1 4600 142 NATURE OR NURTURE: LET FOOD BE YOUR EPIGENETIC MEDICINE IN CHRONIC INFLAMMATORY DISORDERS. NUMEROUS CLINICAL, PHYSIOPATHOLOGICAL AND EPIDEMIOLOGICAL STUDIES HAVE UNDERLINED THE DETRIMENTAL OR BENEFICIAL ROLE OF NUTRITIONAL FACTORS IN COMPLEX INFLAMMATION RELATED DISORDERS SUCH AS ALLERGY, ASTHMA, OBESITY, TYPE 2 DIABETES, CARDIOVASCULAR DISEASE, RHEUMATOID ARTHRITIS AND CANCER. TODAY, NUTRITIONAL RESEARCH HAS SHIFTED FROM ALLEVIATING NUTRIENT DEFICIENCIES TO CHRONIC DISEASE PREVENTION. IT IS KNOWN THAT LIFESTYLE, ENVIRONMENTAL CONDITIONS AND NUTRITIONAL COMPOUNDS INFLUENCE GENE EXPRESSION. GENE EXPRESSION STATES ARE SET BY TRANSCRIPTIONAL ACTIVATORS AND REPRESSORS AND ARE OFTEN LOCKED IN BY CELL-HERITABLE CHROMATIN STATES. ONLY RECENTLY, IT HAS BEEN OBSERVED THAT THE ENVIRONMENTAL CONDITIONS AND DAILY DIET CAN AFFECT TRANSGENERATIONAL GENE EXPRESSION VIA "REVERSIBLE" HERITABLE EPIGENETIC MECHANISMS. EPIGENETIC CHANGES IN DNA METHYLATION PATTERNS AT CPG SITES (EPIMUTATIONS) OR CORRUPT CHROMATIN STATES OF KEY INFLAMMATORY GENES AND NONCODING RNAS, RECENTLY EMERGED AS MAJOR GOVERNING FACTORS IN CANCER, CHRONIC INFLAMMATORY AND METABOLIC DISORDERS. RECIPROCALLY, INFLAMMATION, METABOLIC STRESS AND DIET COMPOSITION CAN ALSO CHANGE ACTIVITIES OF THE EPIGENETIC MACHINERY AND INDIRECTLY OR DIRECTLY CHANGE CHROMATIN MARKS. THIS HAS RECENTLY LAUNCHED RE-EXPLORATION OF ANTI-INFLAMMATORY BIOACTIVE FOOD COMPONENTS FOR CHARACTERIZATION OF THEIR EFFECTS ON EPIGENOME MODIFYING ENZYMATIC ACTIVITIES (ACETYLATION, METHYLATION, PHOSPHORYLATION, RIBOSYLATION, OXIDATION, UBIQUITINATION, SUMOYLATION). THIS MAY ALLOW TO IMPROVE HEALTHY AGING BY REVERSING DISEASE PRONE EPIMUTATIONS INVOLVED IN CHRONIC INFLAMMATORY AND METABOLIC DISORDERS. 2010 2 5563 34 ROLE OF HISTONE POST-TRANSLATIONAL MODIFICATIONS IN INFLAMMATORY DISEASES. INFLAMMATION IS A DEFENSIVE REACTION FOR EXTERNAL STIMULI TO THE HUMAN BODY AND GENERALLY ACCOMPANIED BY IMMUNE RESPONSES, WHICH IS ASSOCIATED WITH MULTIPLE DISEASES SUCH AS ATHEROSCLEROSIS, TYPE 2 DIABETES, ALZHEIMER'S DISEASE, PSORIASIS, ASTHMA, CHRONIC LUNG DISEASES, INFLAMMATORY BOWEL DISEASE, AND MULTIPLE VIRUS-ASSOCIATED DISEASES. EPIGENETIC MECHANISMS HAVE BEEN DEMONSTRATED TO PLAY A KEY ROLE IN THE REGULATION OF INFLAMMATION. COMMON EPIGENETIC REGULATIONS ARE DNA METHYLATION, HISTONE MODIFICATIONS, AND NON-CODING RNA EXPRESSION; AMONG THESE, HISTONE MODIFICATIONS EMBRACE VARIOUS POST-MODIFICATIONS INCLUDING ACETYLATION, METHYLATION, PHOSPHORYLATION, UBIQUITINATION, AND ADP RIBOSYLATION. THIS REVIEW FOCUSES ON THE SIGNIFICANT ROLE OF HISTONE MODIFICATIONS IN THE PROGRESSION OF INFLAMMATORY DISEASES, PROVIDING THE POTENTIAL TARGET FOR CLINICAL THERAPY OF INFLAMMATION-ASSOCIATED DISEASES. 2022 3 481 27 ARSENIC-INDUCED SUMOYLATION OF MUS81 IS INVOLVED IN REGULATING GENOMIC STABILITY. CHRONIC ENVIRONMENTAL EXPOSURE TO METAL TOXICANTS SUCH AS CHROMIUM AND ARSENIC IS CLOSELY RELATED TO THE DEVELOPMENT OF SEVERAL TYPES OF COMMON CANCERS. GENETIC AND EPIGENETIC STUDIES IN THE PAST DECADE REVEAL THAT POST-TRANSLATIONAL MODIFICATIONS OF HISTONES PLAY A ROLE IN METAL CARCINOGENESIS. HOWEVER, EXACT MOLECULAR MECHANISMS OF METAL CARCINOGENESIS REMAIN TO BE ELUCIDATED. IN THIS STUDY WE FOUND THAT AS(2)O(3), AN ENVIRONMENTAL METAL TOXICANT, UPREGULATED OVERALL MODIFICATIONS OF MANY CELLULAR PROTEINS BY SUMO2/3. SUMOYLATED PROTEINS FROM ARSENIC-TREATED CELLS CONSTITUTIVELY EXPRESSING HIS(6)-SUMO2 WERE PULLED DOWN BY NI-IDA RESIN UNDER DENATURING CONDITIONS. MASS SPECTROMETRIC ANALYSIS REVEALED OVER 100 PROTEINS THAT WERE POTENTIALLY MODIFIED BY SUMOYLATION. MUS81, A DNA ENDONUCLEASE INVOLVED IN HOMOLOGOUS RECOMBINATION REPAIR, WAS AMONG THE IDENTIFIED PROTEINS WHOSE SUMOYLATION WAS INCREASED AFTER TREATMENT WITH AS(2)O(3.) WE FURTHER SHOWED THAT K10 AND K524 WERE 2 LYSINE RESIDUES ESSENTIAL FOR MUS81 SUMOYLATION. MOREOVER, WE DEMONSTRATED THAT MUS81 SUMOYLATION IS IMPORTANT FOR NORMAL MITOTIC CHROMOSOME CONGRESSION AND THAT CELLS EXPRESSING SUMO-RESISTANT MUS81 MUTANTS DISPLAYED COMPROMISED DNA DAMAGE RESPONSES AFTER EXPOSURE TO METAL TOXINS SUCH AS CR(VI) AND ARSENIC. 2017 4 3353 31 HISTONE DEMETHYLASES REGULATE ADIPOCYTE THERMOGENESIS. ADIPOCYTES PLAY A PIVOTAL ROLE IN THE REGULATION OF ENERGY METABOLISM. WHILE WHITE ADIPOCYTE STORES ENERGY, BROWN ADIPOCYTE DISSIPATES ENERGY BY PRODUCING HEAT. IN ADDITION, ANOTHER TYPE OF HEAT-PRODUCING ADIPOCYTE, BEIGE ADIPOCYTE, EMERGES IN WHITE ADIPOSE TISSUE IN RESPONSE TO CHRONIC COLDNESS. THIS PHENOTYPIC ADAPTATION TO THE COLD ENVIRONMENT IS CONSIDERED TO BE ATTRIBUTED TO THE EPIGENETIC MODIFICATIONS. HISTONE METHYLATION IS A CHEMICALLY STABLE EPIGENETIC MODIFICATION AND THUS A PROPER MECHANISM FOR LONG-LASTING CELLULAR MEMORY. SEVERAL HISTONE METHYL-MODIFYING ENZYMES SUCH AS EHMT1, JMJD1A, JMJD3, AND LSD1 ARE REPORTED TO BE INVOLVED IN THE BEIGE ADIPOSE CELL FATE DETERMINATION. AMONG THESE, A HISTONE DEMETHYLASE JMJD1A SENSES COLD ENVIRONMENT BY BEING PHOSPHORYLATED AT S265 IN RESPONSE TO BETA-ADRENERGIC RECEPTOR STIMULATION. PHOSPHORYLATED JMJD1A REGULATES BOTH ACUTE AND COLD THERMOGENESIS. UNDER ACUTE COLDNESS, PHOSPHORYLATED JMJD1A FORMS A COMPLEX WITH CHROMATIN REMODELER SWI/SNF AND DNA-BOUND PPARGAMMA, WHICH RECRUITS JMJD1A TO THE TARGET GENOMIC REGIONS IN BROWN ADIPOCYTE. THIS COMPLEX FORMATION, IN TURN, INDUCES THE EXPRESSION OF TARGET GENES BY BRINGING THE ENHANCER AND THE PROMOTER INTO CLOSE PROXIMITY. DURING CHRONIC COLDNESS, PHOSPHORYLATED JMJD1A REGULATES BEIGE ADIPOGENESIS THROUGH A TWO-STEP MECHANISM. IN THE FIRST STEP, PHOSPHORYLATED JMJD1A IS RECRUITED TO THE REGULATORY REGIONS OF TARGET GENES BY FORMING A COMPLEX WITH PRDM16, PGC1ALPHA, AND DNA-BOUND PPARGAMMA. IN THE SECOND STEP, JMJD1A DEMETHYLATES HISTONE H3K9ME2 AND INDUCES STABLE EXPRESSION OF BEIGE-SELECTIVE GENES. THE PHENOTYPIC ANALYSES OF JMJD1A-NULL MICE AND NON-PHOSPHORYLATED MUTANT S265A JMJD1A KNOCK-IN MICE INDICATE THAT JMJD1A IS A POTENTIAL THERAPEUTIC TARGET FOR THE TREATMENT OF OBESITY-RELATED DISEASES INCLUDING METABOLIC SYNDROME AND TYPE 2 DIABETES. 2018 5 3730 29 INHIBITION OF THE COREST REPRESSOR COMPLEX PROMOTES WOUND RE-EPITHELIALIZATION VIA REGULATION OF KERATINOCYTE MIGRATION. WOUND HEALING IS A COMPLEX PROCESS INVOLVING PHASES OF HEMOSTASIS, INFLAMMATION, PROLIFERATION, AND REMODELING. THE REGENERATIVE PROCESS IN THE SKIN REQUIRES COORDINATION BETWEEN MANY REGULATORS INCLUDING SIGNALING MOLECULES, TRANSCRIPTION FACTORS AND THE EPIGENETIC MACHINERY. HERE WE SHOW THAT CHROMATIN REGULATORS HISTONE DEACETYLASE 1 (HDAC1) AND LYSINE-SPECIFIC HISTONE DEMETHYLASE 1 (LSD1), KEY COMPONENTS OF THE COREST REPRESSOR COMPLEX, ARE UPREGULATED IN THE REGENERATING EPIDERMIS DURING WOUND REPAIR. WE ALSO SHOW THAT CORIN, A SYNTHETIC DUAL INHIBITOR OF THE COREST COMPLEX AND HDAC1/LSD1 ACTIVITIES, SIGNIFICANTLY ACCELERATES WOUND CLOSURE THROUGH ENHANCED RE-EPITHELIALIZATION IN A MOUSE TAIL WOUND MODEL. ACETYLATED H3K9 EXPRESSION, A HISTONE MODIFICATION TARGETED BY HDAC1, IS INCREASED IN KERATINOCYTES AFTER TOPICAL TREATMENT WITH 100 NM AND 1 MUM OF CORIN. IN VITRO EXPERIMENTS DEMONSTRATE THAT CORIN PROMOTES MIGRATION AND INHIBITS PROLIFERATION OF HUMAN KERATINOCYTES. FURTHERMORE, EXPRESSION LEVELS OF GENES PROMOTING KERATINOCYTE MIGRATION, SUCH AS AREG, CD24, EPHB2, ITGAX, PTGS, SCT1, SERPINB2, SERPINE1, SLPI, SNAI2 AND TWIST INCREASED IN KERATINOCYTES TREATED WITH CORIN. THESE DATA DEMONSTRATE THAT DUAL INHIBITION OF CLASS I HDACS AND LSD1 BY CORIN, MAY SERVE AS A NEW APPROACH FOR PROMOTING WOUND RE-EPITHELIALIZATION AND PROVIDE A PLATFORM FOR FURTHER APPLICATIONS OF CORIN FOR THE TREATMENT OF CHRONIC WOUNDS. 2023 6 460 35 ARACHIDONIC ACID 15-LIPOXYGENASE: EFFECTS OF ITS EXPRESSION, METABOLITES, AND GENETIC AND EPIGENETIC VARIATIONS ON AIRWAY INFLAMMATION. ARACHIDONIC ACID 15-LIPOXYGENASE (ALOX15) IS AN ENZYME THAT CAN OXIDIZE POLYUNSATURATED FATTY ACIDS. ALOX15 IS STRONGLY EXPRESSED IN AIRWAY EPITHELIAL CELLS, WHERE IT CATALYZES THE CONVERSION OF ARACHIDONIC ACID TO 15-HYDROXYEICOSATETRAENOIC ACID (15-HETE) INVOLVED IN VARIOUS AIRWAY INFLAMMATORY DISEASES. INTERLEUKIN (IL)-4 AND IL-13 INDUCE ALOX15 EXPRESSION BY ACTIVATING JAK2 AND TYK2 KINASES AS WELL AS SIGNAL TRANSDUCERS AND ACTIVATORS OF TRANSCRIPTION (STATS) 1/3/5/6. ALOX15 UP-REGULATION AND SUBSEQUENT ASSOCIATION WITH PHOSPHATIDYLETHANOLAMINE-BINDING PROTEIN 1 (PEBP1) ACTIVATE THE MITOGEN-ACTIVATED EXTRACELLULAR SIGNAL-REGULATED KINASE (MEK)-EXTRACELLULAR SIGNAL-REGULATED KINASE (ERK) PATHWAY, THUS INDUCING EOSINOPHIL-MEDIATED AIRWAY INFLAMMATION. IN ADDITION, ALOX15 PLAYS A SIGNIFICANT ROLE IN PROMOTING THE MIGRATION OF IMMUNE CELLS, SUCH AS IMMATURE DENDRITIC CELLS, ACTIVATED T CELLS, AND MAST CELLS, AND AIRWAY REMODELING, INCLUDING GOBLET CELL DIFFERENTIATION. GENOME-WIDE ASSOCIATION STUDIES HAVE REVEALED MULTIPLE ALOX15 VARIANTS AND THEIR SIGNIFICANT CORRELATION WITH THE RISK OF DEVELOPING AIRWAY DISEASES. THE EPIGENETIC MODIFICATIONS OF THE ALOX15 GENE, SUCH AS DNA METHYLATION AND HISTONE MODIFICATIONS, HAVE BEEN SHOWN TO CLOSELY RELATE WITH AIRWAY INFLAMMATION. THIS REVIEW SUMMARIZES THE ROLE OF ALOX15 IN DIFFERENT PHENOTYPES OF ASTHMA, CHRONIC OBSTRUCTIVE PULMONARY DISEASE, CHRONIC RHINOSINUSITIS, ASPIRIN-EXACERBATED RESPIRATORY DISEASE, AND NASAL POLYPS, SUGGESTING NEW TREATMENT STRATEGIES FOR THESE AIRWAY INFLAMMATORY DISEASES WITH COMPLEX ETIOLOGY AND POOR TREATMENT RESPONSE. 2021 7 760 30 CASZ1: CURRENT IMPLICATIONS IN CARDIOVASCULAR DISEASES AND CANCERS. CASTOR ZINC FINGER 1 (CASZ1) IS A C2H2 ZINC FINGER FAMILY PROTEIN THAT HAS TWO SPLICING VARIANTS, CASZ1A AND CASZ1B. IT IS INVOLVED IN MULTIPLE PHYSIOLOGICAL PROCESSES, SUCH AS TISSUE DIFFERENTIATION AND ALDOSTERONE ANTAGONISM. GENETIC AND EPIGENETIC ALTERNATIONS OF CASZ1 HAVE BEEN CHARACTERIZED IN MULTIPLE CARDIOVASCULAR DISORDERS, SUCH AS CONGENITAL HEART DISEASES, CHRONIC VENOUS DISEASES, AND HYPERTENSION. HOWEVER, LITTLE IS KNOWN ABOUT HOW CASZ1 MECHANICALLY PARTICIPATES IN THE PATHOGENESIS OF THESE DISEASES. OVER THE PAST DECADES, AT FIRST GLANCE, PARADOXICAL INFLUENCES ON CELL BEHAVIORS AND PROGRESSIONS OF DIFFERENT CANCER TYPES HAVE BEEN DISCOVERED FOR CASZ1, WHICH MAY BE EXPLAINED BY A "DOUBLE-AGENT" ROLE FOR CASZ1. IN THIS REVIEW, WE DISCUSS THE PHYSIOLOGICAL FUNCTION OF CASZ1, AND FOCUS ON THE ASSOCIATION OF CASZ1 ABERRATIONS WITH THE PATHOGENESIS OF CARDIOVASCULAR DISEASES AND CANCERS. 2023 8 539 19 ATHEROSCLEROSIS IS AN EPIGENETIC DISEASE. ATHEROSCLEROSIS IS A CHRONIC INFLAMMATORY AND LIPID-DEPOSITORY DISEASE THAT EVENTUALLY LEADS TO ACUTE CARDIOVASCULAR EVENTS. EMERGING EVIDENCE SUPPORTS THAT EPIGENETIC PROCESSES SUCH AS DNA METHYLATION, HISTONE MODIFICATION, AND NONCODING RNAS PLAY AN IMPORTANT ROLE IN PLAQUE PROGRESSION AND VULNERABILITY, HIGHLIGHTING THE THERAPEUTIC POTENTIAL OF EPIGENETIC DRUGS IN CARDIOVASCULAR THERAPEUTICS. 2018 9 5809 37 STRAWBERRY AND HUMAN HEALTH: EFFECTS BEYOND ANTIOXIDANT ACTIVITY. THE USEFULNESS OF A DIET RICH IN VEGETABLES AND FRUITS ON HUMAN HEALTH HAS BEEN WIDELY RECOGNIZED: A HIGH INTAKE OF ANTIOXIDANT AND BIOACTIVE COMPOUNDS MAY IN FACT PLAY A CRUCIAL ROLE IN THE PREVENTION OF SEVERAL DISEASES, SUCH AS CANCER, CARDIOVASCULAR, NEURODEGENERATIVE, AND OTHER CHRONIC PATHOLOGIES. THE STRAWBERRY (FRAGARIA X ANANASSA DUCH.) POSSESSES A REMARKABLE NUTRITIONAL COMPOSITION IN TERMS OF MICRONUTRIENTS, SUCH AS MINERALS, VITAMIN C, AND FOLATES, AND NON-NUTRIENT ELEMENTS, SUCH AS PHENOLIC COMPOUNDS, THAT ARE ESSENTIAL FOR HUMAN HEALTH. ALTHOUGH STRAWBERRY PHENOLICS ARE KNOWN MAINLY FOR THEIR ANTI-INFLAMMATORY AND ANTIOXIDANT ACTIONS, RECENT STUDIES HAVE DEMONSTRATED THAT THEIR BIOLOGICAL ACTIVITIES ALSO SPREAD TO OTHER PATHWAYS INVOLVED IN CELLULAR METABOLISM AND CELLULAR SURVIVAL. THIS PAPER HAS THE MAIN OBJECTIVE OF REVIEWING CURRENT INFORMATION ABOUT THE POTENTIAL MECHANISMS INVOLVED IN THE EFFECTS ELICITED BY STRAWBERRY POLYPHENOLS ON HUMAN HEALTH, DEVOTING SPECIAL ATTENTION TO THE LATEST FINDINGS. 2014 10 3157 23 GLYCEMIC MEMORY. PURPOSE OF REVIEW: THE MISTAKE OF PREDICTING THE FUTURE IS PERHAPS NOT TENDING TO REPRESSED OR PAST MEMORIES. HAMLET'S 17TH-CENTURY SOLILOQUY 'THE HEARTACHE AND THE THOUSAND NATURAL SHOCKS, THAT FLESH IS HEIR TO', (3.1. 7-8) IS A TALE THAT LOOKS BEYOND THE PRESENT BY LINKING THE PAST WITH THE FUTURE. THE PRESENT ARTICLE EXAMINES THE RESURGENCE IN THE FIELD TO UNDERSTAND GENE-REGULATING EPIGENETIC CHANGES CONFERRING GLYCEMIC MEMORY. RECENT FINDINGS: CHROMATIN MODIFICATIONS ARE CRITICAL IN REGULATING GENOME STRUCTURE AND FUNCTION AND DESPITE THE SIGNIFICANT ADVANCES OF RECENT YEARS IN IDENTIFYING THE ENZYMES-MEDIATING CHEMICAL CHANGES TO HISTONE TAILS AND THE DNA TEMPLATE, THE PRECISE REGULATION OF GENE EXPRESSION REMAINS INCOMPLETE IN MODELS OF HEALTH AND DIABETIC COMPLICATIONS. SUMMARY: DISPELLING THE MYTH THAT ALL GENOMES ARE DRIVEN AND RESPOND EQUALLY, EXPERIMENTAL RESEARCH IS NOW UNCOVERING THE FUNCTION OF ENZYMES CONFERRING CHROMATIN MODIFICATIONS. WHATEVER THE ROLE OF THE EPIGENOME, SHOWING ITS INVOLVEMENT IN GLYCEMIC SIGNALING IS THE FIRST STEP TO NEW STRATEGIES AND TARGETS TO DEVELOP THERAPIES THAT PREVENT, RETARD OR REVERSE THE LONG-TERM DELETERIOUS END-ORGAN EFFECTS OF CHRONIC, INTERMITTENT AND PRIOR HYPERGLYCEMIA. 2012 11 2397 28 EPIGENETIC REPROGRAMMING OF AIRWAY MACROPHAGES PROMOTES POLARIZATION AND INFLAMMATION IN MUCO-OBSTRUCTIVE LUNG DISEASE. LUNG DISEASES, SUCH AS CYSTIC FIBROSIS AND COPD, ARE CHARACTERIZED BY MUCUS OBSTRUCTION AND CHRONIC AIRWAY INFLAMMATION, BUT THEIR MECHANISTIC LINK REMAINS POORLY UNDERSTOOD. HERE, WE FOCUS ON THE FUNCTION OF THE MUCOSTATIC AIRWAY MICROENVIRONMENT ON EPIGENETIC REPROGRAMMING OF AIRWAY MACROPHAGES (AM) AND RESULTING TRANSCRIPTOMIC AND PHENOTYPICAL CHANGES. USING A MOUSE MODEL OF MUCO-OBSTRUCTIVE LUNG DISEASE (SCNN1B-TRANSGENIC), WE IDENTIFY EPIGENETICALLY CONTROLLED, DIFFERENTIALLY REGULATED PATHWAYS AND TRANSCRIPTION FACTORS INVOLVED IN INFLAMMATORY RESPONSES AND MACROPHAGE POLARIZATION. FUNCTIONALLY, AMS FROM SCNN1B-TRANSGENIC MICE HAVE REDUCED EFFEROCYTOSIS AND PHAGOCYTOSIS, AND EXCESSIVE INFLAMMATORY RESPONSES UPON LIPOPOLYSACCHARIDE CHALLENGE, MEDIATED THROUGH ENHANCED IRF1 FUNCTION AND EXPRESSION. EX VIVO STIMULATION OF WILD-TYPE AMS WITH NATIVE MUCUS IMPAIRS EFFEROCYTOSIS AND PHAGOCYTOSIS CAPACITIES. IN ADDITION, MUCUS INDUCES GENE EXPRESSION CHANGES, COMPARABLE WITH THOSE OBSERVED IN AMS FROM SCNN1B-TRANSGENIC MICE. OUR DATA SHOW THAT MUCOSTASIS INDUCES EPIGENETIC REPROGRAMMING OF AMS, LEADING TO CHANGES FAVORING TISSUE DAMAGE AND DISEASE PROGRESSION. TARGETING THESE ALTERED AMS MAY SUPPORT THERAPEUTIC APPROACHES IN PATIENTS WITH MUCO-OBSTRUCTIVE LUNG DISEASES. 2021 12 3941 29 LNCRNA DRAIR IS DOWNREGULATED IN DIABETIC MONOCYTES AND MODULATES THE INFLAMMATORY PHENOTYPE VIA EPIGENETIC MECHANISMS. LONG NONCODING RNAS (LNCRNAS) ARE INCREASINGLY IMPLICATED IN THE PATHOLOGY OF DIABETIC COMPLICATIONS. HERE, WE EXAMINED THE ROLE OF LNCRNAS IN MONOCYTE DYSFUNCTION AND INFLAMMATION ASSOCIATED WITH HUMAN TYPE 2 DIABETES MELLITUS (T2D). RNA SEQUENCING ANALYSIS OF CD14+ MONOCYTES FROM PATIENTS WITH T2D VERSUS HEALTHY CONTROLS REVEALED DOWNREGULATION OF ANTIINFLAMMATORY AND ANTIPROLIFERATIVE GENES, ALONG WITH SEVERAL LNCRNAS, INCLUDING A POTENTIALLY NOVEL DIVERGENT LNCRNA DIABETES REGULATED ANTIINFLAMMATORY RNA (DRAIR) AND ITS NEARBY GENE CPEB2. HIGH GLUCOSE AND PALMITIC ACID DOWNREGULATED DRAIR IN CULTURED CD14+ MONOCYTES, WHEREAS ANTIINFLAMMATORY CYTOKINES AND MONOCYTE-TO-MACROPHAGE DIFFERENTIATION UPREGULATED DRAIR VIA KLF4 TRANSCRIPTION FACTOR. DRAIR OVEREXPRESSION INCREASED ANTIINFLAMMATORY AND MACROPHAGE DIFFERENTIATION GENES BUT INHIBITED PROINFLAMMATORY GENES. CONVERSELY, DRAIR KNOCKDOWN ATTENUATED ANTIINFLAMMATORY GENES, PROMOTED INFLAMMATORY RESPONSES, AND INHIBITED PHAGOCYTOSIS. DRAIR REGULATED TARGET GENE EXPRESSION THROUGH INTERACTION WITH CHROMATIN, AS WELL AS INHIBITION OF THE REPRESSIVE EPIGENETIC MARK H3K9ME2 AND ITS CORRESPONDING METHYLTRANSFERASE G9A. MOUSE ORTHOLOGOUS DRAIR AND CPEB2 WERE ALSO DOWNREGULATED IN PERITONEAL MACROPHAGES FROM T2D DB/DB MICE, AND DRAIR KNOCKDOWN IN NONDIABETIC MICE ENHANCED PROINFLAMMATORY GENES IN MACROPHAGES. THUS, DRAIR MODULATES THE INFLAMMATORY PHENOTYPE OF MONOCYTES/MACROPHAGES VIA EPIGENETIC MECHANISMS, AND ITS DOWNREGULATION IN T2D MAY PROMOTE CHRONIC INFLAMMATION. AUGMENTATION OF ENDOGENOUS LNCRNAS LIKE DRAIR COULD SERVE AS NOVEL ANTIINFLAMMATORY THERAPIES FOR DIABETIC COMPLICATIONS. 2021 13 3962 33 LONG NONCODING RNA LEENE PROMOTES ANGIOGENESIS AND ISCHEMIC RECOVERY IN DIABETES MODELS. IMPAIRED ANGIOGENESIS IN DIABETES IS A KEY PROCESS CONTRIBUTING TO ISCHEMIC DISEASES SUCH AS PERIPHERAL ARTERIAL DISEASE. EPIGENETIC MECHANISMS, INCLUDING THOSE MEDIATED BY LONG NONCODING RNAS (LNCRNAS), ARE CRUCIAL LINKS CONNECTING DIABETES AND THE RELATED CHRONIC TISSUE ISCHEMIA. HERE WE IDENTIFY THE LNCRNA THAT ENHANCES ENDOTHELIAL NITRIC OXIDE SYNTHASE (ENOS) EXPRESSION (LEENE) AS A REGULATOR OF ANGIOGENESIS AND ISCHEMIC RESPONSE. LEENE EXPRESSION WAS DECREASED IN DIABETIC CONDITIONS IN CULTURED ENDOTHELIAL CELLS (ECS), MOUSE HIND LIMB MUSCLES, AND HUMAN ARTERIES. INHIBITION OF LEENE IN HUMAN MICROVASCULAR ECS REDUCED THEIR ANGIOGENIC CAPACITY WITH A DYSREGULATED ANGIOGENIC GENE PROGRAM. DIABETIC MICE DEFICIENT IN LEENE DEMONSTRATED IMPAIRED ANGIOGENESIS AND PERFUSION FOLLOWING HIND LIMB ISCHEMIA. IMPORTANTLY, OVEREXPRESSION OF HUMAN LEENE RESCUED THE IMPAIRED ISCHEMIC RESPONSE IN LEENE-KNOCKOUT MICE AT TISSUE FUNCTIONAL AND SINGLE-CELL TRANSCRIPTOMIC LEVELS. MECHANISTICALLY, LEENE RNA PROMOTED TRANSCRIPTION OF PROANGIOGENIC GENES IN ECS, SUCH AS KDR (ENCODING VEGFR2) AND NOS3 (ENCODING ENOS), POTENTIALLY BY INTERACTING WITH LEO1, A KEY COMPONENT OF THE RNA POLYMERASE II-ASSOCIATED FACTOR COMPLEX AND MYC, A CRUCIAL TRANSCRIPTION FACTOR FOR ANGIOGENESIS. TAKEN TOGETHER, OUR FINDINGS DEMONSTRATE AN ESSENTIAL ROLE FOR LEENE IN THE REGULATION OF ANGIOGENESIS AND TISSUE PERFUSION. FUNCTIONAL ENHANCEMENT OF LEENE TO RESTORE ANGIOGENESIS FOR TISSUE REPAIR AND REGENERATION MAY REPRESENT A POTENTIAL STRATEGY TO TACKLE ISCHEMIC VASCULAR DISEASES. 2023 14 5601 26 RORALPHA IS CRUCIAL FOR ATTENUATED INFLAMMATORY RESPONSE TO MAINTAIN INTESTINAL HOMEOSTASIS. RETINOIC ACID-RELATED ORPHAN RECEPTOR ALPHA (RORALPHA) FUNCTIONS AS A TRANSCRIPTION FACTOR FOR VARIOUS BIOLOGICAL PROCESSES, INCLUDING CIRCADIAN RHYTHM, CANCER, AND METABOLISM. HERE, WE GENERATE INTESTINAL EPITHELIAL CELL (IEC)-SPECIFIC RORALPHA-DEFICIENT (RORALPHA(DELTAIEC)) MICE AND FIND THAT RORALPHA IS CRUCIAL FOR MAINTAINING INTESTINAL HOMEOSTASIS BY ATTENUATING NUCLEAR FACTOR KAPPAB (NF-KAPPAB) TRANSCRIPTIONAL ACTIVITY. RORALPHA(DELTAIEC) MICE EXHIBIT EXCESSIVE INTESTINAL INFLAMMATION AND HIGHLY ACTIVATED INFLAMMATORY RESPONSES IN THE DEXTRAN SULFATE SODIUM (DSS) MOUSE COLITIS MODEL. TRANSCRIPTOME ANALYSIS REVEALS THAT DELETION OF RORALPHA LEADS TO UP-REGULATION OF NF-KAPPAB TARGET GENES IN IECS. CHROMATIN IMMUNOPRECIPITATION ANALYSIS REVEALS CORECRUITMENT OF RORALPHA AND HISTONE DEACETYLASE 3 (HDAC3) ON NF-KAPPAB TARGET PROMOTERS AND SUBSEQUENT DISMISSAL OF CREB BINDING PROTEIN (CBP) AND BROMODOMAIN-CONTAINING PROTEIN 4 (BRD4) FOR TRANSCRIPTIONAL REPRESSION. TOGETHER, WE DEMONSTRATE THAT RORALPHA/HDAC3-MEDIATED ATTENUATION OF NF-KAPPAB SIGNALING CONTROLS THE BALANCE OF INFLAMMATORY RESPONSES, AND THERAPEUTIC STRATEGIES TARGETING THIS EPIGENETIC REGULATION COULD BE BENEFICIAL TO THE TREATMENT OF CHRONIC INFLAMMATORY DISEASES, INCLUDING INFLAMMATORY BOWEL DISEASE (IBD). 2019 15 1866 23 EMERGING CROSSTALK BETWEEN LONG NON-CODING RNAS AND NRF2 SIGNALING. DIVERSE STIMULI TRIGGER NRF2 SIGNALING, WHICH IN TURN TRANSCRIPTIONALLY REGULATES AN ARRAY OF DOWNSTREAM TARGETS, PROVIDING FOR MULTIPLE LAYERS OF CONTROL. WHILE NRF2 ACTIVITY LARGELY IS GOVERNED BY POSTTRANSLATIONAL MODIFICATION OF CRITICAL THIOL RESIDUES IN THE PROTEIN PARTNER AND REDOX SENSOR KEAP1, FINE-TUNING IS PROVIDED BY ADDITIONAL MECHANISMS - INCLUDING EPIGENETIC REGULATION. HEREIN, WE REVIEW THE EMERGING SIGNIFICANCE OF LONG NON-CODING RNAS (LNCRNA) AS DOWNSTREAM TARGETS AND UPSTREAM REGULATORS OF THE NRF2 SIGNALING PATHWAY. AMONG THE ~16000 LNCRNAS IN GENCODE, SOME HAVE BEEN VALIDATED AS TRANSCRIPTIONALLY REGULATED BY NRF2 (E.G., LUCAT1, NMRAL2P, ODRUL, ROR AND TUG1), AND OTHERS HAVE BEEN IDENTIFIED AS UPSTREAM REGULATORS OF NRF2 EXPRESSION (E.G., HOTAIR, MALAT1, MEG1, NRAL AND UCA1). BIOINFORMATIC ANALYSES OF ANNOTATED HUMAN LNCRNAS IDENTIFIED PUTATIVE NRF2 BINDING SITES IN THE PROMOTER REGIONS OF 13,285 LNCRNAS. FURTHER INVESTIGATION IS WARRANTED TO VALIDATE THE MANY NOVEL LNCRNAS AS BONA FIDE NRF2-REGULATED TARGETS, AND THEIR ROLES IN NRF2 SIGNALING. NRF2 IS CONSIDERED A PROMISING THERAPEUTIC CANDIDATE FOR CANCER AND OTHER CHRONIC DISEASES; THUS, TARGETING THE ASSOCIATED LNCRNAS MIGHT PROVIDE FOR A MORE REFINED FINE-TUNING OF THE SYSTEM, DEPENDING ON CELLULAR AND PATHOPHYSIOLOGICAL CONTEXT. 2020 16 35 28 A CHROMATIN ACTIVITY-BASED CHEMOPROTEOMIC APPROACH REVEALS A TRANSCRIPTIONAL REPRESSOME FOR GENE-SPECIFIC SILENCING. IMMUNE CELLS DEVELOP ENDOTOXIN TOLERANCE (ET) AFTER PROLONGED STIMULATION. ET INCREASES THE LEVEL OF A REPRESSION MARK H3K9ME2 IN THE TRANSCRIPTIONALLY SILENT CHROMATIN SPECIFICALLY ASSOCIATED WITH PRO-INFLAMMATORY GENES. HOWEVER, IT IS NOT CLEAR WHAT PROTEINS ARE FUNCTIONALLY INVOLVED IN THIS PROCESS. HERE WE SHOW THAT A NOVEL CHROMATIN ACTIVITY-BASED CHEMOPROTEOMIC (CHAC) APPROACH CAN DISSECT THE FUNCTIONAL CHROMATIN PROTEIN COMPLEXES THAT REGULATE ET-ASSOCIATED INFLAMMATION. USING UNC0638 THAT BINDS THE ENZYMATICALLY ACTIVE H3K9-SPECIFIC METHYLTRANSFERASE G9A/GLP, CHAC REVEALS THAT G9A IS CONSTITUTIVELY ACTIVE AT A G9A-DEPENDENT MEGA-DALTON REPRESSOME IN PRIMARY ENDOTOXIN-TOLERANT MACROPHAGES. G9A/GLP BROADLY IMPACTS THE ET-SPECIFIC REPROGRAMMING OF THE HISTONE CODE LANDSCAPE, CHROMATIN REMODELLING AND THE ACTIVITIES OF SELECT TRANSCRIPTION FACTORS. WE DISCOVER THAT THE G9A-DEPENDENT EPIGENETIC ENVIRONMENT PROMOTES THE TRANSCRIPTIONAL REPRESSION ACTIVITY OF C-MYC FOR GENE-SPECIFIC CO-REGULATION OF CHRONIC INFLAMMATION. CHAC MAY ALSO BE APPLICABLE TO DISSECT OTHER FUNCTIONAL PROTEIN COMPLEXES IN THE CONTEXT OF PHENOTYPIC CHROMATIN ARCHITECTURES. 2014 17 2352 35 EPIGENETIC REGULATION OF NRF2/KEAP1 BY PHYTOCHEMICALS. EPIGENETICS HAS PROVIDED A NEW DIMENSION TO OUR UNDERSTANDING OF NUCLEAR FACTOR ERYTHROID 2-RELATED FACTOR 2/KELCH-LIKE ECH-ASSOCIATED PROTEIN 1 (HUMAN NRF2/KEAP1 AND MURINE NRF2/KEAP1) SIGNALING. UNLIKE THE GENETIC CHANGES AFFECTING DNA SEQUENCE, THE REVERSIBLE NATURE OF EPIGENETIC ALTERATIONS PROVIDES AN ATTRACTIVE AVENUE FOR CANCER INTERCEPTION. THUS, TARGETING EPIGENETIC MECHANISMS IN THE CORRESPONDING SIGNALING NETWORKS REPRESENTS AN ENTICING STRATEGY FOR THERAPEUTIC INTERVENTION WITH DIETARY PHYTOCHEMICALS ACTING AT TRANSCRIPTIONAL, POST-TRANSCRIPTIONAL, AND POST-TRANSLATIONAL LEVELS. THIS REGULATION INVOLVES THE INTERPLAY OF HISTONE MODIFICATIONS AND DNA METHYLATION STATES IN THE HUMAN NFE2L2/KEAP1 AND MURINE NFE2L2/KEAP1 GENES, ACETYLATION OF LYSINE RESIDUES IN NRF2 AND NRF2, INTERACTION WITH BROMODOMAIN AND EXTRATERMINAL DOMAIN (BET) ACETYL "READER" PROTEINS, AND NON-CODING RNAS SUCH AS MICRORNA (MIRNA) AND LONG NON-CODING RNA (LNCRNA). PHYTOCHEMICALS DOCUMENTED TO MODULATE NRF2 SIGNALING ACT BY REVERSING HYPERMETHYLATED STATES IN THE CPG ISLANDS OF NFE2L2 OR NFE2L2, VIA THE INHIBITION OF DNA METHYLTRANSFERASES (DNMTS) AND HISTONE DEACETYLASES (HDACS), THROUGH THE INDUCTION OF TEN-ELEVEN TRANSLOCATION (TET) ENZYMES, OR BY INDUCING MIRNA TO TARGET THE 3'-UTR OF THE CORRESPONDING MRNA TRANSCRIPTS. TO DATE, FEWER THAN TWENTY PHYTOCHEMICALS HAVE BEEN REPORTED AS NRF2 EPIGENETIC MODIFIERS, INCLUDING CURCUMIN, SULFORAPHANE, RESVERATROL, RESERPINE, AND URSOLIC ACID. THIS OPENS AVENUES FOR EXPLORING ADDITIONAL DIETARY PHYTOCHEMICALS THAT REGULATE THE HUMAN EPIGENOME, AND THE POTENTIAL FOR NOVEL STRATEGIES TO TARGET NRF2 SIGNALING WITH A VIEW TO BENEFICIAL INTERCEPTION OF CANCER AND OTHER CHRONIC DISEASES. 2020 18 3875 22 KDM2A DEFICIENCY IN MACROPHAGES ENHANCES THERMOGENESIS TO PROTECT MICE AGAINST HFD-INDUCED OBESITY BY ENHANCING H3K36ME2 AT THE PPARG LOCUS. KDM2A CATALYZES H3K36ME2 DEMETHYLATION TO PLAY AN INTRIGUING EPIGENETIC REGULATORY ROLE IN CELL PROLIFERATION, DIFFERENTIATION, AND APOPTOSIS. HEREIN WE FOUND THAT MYELOID-SPECIFIC KNOCKOUT OF KDM2A (LYSM-CRE-KDM2A(F/F), KDM2A(-/-)) PROMOTED MACROPHAGE M2 PROGRAM BY REPROGRAMING METABOLIC HOMEOSTASIS THROUGH ENHANCING FATTY ACID UPTAKE AND LIPOLYSIS. KDM2A(-/-) INCREASED H3K36ME2 LEVELS AT THE PPARG LOCUS ALONG WITH AUGMENTED CHROMATIN ACCESSIBILITY AND STAT6 RECRUITMENT, WHICH RENDERED MACROPHAGES WITH PREFERENTIAL M2 POLARIZATION. THEREFORE, THE KDM2A(-/-) MICE WERE HIGHLY PROTECTED FROM HIGH-FAT DIET (HFD)-INDUCED OBESITY, INSULIN RESISTANCE, AND HEPATIC STEATOSIS, AND FEATURED BY THE REDUCED ACCUMULATION OF ADIPOSE TISSUE MACROPHAGES AND REPRESSED CHRONIC INFLAMMATION FOLLOWING HFD CHALLENGE. PARTICULARLY, KDM2A(-/-) MACROPHAGES PROVIDED A MICROENVIRONMENT IN FAVOR OF THERMOGENESIS. UPON HFD OR COLD CHALLENGE, THE KDM2A(-/-) MICE MANIFESTED HIGHER CAPACITY FOR INDUCING ADIPOSE BROWNING AND BEIGING TO PROMOTE ENERGY EXPENDITURE. COLLECTIVELY, OUR FINDINGS DEMONSTRATE THE IMPORTANCE OF KDM2A-MEDIATED H3K36 DEMETHYLATION IN ORCHESTRATING MACROPHAGE POLARIZATION, PROVIDING NOVEL INSIGHT THAT TARGETING KDM2A IN MACROPHAGES COULD BE A VIABLE THERAPEUTIC APPROACH AGAINST OBESITY AND INSULIN RESISTANCE. 2021 19 6233 20 THE LONG NONCODING RNA TUG1 CONNECTS METABOLIC CHANGES WITH KIDNEY DISEASE IN PODOCYTES. AN INCREASING AMOUNT OF EVIDENCE SUGGESTS THAT METABOLIC ALTERATIONS PLAY A KEY ROLE IN CHRONIC KIDNEY DISEASE (CKD) PATHOGENESIS. IN THIS ISSUE OF THE JCI, LONG ET AL. REPORT THAT THE LONG NONCODING RNA (LNCRNA) TAURINE-UPREGULATED 1 (TUG1) CONTRIBUTES TO CKD DEVELOPMENT. THE AUTHORS SHOW THAT TUG1 REGULATES MITOCHONDRIAL FUNCTION IN PODOCYTES BY EPIGENETIC TARGETING OF EXPRESSION OF THE TRANSCRIPTION FACTOR PPARGAMMA COACTIVATOR 1ALPHA (PGC-1ALPHA, ENCODED BY PPARGC1A). TRANSGENIC OVEREXPRESSION OF TUG1 SPECIFICALLY IN PODOCYTES AMELIORATED DIABETES-INDUCED CKD IN MICE. TOGETHER, THESE RESULTS HIGHLIGHT AN IMPORTANT CONNECTION BETWEEN LNCRNA-MEDIATED METABOLIC ALTERATIONS IN PODOCYTES AND KIDNEY DISEASE DEVELOPMENT. 2016 20 5583 32 ROLE OF NON-CODING RNAS IN NON-AGING-RELATED NEUROLOGICAL DISORDERS. PROTEIN CODING SEQUENCES REPRESENT ONLY 2% OF THE HUMAN GENOME. RECENT ADVANCES HAVE DEMONSTRATED THAT A SIGNIFICANT PORTION OF THE GENOME IS ACTIVELY TRANSCRIBED AS NON-CODING RNA MOLECULES. THESE NON-CODING RNAS ARE EMERGING AS KEY PLAYERS IN THE REGULATION OF BIOLOGICAL PROCESSES, AND ACT AS "FINE-TUNERS" OF GENE EXPRESSION. NEUROLOGICAL DISORDERS ARE CAUSED BY A WIDE RANGE OF GENETIC MUTATIONS, EPIGENETIC AND ENVIRONMENTAL FACTORS, AND THE EXACT PATHOPHYSIOLOGY OF MANY OF THESE CONDITIONS IS STILL UNKNOWN. IT IS CURRENTLY RECOGNIZED THAT DYSREGULATIONS IN THE EXPRESSION OF NON-CODING RNAS ARE PRESENT IN MANY NEUROLOGICAL DISORDERS AND MAY BE RELEVANT IN THE MECHANISMS LEADING TO DISEASE. IN ADDITION, CIRCULATING NON-CODING RNAS ARE EMERGING AS POTENTIAL BIOMARKERS WITH GREAT POTENTIAL IMPACT IN CLINICAL PRACTICE. IN THIS REVIEW, WE DISCUSS MAINLY THE ROLE OF MICRORNAS AND LONG NON-CODING RNAS IN SEVERAL NEUROLOGICAL DISORDERS, SUCH AS EPILEPSY, HUNTINGTON DISEASE, FRAGILE X-ASSOCIATED ATAXIA, SPINOCEREBELLAR ATAXIAS, AMYOTROPHIC LATERAL SCLEROSIS (ALS), AND PAIN. IN ADDITION, WE GIVE INFORMATION ABOUT THE CONDITIONS WHERE MICRORNAS HAVE DEMONSTRATED TO BE POTENTIAL BIOMARKERS SUCH AS IN EPILEPSY, PAIN, AND ALS. 2018