4.2 Age-Associated DNA Hypermethylation |
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42 | (1) |
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4.3 The "Epigenetic Clock" |
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42 | (1) |
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4.4 DNA Hydroxymethylation in Aging |
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43 | (1) |
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5 Toward Molecular Mechanisms for the Aging-Related Changes of DNA Epigenetic Modification Patterns |
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43 | (5) |
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48 | (11) |
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49 | (2) |
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51 | (1) |
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51 | (8) |
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Chapter 3 S-Adenosylmethionine Metabolism and Aging |
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59 | (36) |
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60 | (2) |
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62 | (1) |
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3 Well-Known Pathways of SAM in Central Metabolism |
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63 | (1) |
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63 | (1) |
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3.2 The Transsulfuration Pathway to GSH |
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63 | (1) |
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64 | (1) |
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4 SAM and RNA-Based Control by Riboswitches |
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64 | (1) |
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5 Radical SAM Proteins With Iron-Sulfur (FeS) Clusters |
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64 | (4) |
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64 | (1) |
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5.2 SAM-Dependent Radical FeS Proteins |
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65 | (1) |
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5.3 Types of Radical SAM Enzymes |
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65 | (1) |
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5.4 Radical SAM Enzymes in Human Disease |
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66 | (1) |
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5.5 Radical SAM Enzymes That Modify Mammalian tRNAs |
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67 | (1) |
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5.6 Radical SAM Methyltransferases and MMTases |
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67 | (1) |
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6 SAM and Its Role in Aging and Longevity |
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68 | (3) |
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6.1 SAM, Mitochondria, and Aging |
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69 | (1) |
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6.2 SAM and Neurodegeneration |
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69 | (1) |
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6.3 SAM and Long-Lived Rodents |
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70 | (1) |
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6.4 SAM, the Microbiome and Aging |
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70 | (1) |
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6.5 SAM and the Establishment and Maintenance of the Microbiome |
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70 | (1) |
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71 | (24) |
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72 | (1) |
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73 | (22) |
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Chapter 4 The Epigenetic Clock and Aging |
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95 | (24) |
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96 | (1) |
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2 Global DNA Methylation Changes in Function of Age |
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96 | (1) |
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3 Site-Specific DNA Methylation Changes in Function of Age |
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96 | (2) |
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98 | (1) |
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5 Desynchronization of Epigenetic Age From Chronological Age |
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99 | (5) |
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99 | (1) |
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5.2 Neurological Disorders |
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100 | (1) |
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101 | (1) |
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101 | (1) |
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102 | (1) |
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103 | (1) |
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5.7 Induction of Pluripotency |
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103 | (1) |
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6 Epigenetic Age and Mortality |
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104 | (1) |
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7 The Epigenetic Aging of In Vitro-Cultured Cells |
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104 | (1) |
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8 The Epigenetic Clock at the Cellular Level |
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105 | (3) |
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106 | (1) |
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107 | (1) |
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9 Epigenetic Aging and Cellular Senescence |
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108 | (1) |
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10 Epigenetic Aging, Telomere, and Telomerase |
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109 | (1) |
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109 | (2) |
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111 | (8) |
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List of Acronyms and Abbreviations |
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112 | (1) |
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113 | (1) |
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113 | (6) |
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Chapter 5 The Epigenetic Regulation of Telomere Maintenance in Aging |
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119 | (18) |
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119 | (1) |
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2 Epigenetics of Aging and Longevity |
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120 | (1) |
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3 The Epigenetic Aging Clock |
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121 | (1) |
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122 | (1) |
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122 | (1) |
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122 | (1) |
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5 Telomere Attrition as an Aging Hallmark |
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122 | (2) |
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6 Shelterin Complex and Telomerase Enzyme in Aging |
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124 | (1) |
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7 Telomere Length and Longevity |
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125 | (1) |
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8 Animal Models in Telomeres and Aging Studies |
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125 | (1) |
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9 Epigenetics and Telomeres |
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126 | (1) |
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126 | (1) |
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9.2 Epigenetic Regulation of Telomeres |
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126 | (1) |
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10 Epigenetic Modifications in Telomeres |
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127 | (2) |
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10.1 Histone Modifications |
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127 | (1) |
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128 | (1) |
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128 | (1) |
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11 Telomeres as Epigenetic Agents |
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129 | (1) |
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12 Epigenetics of Aging and Its Relevance to Telomere Length |
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129 | (1) |
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130 | (7) |
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List of Acronyms and Abbreviations |
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131 | (1) |
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131 | (1) |
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131 | (6) |
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Chapter 6 Living Long and Aging Well: Are Lifestyle Factors the Epigenetic Link in the Longevity Phenotype? |
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137 | (16) |
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137 | (2) |
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2 Keeping Physically Active |
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139 | (2) |
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2.1 Exercise as an Epigenetic Modifier |
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139 | (1) |
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2.2 Muscles Are Remodeled |
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139 | (1) |
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2.3 Exercise Revitalizes Mitochondria |
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140 | (1) |
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3 Maintaining Good Mental Activity |
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141 | (2) |
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3.1 The Brain--Exercise Epigenetic Link |
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141 | (1) |
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3.2 Brain-Derived Neurotrophic Factor |
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142 | (1) |
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143 | (2) |
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143 | (2) |
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4.2 Calorie Intake and Epigenetics |
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145 | (1) |
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145 | (8) |
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147 | (1) |
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148 | (1) |
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148 | (5) |
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Chapter 7 Epigenetic Biomarkers for Biological Age |
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153 | (18) |
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1 Introduction: Biological Age is a Metaphor for Heterogeneity of Health of People at the Same Chronological Age |
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154 | (1) |
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2 Multiple Biological Markers (Battery of Biomarkers) as Age Predictors |
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155 | (1) |
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3 Estimation of Biological Age |
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156 | (1) |
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4 Epigenetic Methylation Markers---DNA Methylation Level Changes With Age |
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157 | (1) |
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157 | (2) |
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159 | (1) |
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160 | (1) |
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8 Delta Age--Age Acceleration |
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160 | (1) |
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161 | (1) |
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9 Morbidity, DNAm Age, and Age Acceleration |
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161 | (2) |
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161 | (1) |
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161 | (1) |
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161 | (1) |
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161 | (1) |
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162 | (1) |
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162 | (1) |
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9.7 Reproductive Function in Women |
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162 | (1) |
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9.8 Coronary Heart Diseases |
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162 | (1) |
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162 | (1) |
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163 | (1) |
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9.11 Posttraumatic Stress Disorder (PTSD) |
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163 | (1) |
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9.12 Huntington's Disease (HD) |
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163 | (1) |
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163 | (1) |
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10 DNAm Age in Semisupercentenarians |
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163 | (1) |
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11 Clinical Use: Perspectives |
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164 | (1) |
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164 | (1) |
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13 DNAm Age and Mortality |
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165 | (1) |
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14 Biological Age: One or Many? |
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166 | (1) |
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167 | (4) |
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List of Acronyms and Abbreviations |
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167 | (1) |
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167 | (4) |
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Chapter 8 The Role of Noncoding RNAs in Genome Stability and Aging |
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171 | (30) |
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172 | (1) |
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2 Genomic DNA Elimination in Ciliates |
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172 | (1) |
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3 The Regulation of Genome Stability Through miRNAs |
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173 | (4) |
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3.1 An Indirect Role of miRNAs in Genome Stability |
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173 | (1) |
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3.2 DNA Repair Proteins Regulate miRNA Biogenesis |
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173 | (3) |
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3.3 miRNAs Regulate the Activity of DNA Damage Sensors and Effectors |
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176 | (1) |
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4 The Role of piRNAs in the Integrity of the Genome in the Germline |
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177 | (5) |
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177 | (4) |
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181 | (1) |
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4.3 piRNAs in Transgenerational Response |
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181 | (1) |
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5 The Maintenance of Genome Stability by Small Interfering RNAs |
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182 | (6) |
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5.1 siRNAs in Neurospora crassa |
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182 | (2) |
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5.2 Small ncRNAs Induced by DNA Strand Breaks in Mammals and Plants |
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184 | (4) |
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6 The Role of ncRNAs in Aging |
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188 | (5) |
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6.1 The Role of miRNAs in Aging |
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188 | (2) |
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6.2 The Role of IncRNA in Aging |
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190 | (3) |
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6.3 Extracellular RNAs in Aging |
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193 | (1) |
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193 | (8) |
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194 | (1) |
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194 | (1) |
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195 | (6) |
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Chapter 9 Intratissue DNA Methylation Heterogeneity in Aging |
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201 | (12) |
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201 | (1) |
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2 Changes in DNA Methylation in Cancer |
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202 | (1) |
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3 Changes in DNA Methylation in Aging |
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203 | (1) |
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4 Stochastic Changes in DNA Methylation |
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203 | (4) |
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207 | (6) |
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208 | (1) |
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208 | (5) |
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SECTION 2 EARLY-LIFE EPIGENETIC PROGRAMMING OF AGING TRAJECTORIES |
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Chapter 10 Early-Life Nutrition, Epigenetics, and Altered Energy Balance Later in Life |
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213 | (16) |
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213 | (7) |
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1.1 Programming of Altered Energy Balance: Human Evidence |
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215 | (1) |
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1.2 Programming of Altered Energy Balance: Evidence From Animal Models |
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215 | (5) |
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220 | (1) |
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221 | (8) |
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List of Acronyms arid Abbreviations |
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222 | (1) |
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222 | (1) |
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222 | (7) |
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Chapter 11 Early Nutrition, Epigenetics, and Human Health |
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229 | (22) |
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1 The Early-Life Origins of Disease |
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229 | (2) |
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2 The Impact of Undernutrition |
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231 | (3) |
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3 The Impact of Overnutrition |
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234 | (3) |
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4 The Contribution of Epigenetics |
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237 | (6) |
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5 Summary and Conclusions |
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243 | (8) |
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244 | (1) |
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244 | (1) |
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245 | (5) |
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250 | (1) |
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Chapter 12 Biological Embedding of Psychosocial Stress Over the Life Course |
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251 | (20) |
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251 | (3) |
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2 Maladaptive Stress Responses Are Engendered by Persistent Exposure to Stressors |
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254 | (2) |
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3 The Social Gradient in Health: Role of Low Socioeconomic Status in Epigenetic Embedding of Biological Stress |
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256 | (1) |
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4 Glucocorticoid Resistance, Hypercortisolism, and Depression |
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257 | (2) |
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5 Posttraumatic Stress Disorder and Epigenetic Modulation of Sensitivity to Trauma |
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259 | (1) |
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6 Hypercortisolism Syndromes and Their Epigenetic Impacts on Mental Health |
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259 | (1) |
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7 Chronic Stress and Its Impacts on Epigenetic Age Acceleration |
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260 | (1) |
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8 Conclusions and Future Perspectives |
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261 | (10) |
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264 | (1) |
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264 | (7) |
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Chapter 13 Epigenetics of Longevity in Social Insects |
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271 | (22) |
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271 | (2) |
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2 Epigenetics of Caste Differentiation |
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273 | (8) |
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273 | (3) |
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276 | (1) |
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2.3 Histone Modifications |
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276 | (1) |
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277 | (1) |
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2.5 Caste-Specific Differences in Gene Expression Patterns |
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278 | (3) |
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3 Interplay Between Epigenetic and Endocrine Factors in Regulation of Longevity in Social Insects |
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281 | (3) |
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4 Conclusions and Future Perspectives |
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284 | (9) |
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285 | (1) |
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285 | (8) |
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SECTION 3 EPIGENETICS OF AGING-ASSOCIATED DISEASES |
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Chapter 14 Drosophila melanogaster as a Model for Studying the Epigenetic Basis of Aging |
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293 | (16) |
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293 | (1) |
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2 Age-Related Chromatin Changes in D. melanogaster |
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294 | (4) |
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294 | (1) |
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295 | (1) |
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2.3 Histone Acetylation and Associated Processes |
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296 | (1) |
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2.4 Determination of Lifespan by Histone Deacetylases |
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297 | (1) |
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2.5 Nucleosome Remodeling |
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297 | (1) |
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298 | (1) |
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4 The Role of Transposable Elements in Drosophila Aging |
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299 | (1) |
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5 Environmental and Nutritional Impacts on Aging, Stress-Resistance, and Longevity |
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300 | (1) |
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6 Pharmacological Interventions in Drosophila Aging |
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301 | (1) |
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7 Conclusions and Perspectives |
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302 | (7) |
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302 | (7) |
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Chapter 15 Histone Modification Changes During Aging: Cause or Consequence?---What We Have Learned About Epigenetic Regulation of Aging From Model Organisms |
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309 | (20) |
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310 | (1) |
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2 Histone Posttranslational Modifications |
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310 | (5) |
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311 | (1) |
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312 | (1) |
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2.3 Histone Phosphorylation |
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313 | (2) |
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2.4 Histone Ubiquitylation and Sumoylation |
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315 | (1) |
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3 Histone Modifications Change During Aging, From Yeast to Humans |
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315 | (7) |
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3.1 Age-Related Histone Acetylation |
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315 | (4) |
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3.2 Age-Related Histone Methylation Changes |
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319 | (3) |
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322 | (7) |
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322 | (1) |
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323 | (6) |
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Chapter 16 Epigenetics of Brain/Cognitive Aging |
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329 | (18) |
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329 | (2) |
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2 DNA Methylation, Brain Aging, and Cognitive Impairment |
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331 | (4) |
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331 | (2) |
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2.2 DNA Methylation and Brain/Cognitive Aging |
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333 | (2) |
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3 Histone Posttranslational Modifications and Brain/Cognitive Aging |
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335 | (2) |
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3.1 Histone Posttranslational Modifications |
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335 | (1) |
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3.2 Histone Posttranslational Modifications and Brain/Cognitive Aging |
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336 | (1) |
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4 Effective Interventions and Drug Development Targeting Epigenetic Marks in Brain/Cognitive Aging |
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337 | (2) |
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4.1 Effective Interventions |
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337 | (1) |
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4.2 Epigenetic Drug Development |
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338 | (1) |
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5 Perspectives and Challenges |
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339 | (8) |
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List of Acronyms and Abbreviations |
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341 | (1) |
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341 | (6) |
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Chapter 17 The Role of Epigenetic Modifications in Cardiometabolic Diseases |
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347 | (18) |
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348 | (1) |
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2 Epigenetics and Dyslipidemia |
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348 | (2) |
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2.1 Global DNA Methylation |
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348 | (1) |
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2.2 DNA Methylation in Candidate Genes |
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349 | (1) |
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2.3 Epigenome-Wide Association Studies |
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349 | (1) |
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3 Epigenetics and Inflammation |
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350 | (1) |
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350 | (1) |
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3.2 Histone Modifications |
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351 | (1) |
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4 Epigenetics and Subclinical Atherosclerosis |
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351 | (1) |
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351 | (1) |
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4.2 Histone Modifications |
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352 | (1) |
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5 Epigenetics, Glycemic Traits, and Type II Diabetes |
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352 | (2) |
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5.1 Global DNA Methylation |
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352 | (1) |
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5.2 Candidate Gene Studies |
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353 | (1) |
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5.3 Epigenome-Wide Analysis |
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353 | (1) |
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5.4 Histone Modifications |
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353 | (1) |
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6 Epigenetics and Cardiovascular Disease |
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354 | (1) |
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355 | (1) |
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6.2 Histone Modifications |
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355 | (1) |
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355 | (3) |
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7.1 Global DNA Methylation and Cardiometabolic Disease |
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356 | (1) |
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7.2 Epigenome-Wide Association Studies, Candidate Gene Approach, and Cardiometabolic Disease |
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357 | (1) |
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358 | (7) |
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359 | (1) |
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359 | (6) |
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Chapter 18 Epigenetic Mechanisms in Osteoporosis |
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365 | (24) |
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365 | (5) |
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2 DNA Methylation in Osteoporosis |
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370 | (4) |
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3 Histone Modifications in Osteoporosis |
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374 | (2) |
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4 MicroRNAs in Osteoporosis |
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376 | (4) |
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5 Long Noncoding RNAs in Osteoporosis |
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380 | (1) |
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6 Interaction Between Epigenetic Mechanisms in Osteoporosis |
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380 | (1) |
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381 | (8) |
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List of Acronyms and Abbreviations |
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382 | (2) |
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384 | (1) |
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384 | (5) |
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Chapter 19 Epigenetics of Skeletal Muscle Aging |
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389 | (30) |
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1 Introduction and Overview: Age-Related Muscle Loss/Sarcopenia |
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389 | (2) |
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2 Programming and Early-Life Origins of Longevity and Health in Aging Skeletal Muscle |
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391 | (3) |
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2.1 Molecular Mechanisms of Nutrient Programming in Skeletal Muscle |
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391 | (2) |
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2.2 Epigenetic Regulation of Skeletal Muscle Nutrient Programming |
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393 | (1) |
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3 Epigenetics of Aging in Skeletal Muscle Stem Cell Proliferation, Differentiation, Regeneration and Self-Renewal |
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394 | (7) |
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3.1 Role of Satellite Cells in Aging Skeletal Muscle Repair and Regeneration |
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394 | (1) |
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3.2 Extracellular/Intracellular Signal Transduction and Transcriptional Control of Satellite Cell Myogenesis and Self-Renewal |
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394 | (2) |
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3.3 Epigenetic Regulation of Adult Myogenesis |
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396 | (1) |
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3.4 Epigenetic Regulation of Aging Skeletal Muscle Satellite Cells During Myogenesis |
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397 | (2) |
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3.5 Inflammation and Epigenetics in Aging Skeletal Muscle Myogenesis |
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399 | (1) |
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3.6 External Niche in Skeletal Muscle Stem Cell Aging |
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400 | (1) |
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4 Skeletal Muscle Has an `Epigenetic Memory' Across the Lifespan |
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401 | (4) |
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405 | (14) |
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405 | (14) |
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SECTION 4 EPIGENOME-TARGETED THERAPIES IN GEROCSCIENCE |
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Chapter 20 Healthy Aging and Epigenetic Drugs for Diabetes and Obesity: A Novel Perspective |
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419 | (20) |
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419 | (1) |
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2 Epigenetics in Diabetes, Obesity, and Aging |
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420 | (1) |
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421 | (1) |
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422 | (1) |
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423 | (1) |
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424 | (7) |
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6.1 Histone Deacetylase Inhibitors |
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424 | (2) |
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426 | (1) |
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427 | (1) |
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6.4 Sodium Phenylbutyrate |
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427 | (1) |
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428 | (1) |
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6.6 Histone Acetyltransferase Inhibitors |
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428 | (1) |
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6.7 Sirtuin-Activating Compounds |
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429 | (1) |
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430 | (1) |
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430 | (1) |
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431 | (8) |
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431 | (1) |
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431 | (8) |
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Chapter 21 Epigenetic Drugs for Cancer and Precision Medicine |
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439 | (14) |
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439 | (4) |
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2 DNA Methyltransferase Inhibitors |
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443 | (1) |
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3 Histone Deacetylase Inhibitors |
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444 | (1) |
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4 Combination Therapy With DNMTi and/or HDACi and Other Anticancer Drugs |
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445 | (1) |
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5 Epigenetic Therapy and Immune Response |
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446 | (1) |
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6 Potential Applications in Precision Medicine |
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446 | (1) |
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446 | (2) |
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8 Pharmacokinetic and Mechanic Challenges in Application of Epigenetic Drugs in Solid Tumors |
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448 | (1) |
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448 | (5) |
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449 | (4) |
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Chapter 22 Epigenetic Drug Discovery for Alzheimer's Disease |
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453 | (46) |
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454 | (1) |
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2 Epigenetic Mechanisms of Alzheimer's Disease |
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455 | (11) |
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455 | (9) |
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2.2 Histone Modifications/Chromatin Remodeling |
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464 | (1) |
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465 | (1) |
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3 Epigenetic-Based Treatments for Alzheimer's Disease |
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466 | (15) |
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3.1 DNA Methylation Activators |
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466 | (1) |
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3.2 DNA Methylation Inhibitors |
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467 | (5) |
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3.3 Histone Deacetylase Inhibitors |
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472 | (3) |
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475 | (2) |
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477 | (2) |
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3.6 Histone Acetyltransferase Modulators |
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479 | (1) |
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3.7 Histone Methyltransferase and Demethylase Inhibitors |
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479 | (1) |
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480 | (1) |
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3.9 Other Potential Epigenetic Treatments |
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481 | (1) |
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4 Epigenetic Response to Drugs and Drug Resistance (Pharmacoepigenetics) |
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481 | (1) |
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5 Conclusions and Future Directions |
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482 | (17) |
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483 | (16) |
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SECTION 5 CONCLUSIONS AND PERSPECTIVES |
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Chapter 23 Epigenetics of Aging and Longevity: Challenges and Future Directions |
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499 | (12) |
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1 Why We Age---An Introduction From the Epigenetics Perspective |
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|
499 | (1) |
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2 Epigenetics and Precision Medicine |
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500 | (2) |
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3 Applying Artificial Intelligence in Epigenetics Research |
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502 | (2) |
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4 Epigenetics in Longitudinal N-of-1 Trials |
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504 | (1) |
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5 Epigenetics and Blockchain Technology |
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505 | (1) |
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6 Building an Epigenetic-Based Health Ecosystem |
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506 | (1) |
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7 The Future of Epigenetics and Precision Health |
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507 | (4) |
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|
508 | (3) |
Index |
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511 | |