1 3037 169 GENOME AND METHYLOME VARIATION IN HELICOBACTER PYLORI WITH A CAG PATHOGENICITY ISLAND DURING EARLY STAGES OF HUMAN INFECTION. BACKGROUND & AIMS: HELICOBACTER PYLORI IS REMARKABLE FOR ITS GENETIC VARIATION; YET, LITTLE IS KNOWN ABOUT ITS GENETIC CHANGES DURING EARLY STAGES OF HUMAN INFECTION, AS THE BACTERIA ADAPT TO THEIR NEW ENVIRONMENT. WE ANALYZED GENOME AND METHYLOME VARIATIONS IN A FULLY VIRULENT STRAIN OF H PYLORI DURING EXPERIMENTAL INFECTION. METHODS: WE PERFORMED A RANDOMIZED PHASE I/II, OBSERVER-BLIND, PLACEBO-CONTROLLED STUDY OF 12 HEALTHY, H PYLORI-NEGATIVE ADULTS IN GERMANY FROM OCTOBER 2008 THROUGH MARCH 2010. THE VOLUNTEERS WERE GIVEN A PROPHYLACTIC VACCINE CANDIDATE (N = 7) OR PLACEBO (N = 5) AND THEN CHALLENGED WITH H PYLORI STRAIN BCM-300. BIOPSY SAMPLES WERE COLLECTED AND H PYLORI WERE ISOLATED. GENOMES OF THE CHALLENGE STRAIN AND 12 REISOLATES, OBTAINED 12 WEEKS AFTER (OR IN 1 CASE, 62 WEEKS AFTER) INFECTION WERE SEQUENCED BY SINGLE-MOLECULE, REAL-TIME TECHNOLOGY, WHICH, IN PARALLEL, PERMITTED DETERMINATION OF GENOME-WIDE METHYLATION PATTERNS FOR ALL STRAINS. FUNCTIONAL EFFECTS OF GENETIC CHANGES OBSERVED IN H PYLORI STRAINS DURING HUMAN INFECTION WERE ASSESSED BY MEASURING RELEASE OF INTERLEUKIN 8 FROM AGS CELLS (TO DETECT CAG PATHOGENICITY ISLAND FUNCTION), NEUTRAL RED UPTAKE (TO DETECT VACUOLATING CYTOTOXIN ACTIVITY), AND ADHESION ASSAYS. RESULTS: THE OBSERVED MUTATION RATE WAS IN AGREEMENT WITH RATES PREVIOUSLY DETERMINED FROM PATIENTS WITH CHRONIC H PYLORI INFECTIONS, WITHOUT EVIDENCE OF A MUTATION BURST. A LOSS OF CAG PATHOGENICITY ISLAND FUNCTION WAS OBSERVED IN 3 REISOLATES. IN ADDITION, 3 REISOLATES FROM THE VACCINE GROUP ACQUIRED MUTATIONS IN THE VACUOLATING CYTOTOXIN GENE VACA, RESULTING IN LOSS OF VACUOLIZATION ACTIVITY. WE OBSERVED INTERSTRAIN VARIATION IN METHYLOMES DUE TO PHASE VARIATION IN GENES ENCODING METHYLTRANSFERASES. CONCLUSIONS: WE ANALYZED ADAPTATION OF A FULLY VIRULENT STRAIN OF H PYLORI TO 12 DIFFERENT VOLUNTEERS TO OBTAIN A ROBUST ESTIMATE OF THE FREQUENCY OF GENETIC AND EPIGENETIC CHANGES IN THE ABSENCE OF INTERSTRAIN RECOMBINATION. OUR FINDINGS INDICATE THAT THE LARGE AMOUNT OF GENETIC VARIATION IN H PYLORI POSES A CHALLENGE TO VACCINE DEVELOPMENT. CLINICALTRIALS.GOV NO: NCT00736476. 2018 2 2273 41 EPIGENETIC REGULATION ALTERS BIOFILM ARCHITECTURE AND COMPOSITION IN MULTIPLE CLINICAL ISOLATES OF NONTYPEABLE HAEMOPHILUS INFLUENZAE. BIOFILMS PLAY A CRITICAL ROLE IN THE COLONIZATION, PERSISTENCE, AND PATHOGENESIS OF MANY HUMAN PATHOGENS. MULTIPLE MUCOSA-ASSOCIATED PATHOGENS HAVE EVOLVED A MECHANISM OF RAPID ADAPTATION, TERMED THE PHASEVARION, WHICH FACILITATES A COORDINATED REGULATION OF NUMEROUS GENES THROUGHOUT THE BACTERIAL GENOME. THIS EPIGENETIC REGULATION OCCURS VIA PHASE VARIATION OF A DNA METHYLTRANSFERASE, MOD. THE PHASEVARION OF NONTYPEABLE HAEMOPHILUS INFLUENZAE (NTHI) SIGNIFICANTLY AFFECTS THE SEVERITY OF EXPERIMENTAL OTITIS MEDIA AND REGULATES SEVERAL DISEASE-RELATED PROCESSES. HOWEVER, THE ROLE OF THE NTHI PHASEVARION IN BIOFILM FORMATION IS UNCLEAR. THE PRESENT STUDY SHOWS THAT THE PHASEVARIONS OF MULTIPLE NTHI CLINICAL ISOLATES REGULATE IN VITRO BIOFILM FORMATION UNDER DISEASE-SPECIFIC MICROENVIRONMENTAL CONDITIONS. THE IMPACT OF PHASEVARION REGULATION WAS GREATEST UNDER ALKALINE CONDITIONS THAT MIMIC THOSE KNOWN TO OCCUR IN THE MIDDLE EAR DURING DISEASE. UNDER ALKALINE CONDITIONS, NTHI STRAINS THAT EXPRESS THE MODA2 METHYLTRANSFERASE FORMED BIOFILMS WITH SIGNIFICANTLY GREATER BIOMASS AND LESS DISTINCT ARCHITECTURE THAN THOSE FORMED BY A MODA2-DEFICIENT POPULATION. THE BIOFILMS FORMED BY NTHI STRAINS THAT EXPRESS MODA2 ALSO CONTAINED LESS EXTRACELLULAR DNA (EDNA) AND SIGNIFICANTLY LESS EXTRACELLULAR HU, A DNABII DNA-BINDING PROTEIN CRITICAL FOR BIOFILM STRUCTURAL STABILITY. STABLE BIOFILM STRUCTURE IS CRITICAL FOR BACTERIAL PATHOGENESIS AND PERSISTENCE IN MULTIPLE EXPERIMENTAL MODELS OF DISEASE. THESE RESULTS IDENTIFY A ROLE FOR THE PHASEVARION IN REGULATION OF BIOFILM FORMATION, A PROCESS INTEGRAL TO THE CHRONIC NATURE OF MANY INFECTIONS. UNDERSTANDING THE ROLE OF THE PHASEVARION IN BIOFILM FORMATION IS CRITICAL TO THE DEVELOPMENT OF PREVENTION AND TREATMENT STRATEGIES FOR THESE CHRONIC DISEASES.IMPORTANCE UPPER RESPIRATORY TRACT INFECTIONS ARE THE NUMBER ONE REASON FOR A CHILD TO VISIT THE EMERGENCY DEPARTMENT, AND OTITIS MEDIA (MIDDLE EAR INFECTION) RANKS THIRD OVERALL. BIOFILMS CONTRIBUTE SIGNIFICANTLY TO THE CHRONIC NATURE OF BACTERIAL RESPIRATORY TRACT INFECTIONS, INCLUDING OTITIS MEDIA, AND MAKE THESE DISEASES PARTICULARLY DIFFICULT TO TREAT. SEVERAL MUCOSA-ASSOCIATED HUMAN PATHOGENS UTILIZE A MECHANISM OF RAPID ADAPTATION TERMED THE PHASEVARION, OR PHASEVARIABLE REGULON, TO RESIST ENVIRONMENTAL AND HOST IMMUNE PRESSURES. IN THIS STUDY, WE ASSESSED THE ROLE OF THE PHASEVARION IN REGULATION OF BIOFILM FORMATION BY NONTYPEABLE HAEMOPHILUS INFLUENZAE (NTHI), WHICH CAUSES NUMEROUS RESPIRATORY TRACT DISEASES. WE FOUND THAT THE NTHI PHASEVARION REGULATES BIOFILM STRUCTURE AND CRITICAL BIOFILM MATRIX COMPONENTS UNDER DISEASE-SPECIFIC CONDITIONS. THE FINDINGS OF THIS WORK COULD BE SIGNIFICANT IN THE DESIGN OF IMPROVED STRATEGIES AGAINST NTHI INFECTIONS, AS WELL AS DISEASES DUE TO OTHER PATHOGENS THAT UTILIZE A PHASEVARION. 2018 3 1548 44 DNA METHYLATION IN THE DEVELOPING HIPPOCAMPUS AND AMYGDALA OF ANXIETY-PRONE VERSUS RISK-TAKING RATS. ALL ORGANISMS EXHIBIT A WIDE RANGE OF EMOTIONAL BEHAVIORS AND INTERACT WITH THE ENVIRONMENT IN DIFFERENT WAYS. SOME INDIVIDUALS MAY BE MORE QUIET AND SHY WHEREAS OTHERS ARE MORE OUTGOING AND ADVENTUROUS. THESE TEMPERAMENTAL AND PERSONALITY DIFFERENCES CAN PREDISPOSE INDIVIDUALS TO CERTAIN PSYCHOPATHOLOGIES WHICH MAY BE INFLUENCED BY GENETIC VULNERABILITY AND/OR EARLY LIFE EXPERIENCES. RODENT MODELS CAN BE USED TO RECAPITULATE EMOTIONAL REACTIVITY DIFFERENCES, AND THESE MODELS CAN, IN TURN, BE USED TO EXAMINE POTENTIAL NEUROBIOLOGICAL UNDERPINNINGS OF THESE TRAITS. THE PRESENT STUDY UTILIZES TWO STRAINS OF RATS THAT WERE SELECTIVELY BRED FOR DIFFERENCES IN NOVELTY SEEKING. HIGH NOVELTY-RESPONDING (BHR) RATS ARE VERY ACTIVE IN RESPONSE TO NOVELTY, EXHIBIT EXAGGERATED RISK-TAKING, AGGRESSION, IMPULSIVITY, AND SHOW INCREASED BEHAVIORAL RESPONSE TO COCAINE. LOW NOVELTY-RESPONDING (BLR) RATS SHOW INCREASED ANXIETY, DEPRESSIVE BEHAVIOR AND VULNERABILITY TO CHRONIC STRESS. ONE WAY IN WHICH THE BHR VERSUS BLR BEHAVIORAL PHENOTYPES MAY DIFFER IS THROUGH EPIGENETIC MODIFICATION OF DNA. DNA CAN BE MODIFIED THROUGH PROCESSES SUCH AS ACETYLATION OR METHYLATION TO EITHER ENHANCE OR SUBDUE GENE EXPRESSION. THIS STUDY EXAMINES PUTATIVE DIFFERENCES IN METHYLATION LEVELS IN THE HIPPOCAMPUS AND AMYGDALA OF DEVELOPING BHR-BLR RATS. PREVIOUS RESEARCH OBSERVED WIDESPREAD GENE EXPRESSION DIFFERENCES IN THE BLR DEVELOPING HIPPOCAMPUS, AND THE CURRENT STUDY AIMS TO BEGIN TO EXAMINE POTENTIAL EPIGENETIC FACTORS THAT MAY CONTRIBUTE TO THOSE GENE DIFFERENCES. THE AMYGDALA WAS CHOSEN BECAUSE IT IS INVOLVED IN EMOTIONAL PROCESSES, IN PART THROUGH ITS CONNECTIONS WITH THE HIPPOCAMPUS. THEREFORE, THE PRESENT STUDY USED IN SITU HYBRIDIZATION TO ASSESS THE EXPRESSION OF DNA METHYLTRANSFERASE-1 (DNMT1) MRNA IN THE HIPPOCAMPUS, AMYGDALA AND SEVERAL OTHER BRAIN AREAS OF BHR AND BLR PUPS AT THREE DEVELOPMENTAL TIME POINTS: POSTNATAL DAYS (P) 7, 14, AND 21. WE FOCUSED ON THE FIRST 3 POSTNATAL WEEKS, IN PART TO PARALLEL OUR EARLY MICROARRAY GENE EXPRESSION WORK, AND BECAUSE THIS REPRESENTS A CRITICAL PERIOD OF BRAIN DEVELOPMENT, WHICH SHAPES INDIVIDUALS' LIFELONG EMOTIONAL AND STRESS REACTIVITY. WE FOUND SIGNIFICANT DIFFERENCES IN DENTATE GYRUS AND CA3 REGIONS OF THE HIPPOCAMPUS AT P7 WITH NO DIFFERENCES SEEN AT P14 OR P21. INTERESTINGLY, WE ALSO FOUND SIGNIFICANT BHR-BLR DNMT1 DIFFERENCES AT P7 WITHIN THE LATERAL, BASOLATERAL AND MEDIAL NUCLEI OF THE AMYGDALA, WITH NO DIFFERENCE AT P14 AND P21, SUGGESTING THAT THE FIRST POSTNATAL WEEK IS A CRITICAL PERIOD FOR DNA METHYLATION DURING BRAIN DEVELOPMENT. 2012 4 3625 72 IN VIVO GENOME AND METHYLOME ADAPTATION OF CAG-NEGATIVE HELICOBACTER PYLORI DURING EXPERIMENTAL HUMAN INFECTION. MULTIPLE STUDIES HAVE DEMONSTRATED RAPID BACTERIAL GENOME EVOLUTION DURING CHRONIC INFECTION WITH HELICOBACTER PYLORI IN CONTRAST, LITTLE WAS KNOWN ABOUT GENETIC CHANGES DURING THE FIRST STAGES OF INFECTION, WHEN SELECTIVE PRESSURE IS LIKELY TO BE HIGHEST. USING SINGLE-MOLECULE, REAL-TIME (SMRT) AND ILLUMINA SEQUENCING TECHNOLOGIES, WE ANALYZED GENOME AND METHYLOME EVOLUTION DURING THE FIRST 10 WEEKS OF INFECTION BY COMPARING THE CAG PATHOGENICITY ISLAND (CAGPAI)-NEGATIVE H. PYLORI CHALLENGE STRAIN BCS 100 WITH PAIRS OF H. PYLORI REISOLATES FROM GASTRIC ANTRUM AND CORPUS BIOPSY SPECIMENS OF 10 HUMAN VOLUNTEERS WHO HAD BEEN INFECTED WITH THIS STRAIN AS PART OF A VACCINE TRIAL. MOST GENETIC CHANGES DETECTED IN THE REISOLATES AFFECTED GENES WITH A SURFACE-RELATED ROLE OR A PREDICTED FUNCTION IN PEPTIDE UPTAKE. APART FROM PHENOTYPIC CHANGES OF THE BACTERIAL ENVELOPE, A DUPLICATION OF THE CATALASE GENE WAS OBSERVED IN ONE REISOLATE, WHICH RESULTED IN HIGHER CATALASE ACTIVITY AND IMPROVED SURVIVAL UNDER OXIDATIVE STRESS CONDITIONS. THE METHYLOMES ALSO VARIED IN SOME OF THE REISOLATES, MOSTLY BY ACTIVITY SWITCHING OF PHASE-VARIABLE METHYLTRANSFERASE (MTASE) GENES. THE OBSERVED IN VIVO MUTATION SPECTRUM WAS REMARKABLE FOR A VERY HIGH PROPORTION OF NONSYNONYMOUS MUTATIONS. ALTHOUGH THE DATA SHOWED SUBSTANTIAL WITHIN-STRAIN GENOME DIVERSITY IN THE CHALLENGE STRAIN, MOST ANTRUM AND CORPUS REISOLATES FROM THE SAME VOLUNTEERS WERE HIGHLY SIMILAR TO EACH OTHER, INDICATING THAT THE CHALLENGE INFECTION REPRESENTS A MAJOR SELECTIVE BOTTLENECK SHAPING THE TRANSMITTED POPULATION. OUR FINDINGS SUGGEST RAPID IN VIVO SELECTION OF H. PYLORI DURING EARLY-PHASE INFECTION PROVIDING ADAPTATION TO DIFFERENT INDIVIDUALS BY COMMON MECHANISMS OF GENETIC AND EPIGENETIC ALTERATIONS.IMPORTANCE EXCEPTIONAL GENETIC DIVERSITY AND VARIABILITY ARE HALLMARKS OF HELICOBACTER PYLORI, BUT THE BIOLOGICAL ROLE OF THIS PLASTICITY REMAINS INCOMPLETELY UNDERSTOOD. HERE, WE HAD THE RARE OPPORTUNITY TO INVESTIGATE THE MOLECULAR EVOLUTION DURING THE FIRST WEEKS OF H. PYLORI INFECTION BY COMPARING THE GENOMES AND EPIGENOMES OF H. PYLORI STRAIN BCS 100 USED TO CHALLENGE HUMAN VOLUNTEERS IN A VACCINE TRIAL WITH THOSE OF BACTERIA REISOLATED FROM THE VOLUNTEERS 10 WEEKS AFTER THE CHALLENGE. THE DATA PROVIDE MOLECULAR INSIGHTS INTO THE PROCESS OF ESTABLISHMENT OF THIS HIGHLY VERSATILE PATHOGEN IN 10 DIFFERENT HUMAN INDIVIDUAL HOSTS, SHOWING, FOR EXAMPLE, SELECTION FOR CHANGES IN HOST-INTERACTION MOLECULES AS WELL AS CHANGES IN EPIGENETIC METHYLATION PATTERNS. THE DATA PROVIDE IMPORTANT CLUES TO THE EARLY ADAPTATION OF H. PYLORI TO NEW HOST NICHES AFTER TRANSMISSION, WHICH WE BELIEVE IS VITAL TO UNDERSTAND ITS SUCCESS AS A CHRONIC PATHOGEN AND DEVELOP MORE EFFICIENT TREATMENTS AND VACCINES. 2020 5 4718 35 NON-TYPEABLE HAEMOPHILUS INFLUENZAE ISOLATES FROM PATIENTS WITH CHRONIC OBSTRUCTIVE PULMONARY DISEASE CONTAIN NEW PHASE-VARIABLE MODA METHYLTRANSFERASE ALLELES CONTROLLING PHASEVARIONS. PHASEVARIONS (PHASE-VARIABLE REGULONS) ARE EMERGING AS AN IMPORTANT AREA OF BACTERIAL GENE REGULATION. MANY BACTERIAL PATHOGENS CONTAIN PHASEVARIONS, WITH GENE EXPRESSION CONTROLLED BY THE PHASE-VARIABLE EXPRESSION OF DNA METHYLTRANSFERASES VIA EPIGENETIC MECHANISMS. NON-TYPEABLE HAEMOPHILUS INFLUENZAE (NTHI) CONTAINS THE PHASE-VARIABLE METHYLTRANSFERASE MODA, OF WHICH MULTIPLE ALLELIC VARIANTS EXIST (MODA1-21). WE HAVE PREVIOUSLY DEMONSTRATED 5 OF 21 THESE MODA ALLELES ARE OVERREPRESENTED IN NTHI STRAINS ISOLATED FROM CHILDREN WITH MIDDLE EAR INFECTIONS. IN THIS STUDY WE INVESTIGATED THE MODA ALLELE DISTRIBUTION IN NTHI STRAINS ISOLATED FROM PATIENTS WITH CHRONIC OBSTRUCTIVE PULMONARY DISEASE, COPD. WE DEMONSTRATE THAT THE DISTRIBUTION OF MODA ALLELES IN A LARGE PANEL OF COPD ISOLATES IS DIFFERENT TO THE DISTRIBUTION SEEN IN MIDDLE EAR INFECTIONS, SUGGESTING DIFFERENT MODA ALLELES MAY PROVIDE DISTINCT ADVANTAGES IN THE DIFFERING NICHES OF THE MIDDLE EAR AND COPD AIRWAYS. WE ALSO IDENTIFIED TWO NEW PHASE-VARIABLE MODA ALLELES - MODA15 AND MODA18 - AND DEMONSTRATE THAT THESE ALLELES METHYLATE DISTINCT DNA SEQUENCES AND CONTROL UNIQUE PHASEVARIONS. THE MODA15 AND MODA18 ALLELES HAVE ONLY BEEN OBSERVED IN COPD ISOLATES, INDICATING THAT THESE TWO ALLELES MAY BE MARKERS FOR ISOLATES LIKELY TO CAUSE EXACERBATIONS OF COPD. 2019 6 6317 25 THE RELEVANCE OF INTER- AND INTRASTRAIN DIFFERENCES IN MICE AND RATS AND THEIR IMPLICATIONS FOR MODELS OF SEIZURES AND EPILEPSY. IT IS BECOMING INCREASINGLY CLEAR THAT THE GENETIC BACKGROUND OF MICE AND RATS, EVEN IN INBRED STRAINS, CAN HAVE A PROFOUND INFLUENCE ON MEASURES OF SEIZURE SUSCEPTIBILITY AND EPILEPSY. THESE DIFFERENCES CAN BE CAPITALIZED UPON THROUGH GENETIC MAPPING STUDIES TO REVEAL GENES IMPORTANT FOR SEIZURES AND EPILEPSY. HOWEVER, STRAIN BACKGROUND AND PARTICULARLY MIXED GENETIC BACKGROUNDS OF TRANSGENIC ANIMALS NEED CAREFUL CONSIDERATION IN BOTH THE SELECTION OF STRAINS AND IN THE INTERPRETATION OF RESULTS AND CONCLUSIONS. FOR INSTANCE, MICE WITH TARGETED DELETIONS OF GENES INVOLVED IN EPILEPSY CAN HAVE PROFOUNDLY DISPARATE PHENOTYPES DEPENDING ON THE BACKGROUND STRAIN. IN THIS REVIEW, WE DISCUSS FINDINGS RELATED TO HOW THIS GENETIC HETEROGENEITY HAS AND CAN BE UTILIZED IN THE EPILEPSY FIELD TO REVEAL NOVEL INSIGHTS INTO SEIZURES AND EPILEPSY. MOREOVER, WE DISCUSS HOW CAUTION IS NEEDED IN REGARDS TO RODENT STRAIN OR EVEN ANIMAL VENDOR CHOICE, AND HOW THIS CAN SIGNIFICANTLY INFLUENCE SEIZURE AND EPILEPSY PARAMETERS IN UNEXPECTED WAYS. THIS IS PARTICULARLY CRITICAL IN DECISIONS REGARDING THE STRAIN OF CHOICE USED IN GENERATING MICE WITH TARGETED DELETIONS OF GENES. FINALLY, WE DISCUSS THE ROLE OF ENVIRONMENT (AT VENDOR AND/OR LABORATORY) AND EPIGENETIC FACTORS FOR INTER- AND INTRASTRAIN DIFFERENCES AND HOW SUCH DIFFERENCES CAN AFFECT THE EXPRESSION OF SEIZURES AND THE ANIMALS' PERFORMANCE IN BEHAVIORAL TESTS THAT OFTEN ACCOMPANY ACUTE AND CHRONIC SEIZURE TESTING. 2017 7 1118 43 COMPARATIVE GENOTYPING AND PHENOTYPING OF ASPERGILLUS FUMIGATUS ISOLATES FROM HUMANS, DOGS AND THE ENVIRONMENT. BACKGROUND: ASPERGILLUS FUMIGATUS IS A UBIQUITOUS SAPROTROPHIC FUNGUS AND AN OPPORTUNISTIC PATHOGEN OF HUMANS AND ANIMALS. HUMANS AND ANIMALS CAN INHALE HUNDREDS OF A. FUMIGATUS SPORES DAILY. NORMALLY THIS IS HARMLESS FOR HUMANS, BUT IN CASE OF IMMUNODEFICIENCY, INVASIVE PULMONARY ASPERGILLOSIS (IPA) CAN DEVELOP WITH A HIGH MORTALITY RATE. A. FUMIGATUS ALSO CAUSES NON-INVASIVE MYCOSES LIKE SINO-NASAL ASPERGILLOSIS (SNA) IN DOGS. RESULTS: IN THIS STUDY WE COMPARED A. FUMIGATUS ISOLATES FROM HUMANS WITH SUSPECTED IPA, DOGS WITH SNA, AND A SET OF ENVIRONMENTAL ISOLATES. PHYLOGENETIC INFERENCE BASED ON CALMODULIN (CAM) AND BETA-TUBULIN (BENA) SEQUENCES DID NOT REVEAL A. FUMIGATUS SUB-GROUPS LINKED TO THE ORIGIN OF THE ISOLATES. GENOTYPING AND MICROSATELLITE ANALYSIS SHOWED THAT EACH DOG WAS INFECTED BY ONE A. FUMIGATUS GENOTYPE, WHEREAS HUMAN PATIENTS HAD MIXED INFECTIONS. AZOLE RESISTANCE WAS DETERMINED BY ANTIFUNGAL SUSCEPTIBILITY TESTING AND SEQUENCING OF THE CYP51A GENE. A TOTAL OF 12 OUT OF 29 HUMAN ISOLATES AND 1 OUT OF 27 ENVIRONMENTAL ISOLATES WERE AZOLE RESISTANT. OF THE AZOLE RESISTANT STRAINS, 11 HUMAN ISOLATES SHOWED TR(34)/L98H (N = 6) OR TR46/Y121F/T289A (N = 5). PHENOTYPICALLY, ISOLATES FROM DOGS WERE MORE VARIABLE IN GROWTH SPEED AND MORPHOLOGY WHEN COMPARED TO THOSE ISOLATED FROM HUMAN AND THE ENVIRONMENT. CONCLUSIONS: 1. A. FUMIGATUS FROM DOGS WITH SNA ARE PHENOTYPICALLY VERY DIVERSE IN CONTRAST TO THEIR ENVIRONMENTAL AND HUMAN COUNTERPARTS. 2. PHENOTYPIC VARIABILITY CAN BE INDUCED DURING THE CHRONIC INFECTION PROCESS IN THE SINUS OF THE DOGS. THE BASIS OF THIS HETEROGENEITY MIGHT BE DUE TO GENOMIC DIFFERENCES AND/OR EPIGENETIC VARIATIONS. 3. DIFFERENCES IN DOGS IS A COULD BE A RESULT OF WITHIN-HOST ADAPTION AND MIGHT BE TRIGGERED BY ENVIRONMENTAL FACTORS IN THE SINUS, HOWEVER THIS HYPOTHESIS STILL NEEDS TO BE TESTED. 2018 8 5465 25 RESILIENCE TO STRESS: LESSONS FROM RODENTS ABOUT NATURE VERSUS NURTURE. INDIVIDUAL DIFFERENCES IN HUMAN TEMPERAMENT INFLUENCE HOW WE RESPOND TO STRESS AND CAN CONFER VULNERABILITY (OR RESILIENCE) TO EMOTIONAL DISORDERS. FOR EXAMPLE, HIGH LEVELS OF BEHAVIORAL INHIBITION IN CHILDREN PREDICT INCREASED RISK OF MOOD AND ANXIETY DISORDERS IN LATER LIFE. THE BIOLOGICAL UNDERPINNINGS OF TEMPERAMENT ARE UNKNOWN, ALTHOUGH IMPROVED UNDERSTANDING CAN OFFER INSIGHT INTO THE PATHOGENESIS OF EMOTIONAL DISORDERS. OUR LABORATORY HAS USED A RAT MODEL OF TEMPERAMENTAL DIFFERENCES TO STUDY NEURODEVELOPMENTAL FACTORS THAT LEAD TO A HIGHLY INHIBITED, STRESS VULNERABLE PHENOTYPE. SELECTIVE BREEDING FOR HIGH VERSUS LOW BEHAVIORAL RESPONSE TO NOVELTY CREATED TWO RAT STRAINS THAT EXHIBIT DRAMATIC BEHAVIOR DIFFERENCES OVER MULTIPLE DOMAINS RELEVANT TO EMOTIONAL DISORDERS. LOW NOVELTY RESPONDER (BLR) RATS EXHIBIT HIGH LEVELS OF BEHAVIORAL INHIBITION, PASSIVE STRESS COPING, ANHEDONIA, DECREASED SOCIABILITY AND VULNERABILITY TO CHRONIC STRESS COMPARED TO HIGH NOVELTY RESPONDERS (BHRS). ON THE OTHER HAND, BHRS EXHIBIT HIGH LEVELS OF BEHAVIORAL DIS-INHIBITION, ACTIVE COPING, AND AGGRESSION. THIS REVIEW ARTICLE SUMMARIZES OUR WORK WITH THE BHR/BLR MODEL SHOWING THE DEVELOPMENTAL EMERGENCE OF THE BHR/BLR PHENOTYPES, THE ROLE THE ENVIRONMENT PLAYS IN SHAPING IT, AND THE INVOLVEMENT OF EPIGENETIC PROCESSES SUCH AS DNA METHYLATION THAT MEDIATE DIFFERENCES IN EMOTIONALITY AND STRESS REACTIVITY. 2022 9 1790 27 EFFECT OF CHRONIC MILD STRESS ON HIPPOCAMPAL TRANSCRIPTOME IN MICE SELECTED FOR HIGH AND LOW STRESS-INDUCED ANALGESIA AND DISPLAYING DIFFERENT EMOTIONAL BEHAVIORS. THERE IS INCREASING EVIDENCE THAT MOOD DISORDERS MAY DERIVE FROM THE IMPACT OF ENVIRONMENTAL PRESSURE ON GENETICALLY SUSCEPTIBLE INDIVIDUALS. STRESS-INDUCED HIPPOCAMPAL PLASTICITY HAS BEEN IMPLICATED IN DEPRESSION. WE STUDIED HIPPOCAMPAL TRANSCRIPTOMES IN STRAINS OF MICE THAT DISPLAY HIGH (HA) AND LOW (LA) SWIM STRESS-INDUCED ANALGESIA AND THAT DIFFER IN EMOTIONAL BEHAVIORS AND RESPONSES TO DIFFERENT CLASSES OF ANTIDEPRESSANTS. CHRONIC MILD STRESS (CMS) AFFECTED EXPRESSION OF A NUMBER OF GENES COMMON FOR BOTH STRAINS. CMS ALSO PRODUCED STRAIN SPECIFIC CHANGES IN EXPRESSION SUGGESTING THAT HIPPOCAMPAL RESPONSES TO STRESS DEPEND ON GENOTYPE. CONSIDERABLY LARGER NUMBER OF GENES, BIOLOGICAL PROCESSES, MOLECULAR FUNCTIONS, BIOCHEMICAL PATHWAYS, AND GENE NETWORKS WERE AFFECTED BY CMS IN LA THAN IN HA MICE. THE RESULTS SUGGEST THAT POTENTIAL DRUG TARGETS AGAINST DETRIMENTAL EFFECTS OF STRESS INCLUDE GLUTAMATE TRANSPORTERS, AND CHOLINERGIC, CHOLECYSTOKININ (CCK), GLUCOCORTICOIDS, AND THYROID HORMONES RECEPTORS. FURTHERMORE, SOME BIOLOGICAL PROCESSES EVOKED BY STRESS AND DIFFERENT BETWEEN THE STRAINS, SUCH AS APOPTOSIS, NEUROGENESIS AND CHROMATIN MODIFICATIONS, MAY BE RESPONSIBLE FOR THE LONG-TERM, IRREVERSIBLE EFFECTS OF STRESS AND SUGGEST A ROLE FOR EPIGENETIC REGULATION OF MOOD RELATED STRESS RESPONSES. 2011 10 1156 32 CONSIDERING THE USE OF THE TERMS STRAIN AND ADAPTATION IN PRION RESEARCH. EVOLUTIONARY BIOLOGISTS AND DISEASE BIOLOGISTS USE THE TERMS STRAIN AND ADAPTATION IN CHRONIC WASTING DISEASE (CWD) RESEARCH IN DIFFERENT WAYS. IN EVOLUTIONARY BIOLOGY, A STRAIN IS A NASCENT GENETIC LINEAGE THAT CAN BE DESCRIBED BY A GENEALOGY, AND A PHYLOGENETIC NOMENCLATURE CONSTRUCTED TO REFLECT THAT GENEALOGY. PRION STRAINS ARE DESCRIBED AS SHOWING DISTINCT HOST RANGE, CLINICAL PRESENTATION, DISEASE PROGRESSION, AND NEUROPATHOLOGICAL AND PRP BIOCHEMICAL PROFILES, AND LACK INFORMATION THAT WOULD PERMIT PHYLOGENETIC RECONSTRUCTION OF THEIR HISTORY. PRION STRAINS ARE ALTERNATIVE PROTEIN CONFORMATIONS, SOMETIMES DERIVED FROM THE SAME GENOTYPE. I SUGGEST REFERRING TO PRION STRAINS AS ECOTYPES, BECAUSE THE VARIANT PHENOTYPIC CONFORMATIONS ("STRAINS") ARE A FUNCTION OF THE INTERACTION BETWEEN PRNP AMINO ACID GENOTYPE AND THE HOST ENVIRONMENT. IN THE CASE OF CWD, A PRION ECOTYPE IN WHITE-TAILED DEER WOULD BE DESCRIBED BY ITS GENOTYPE AND THE HOST IN WHICH IT OCCURS, SUCH AS THE H95 + ECOTYPE. HOWEVER, AN EVOLUTIONARY NOMENCLATURE IS DIFFICULT BECAUSE NOT ALL INDIVIDUALS WITH THE SAME PRNP GENOTYPE SHOW SIGNS OF CWD, THEREFORE CREATING A NOMENCLATURE REFLECTING AND ONE-TO-ONE RELATIONSHIP BETWEEN PRNP GENEALOGY AND CWD PRESENCE IS DIFFICULT. FURTHERMORE, VERY LITTLE INFORMATION EXISTS ON THE PHYLOGENETIC DISTRIBUTION OF CWD ECOTYPES IN WILD DEER POPULATIONS. ADAPTATION HAS A CLEAR MEANING IN EVOLUTIONARY BIOLOGY, THE DIFFERENTIAL SURVIVAL AND REPRODUCTION OF INDIVIDUAL GENOTYPES. IF A NEW PRION ECOTYPE ARISES IN A PARTICULAR HOST AND KILLS MORE HOSTS OR KILLS AT AN EARLIER AGE, IT IS THE ANTITHESIS OF THE EVOLUTIONARY DEFINITION OF ADAPTATION. HOWEVER, PRION STRAINS MIGHT BE TRANSMITTED ACROSS GENERATIONS EPIGENETICALLY, BUT WHETHER THIS REPRESENTS ADAPTATION DEPENDS ON THE FITNESS CONSEQUENCES OF THE STRAIN. PROTEIN PHENOTYPES OF PRNP THAT CAUSE TRANSMISSIBLE SPONGIFORM ENCEPHALOPATHIES (TSES), AND CWD, ARE MALADAPTIVE AND WOULD NOT BE PROPAGATED GENETICALLY OR EPIGENETICALLY VIA A PROCESS CONSISTENT WITH AN EVOLUTIONARY VIEW OF ADAPTATION. I SUGGEST TERMING THE PROCESS OF PRION STRAIN ORIGINATION "PHENOTYPIC TRANSFORMATION", AND ONLY ADAPTATION IF EVIDENCE SHOWS THEY ARE NOT MALADAPTIVE AND PERSIST OVER EVOLUTIONARY TIME PERIODS (E.G., THOUSANDS OF GENERATIONS) AND ACROSS DISTINCT SPECIES BOUNDARIES (VIA INHERITANCE). THUS, PRION BIOLOGISTS USE STRAIN AND ADAPTATION, HISTORICALLY EVOLUTIONARY TERMS, IN QUITE DIFFERENT WAYS. 2021 11 892 34 CHRONIC ETHANOL EXPOSURE ALTERS DNA METHYLATION IN NEURAL STEM CELLS: ROLE OF MOUSE STRAIN AND SEX. PRENATAL ALCOHOL EXPOSURE (PAE) IS CONSIDERED AS A RISK FACTOR FOR THE DEVELOPMENT OF FETAL ALCOHOL SPECTRUM DISORDERS (FASD). EVIDENCE INDICATES THAT PAE AFFECTS EPIGENETIC MECHANISMS (SUCH AS DNA METHYLATION) AND ALTERS THE NORMAL DIFFERENTIATION AND DEVELOPMENT OF NEURAL STEM CELLS (NSC) IN THE FETAL BRAIN. HOWEVER, PAE EFFECTS DEPEND ON SEVERAL FACTORS SUCH AS SEX AND STRAIN OF THE STUDIED SUBJECTS. HERE, WE INVESTIGATED WHETHER MURINE SEX AND STRAIN CONTRIBUTE TO THE EFFECTS OF CHRONIC ETHANOL EXPOSURE ON DNA METHYLATION MACHINERY OF DIFFERENTIATING NSC. FURTHER, THE EFFECTS OF PAE ON GLIAL LINEAGE (INCLUDING BOTH ASTROCYTES AND OLIGODENDROCYTES) IN A SEX- AND STRAIN-DEPENDENT MANNER HAVE NOT BEEN STUDIED YET. TO EXAMINE THE EFFECTS OF CHRONIC ETHANOL EXPOSURE ON GLIOGENESIS, WE EXPOSED DIFFERENTIATING NSC TO GLIO-INDUCTIVE CULTURE CONDITIONS. APPLYING A STANDARD IN VITRO MODEL SYSTEM, WE TREATED MALE AND FEMALE DIFFERENTIATING NSC (OBTAINED FROM THE FOREBRAIN OF CD1 AND C57BL/6 EMBRYOS AT EMBRYONIC DAY 14.5) WITH CHRONIC ETHANOL EXPOSURE (70 MM) FOR 8 DAYS. WE SHOW THAT ETHANOL INDUCES GLOBAL DNA HYPOMETHYLATION, WHILE ALTERING THE EXPRESSION OF DNA METHYLATION-RELATED GENES IN A SEX- AND STRAIN-SPECIFIC MANNER. THE OBSERVED CHANGE IN CELLULAR DNA METHYLATION LEVELS WAS ASSOCIATED WITH ALTERED EXPRESSION OF GLIAL MARKERS CNPASE, GFAP, AND OLIG2 IN CD1 (BUT NOT C57BL/6) CELLS. WE CONCLUDE THAT THE IMPACT OF ETHANOL EFFECT ON DNA METHYLATION IS DEPENDENT ON CELLULAR SEX AND STRAIN. ALSO, ETHANOL IMPACT ON NEURAL STEM CELL FATE COMMITMENT WAS ONLY DETECTED IN CELLS ISOLATED FROM CD1 MOUSE STRAIN, BUT NOT IN C57BL/6 CELLS. THE RESULTS OF THE CURRENT STUDY PROVIDE EVIDENCE THAT SEX AND STRAIN OF RODENTS (C57BL/6 AND CD1) DURING GESTATION ARE IMPORTANT FACTORS, WHICH AFFECT ALCOHOL EFFECTS ON NSC DIFFERENTIATION AND DNA METHYLATION. RESULTS OF THIS STUDY MAY ALSO HELP IN INTERPRETING DATA ON THE DEVELOPMENTAL TOXICITY OF MANY COMPOUNDS DURING THE GESTATIONAL PERIOD. 2020 12 5804 39 STRAIN AND SEX DEPENDENT EFFECTS OF ISOLATION HOUSING RELATIVE TO ENVIRONMENTAL ENRICHMENT ON OPERANT SENSATION SEEKING IN MICE. SENSATION SEEKING IS A MULTIDIMENSIONAL PHENOTYPE THAT PREDICTS THE DEVELOPMENT OF DRUG ADDICTION IN HUMANS AND ADDICTION-LIKE DRUG SEEKING IN RODENTS. SEVERAL LINES OF EVIDENCE SUGGEST THAT CHRONIC STRESS INCREASES SENSATION SEEKING AND ADDICTION-LIKE DRUG SEEKING THROUGH COMMON GENETIC MECHANISMS. DISCOVERY AND CHARACTERIZATION OF THESE MECHANISMS WOULD REVEAL HOW CHRONIC STRESS INTERACTS WITH THE GENOME TO INFLUENCE SENSATION SEEKING AND HOW DRUGS OF ABUSE HIJACK THESE FUNDAMENTAL REWARD MECHANISMS TO DRIVE ADDICTION. TO THIS END, WE TESTED THE HYPOTHESIS THAT CHRONIC ISOLATION HOUSING STRESS (RELATIVE TO ENVIRONMENTAL ENRICHMENT) INFLUENCES OPERANT SENSATION SEEKING AS A FUNCTION OF STRAIN, SEX, OR THEIR INTERACTION. TO DETERMINE IF THE BXD RECOMBINANT INBRED PANEL COULD BE USED TO IDENTIFY GENETIC AND EPIGENETIC MECHANISMS UNDERLYING ANY IDENTIFIED GENE-BY-ENVIRONMENT INTERACTIONS, WE USED MICE FROM THE TWO BXD FOUNDER STRAINS. FOLLOWING 10 WEEKS OF DIFFERENTIAL HOUSING, WE ASSESSED OPERANT SENSATION SEEKING USING SEVERAL REINFORCEMENT SCHEDULES. THE PRIMARY FINDING FROM THIS STUDY WAS THAT DBA/2J BUT NOT C57BL/6J MICE WERE SIGNIFICANTLY VULNERABLE TO AN ISOLATION-INDUCED INCREASE (RELATIVE TO ENVIRONMENTAL ENRICHMENT) IN SENSATION SEEKING DURING EXTINCTION WHEN THE SENSORY REWARD WAS NO LONGER AVAILABLE; THIS EFFECT WAS SIGNIFICANTLY MORE ROBUST IN FEMALES. THESE DATA REVEAL A PREVIOUSLY UNKNOWN ISOLATION-INDUCED EFFECT ON EXTINCTION OF OPERANT SENSATION SEEKING THAT IS SEX-DEPENDENT, ADDICTION-RELEVANT, AND THAT CAN BE DISSECTED USING THE BXD RECOMBINANT INBRED PANEL. 2021 13 3973 29 LONG-TERM BEHAVIORAL AND NEUROENDOCRINE ALTERATIONS FOLLOWING CHRONIC SOCIAL STRESS IN MICE: IMPLICATIONS FOR STRESS-RELATED DISORDERS. THE PERIOD OF ADOLESCENCE IS CHARACTERIZED BY A HIGH VULNERABILITY TO STRESS AND TRAUMA, WHICH MIGHT RESULT IN LONG-LASTING CONSEQUENCES AND AN INCREASED RISK TO DEVELOP PSYCHIATRIC DISORDERS. USING A RECENTLY DEVELOPED MOUSE MODEL FOR CHRONIC SOCIAL STRESS DURING ADOLESCENCE, WE STUDIED PERSISTENT NEUROENDOCRINE AND BEHAVIORAL EFFECTS OF CHRONIC SOCIAL STRESS OBTAINED 12 MONTHS AFTER CESSATION OF THE STRESSOR. AS A REFERENCE, WE INVESTIGATED IMMEDIATE EFFECTS OF CHRONIC STRESS EXPOSURE OBTAINED AT THE END OF THE CHRONIC STRESS PERIOD. IMMEDIATELY AFTER THE 7 WEEK CHRONIC STRESS PERIOD STRESSED ANIMALS SHOW SIGNIFICANTLY INCREASED ADRENAL WEIGHTS, DECREASED THYMUS WEIGHT, INCREASED BASAL CORTICOSTERONE SECRETION AND A FLATTENED CIRCADIAN RHYTHM. FURTHERMORE, STRESSED ANIMALS DISPLAY AN INCREASED ANXIETY-LIKE BEHAVIOR IN THE ELEVATED PLUS MAZE AND THE NOVELTY-INDUCED SUPPRESSION OF FEEDING TEST. HIPPOCAMPAL MINERALOCORTICOID RECEPTOR (MR) AND THE GLUCOCORTICOID RECEPTOR (GR) MRNA LEVELS WERE SIGNIFICANTLY DECREASED. TO INVESTIGATE PERSISTENT CONSEQUENCES OF THIS EARLY STRESSFUL EXPERIENCE, THE SAME PARAMETERS WERE ASSESSED IN AGED MICE 12 MONTHS AFTER THE CESSATION OF THE STRESSOR. INTERESTINGLY, WE STILL FOUND DIFFERENCES BETWEEN FORMERLY STRESSED AND CONTROL MICE IN IMPORTANT STRESS-RELATED PARAMETERS. MR EXPRESSION LEVELS WERE SIGNIFICANTLY LOWER IN STRESSED ANIMALS, SUGGESTING LASTING, POSSIBLY EPIGENETIC ALTERATIONS IN GENE EXPRESSION REGULATION. FURTHERMORE, WE OBSERVED LONG-TERM BEHAVIORAL ALTERATIONS IN ANIMALS STRESSED DURING ADOLESCENCE. THUS, WE COULD DEMONSTRATE THAT CHRONIC STRESS EXPOSURE DURING A CRUCIAL DEVELOPMENTAL TIME PERIOD RESULTS IN LONG-TERM, PERSISTENT EFFECTS ON PHYSIOLOGICAL AND BEHAVIORAL PARAMETERS THROUGHOUT LIFE, WHICH MAY CONTRIBUTE TO AN ENHANCED VULNERABILITY TO STRESS-INDUCED DISEASES. 2008 14 583 21 BEHAVIORAL DIFFERENCES OF MALE WISTAR RATS FROM DIFFERENT VENDORS IN VULNERABILITY AND RESILIENCE TO CHRONIC MILD STRESS ARE REFLECTED IN EPIGENETIC REGULATION AND EXPRESSION OF P11. OUTBRED RAT LINES SUCH AS WISTAR RATS ARE COMMONLY USED FOR MODELS OF DEPRESSIVE DISORDERS. SUCH RATS ARISE FROM RANDOM MATING SCHEDULES. HENCE, GENETIC DRIFT OCCURS IN OUTBRED POPULATIONS WHICH COULD LEAD TO GENOTYPIC AND PHENOTYPIC HETEROGENEITY BETWEEN RATS FROM DIFFERENT VENDORS. ADDITIONALLY, VENDOR SPECIFIC REARING CONDITIONS COULD CONTRIBUTE TO INTRASTRAIN VARIABILITY. IN THE PRESENT STUDY DIFFERENCES IN BEHAVIORAL RESPONSES TO THE CHRONIC MILD STRESS (CMS) MODEL OF DEPRESSION WITHIN WISTAR RAT STRAINS FROM DIFFERENT VENDORS ARE DESCRIBED. DNA METHYLATION STUDIES AND MRNA EXPRESSION ANALYSIS OF P11 REVEALED THAT THE BEHAVIORAL DIFFERENCES BETWEEN THE SUBSTRAINS ARE REFLECTED AT THE EPIGENETIC AND GENETIC LEVEL. THE RESULTS SUGGEST THAT THERE ARE BREEDER-DEPENDENT DIFFERENCES IN VULNERABILITY TO STRESS IN THE CMS MODEL OF DEPRESSION, WHICH MIGHT BEAR ON THE VALIDITY OF THE MODEL AND CONTRIBUTE TO CONTRADICTORY FINDINGS AND DIFFICULTIES OF REPLICATION BETWEEN LABORATORIES. P11 MRNA EXPRESSION SEEMS TO BE DIFFERENTLY REGULATED DEPENDING ON THE QUALITY OF THE STRESS RESPONSE EVOKED BY CMS EXPOSURE. 2016 15 1988 37 EPIGENETIC ANALYSIS IN A MURINE GENETIC MODEL OF GULF WAR ILLNESS. OF THE NEARLY 1 MILLION MILITARY PERSONNEL WHO PARTICIPATED IN THE 1990-1991 GULF WAR, BETWEEN 25% AND 35% BECAME ILL WITH WHAT NOW IS REFERRED TO AS GULF WAR ILLNESS (GWI) BY THE DEPARTMENT OF DEFENSE. SYMPTOMS VARIED FROM GASTROINTESTINAL DISTRESS TO LETHARGY, MEMORY LOSS, INABILITY TO CONCENTRATE, DEPRESSION, RESPIRATORY, AND REPRODUCTIVE PROBLEMS. THE SYMPTOMS HAVE PERSISTED FOR 30 YEARS IN THOSE AFFLICTED BUT THE BASIS OF THE ILLNESS REMAINS LARGELY UNKNOWN. NERVE AGENTS AND OTHER CHEMICAL EXPOSURES IN THE WAR ZONE HAVE BEEN IMPLICATED BUT THE LONG-TERM EFFECTS OF THESE ACUTE EXPOSURES HAVE LEFT FEW IF ANY IDENTIFIABLE SIGNATURES. THE MAJOR AIM OF THIS STUDY IS TO ELUCIDATE THE POSSIBLE GENOMIC BASIS FOR THE PERSISTENCE OF SYMPTOMS, ESPECIALLY OF THE NEUROLOGICAL AND BEHAVIORAL EFFECTS. TO ADDRESS THIS, WE PERFORMED A WHOLE GENOME EPIGENETIC ANALYSIS OF THE PROPOSED CAUSE OF GWI, VIZ., EXPOSURE TO ORGANOPHOSPHATE NEUROTOXICANTS COMBINED WITH HIGH CIRCULATING GLUCOCORTICOIDS IN TWO INBRED MOUSE STRAINS, C57BL/6J AND DBA/2J. THE ANIMALS RECEIVED CORTICOSTERONE IN THEIR DRINKING WATER FOR 7 DAYS FOLLOWED BY INJECTION OF DIISOPROPYLFLUOROPHOSPHATE, A NERVE AGENT SURROGATE. SIX WEEKS AFTER DFP INJECTION, THE ANIMALS WERE EUTHANIZED AND MEDIAL PREFRONTAL CORTEX HARVESTED FOR GENOME-WIDE DNA METHYLATION ANALYSIS USING HIGH-THROUGHPUT SEQUENCING. WE OBSERVED 67 DIFFERENTIALLY METHYLATED GENES, NOTABLY AMONG THEM, TTLL7, AKR1C14, SLC44A4, AND RUSC2, ALL RELATED TO DIFFERENT SYMPTOMS OF GWI. OUR RESULTS SUPPORT PROOF OF PRINCIPLE OF GENETIC DIFFERENCES IN THE CHRONIC EFFECTS OF GWI-RELATED EXPOSURES AND MAY REVEAL WHY THE DISEASE HAS PERSISTED IN MANY OF THE NOW AGING GULF WAR VETERANS. 2023 16 3934 33 LIVER TUMOR INDUCTION. THE SIGNIFICANCE OF THE DEVELOPMENT OF NODULAR LIVER LESIONS IN RODENTS FOLLOWING THE ADMINISTRATION OF TEST AGENTS RAISES SEVERAL QUESTIONS WHICH COULD BE PLACED IN ONE OF TWO GENERAL CATEGORIES: DIAGNOSTIC AND INTERPRETATIONAL. FROM A DIAGNOSTIC POINT OF VIEW, THE PROPER CLASSIFICATION OF LIVER TUMORS INTO A BENIGN AND MALIGNANT CATEGORY HAS TO BE BASED ON THE DIRECT CORRELATION BETWEEN THE MORPHOLOGY AND THE BIOLOGIC BEHAVIOR OF THE LESIONS. THEREFORE, EXTREME CARE SHOULD BE TAKEN TO SEPARATE THE MALIGNANT TUMORS FROM THE BENIGN AND THE BENIGN NEOPLASIA FROM THE HYPERPLASIA. THE SUBSTITUTION OF THE TERM "NEOPLASTIC NODULE" FOR HYPERPLASTIC NODULE IN RATS IS MISLEADING. MOST OF THESE NODULES, WHEN INDUCED UNDER SPECIAL EXPERIMENTAL CONDITIONS, MAY REGRESS OR REMODEL AND THUS THEY ARE NOT NEOPLASTIC IN NATURE. CHRONIC CARCINOGENICITY BIOASSAYS SHOULD INCLUDE "STOP" TYPE OF TREATMENT LEAVING ENOUGH OF THE OBSERVATIONAL TIME TO ESTABLISH THE FATE OF INDUCED NODULAR LESIONS. THE INDUCTION OF HISTOCHEMICALLY CHANGED FOCI CAN SERVE ONLY AS AN INDICATION OF POTENTIAL HEPATOCARCINOGENICITY AND SHOULD NOT BE EQUATED WITH THE INDUCTION OF BONA FIDE CANCER. THE BIOLOGIC INTERPRETATION OF NODULAR LIVER LESIONS, ESPECIALLY IN MICE, NEEDS FURTHER SCRUTINY BECAUSE THESE LESIONS HAVE A TENDENCY TO DEVELOP SPONTANEOUSLY WITH HIGH INCIDENCE IN SOME STRAINS. THIS CHARACTERISTIC THEN RAISES THE QUESTION AS TO THE MECHANISM BY WHICH VARIOUS AGENTS AUGMENT AND/OR ACCELERATE THE DEVELOPMENT OF SUCH TUMORS. IS THIS ACTION PRIMARILY PROMOTING OR INITIATING IN NATURE OR DOES IT REPRESENT THE INDUCTION OF TUMORS DE NOVO? THE ANSWER TO THIS DILEMMA MAY HAVE A DECISIVE BEARING ON CARCINOGENIC RISK ASSESSMENT AND THE TYPE OF REGULATORY ACTION, SINCE THE PROMOTING AGENTS POSSESS A THRESHOLD EFFECT AND THE PROMOTED CHANGES MAY REGRESS FOLLOWING WITHDRAWAL OF TREATMENT. THE INTERPRETATION OF HEPATOCARCINOGENESIS IS FURTHER COMPLICATED BY THE FACT THAT SEVERAL FACTORS, SUCH AS SEX HORMONAL ENVIRONMENT, INCREASED MITOTIC ACTIVITY FOLLOWING AN EXCESSIVE LOSS OF PARENCHYMAL CELLS, DEGREE OF CALORIC INTAKE, ENZYMATIC COMPLEMENT, AND ANIMALS' AGE AT THE TIME OF THE EXPOSURE TO A TEST AGENT, MAY INFLUENCE THE OUTCOME OF LIVER TUMOR DEVELOPMENT BY MODULATING "INITIATION" AND/OR "PROMOTION" OF CARCINOGENESIS. BROAD FLUCTUATION IN THE HISTORIC INCIDENCE OF LIVER TUMORS FURTHER COMPOUNDS THE COMPLEXITY OF THE PROPER BIOASSAY INTERPRETATION. THE SPECIFICALLY DESIGNED EXPERIMENTS MAY HAVE THE OBJECTIVE TO EXPLORE PREDOMINANTLY THE INITIATING OR PROMOTING EFFECTS OF THE AGENT. SUCH PROTOCOLS SHOULD BE USED WHENEVER NECESSARY TO DIFFERENTIATE BETWEEN THESE TWO MECHANISMS OF ACTION. IN THE CAUCASIANS, THE "SPONTANEOUS" DEVELOPMENT OF THE PRIMARY HEPATOCELLULAR TUMORS IS RARE. THE MAJORITY OF THESE TUMORS ARE MALIGNANT AND RAPIDLY FATAL. ACCORDING TO SOME HUMAN PATHOLOGISTS, THE BENIGN VARIETY OF LIVER TUMORS IS RARE AND IT DOES NOT REPRESENT NECESSARILY A PREMALIGNANT STAGE IN TUMOR DEVELOPMENT. CARCINOMA OF THE LIVER MAY OCCUR IN INFANCY, ESPECIALLY IN MALES BEFORE THE AGE OF 2 YEARS. THIS SUGGESTS A GENETIC CAUSATION OR CARCINOGENIC EXPOSURE IN UTERO. ONE OF THE GEOGRAPHIC FACTORS WHICH SIGNIFICANTLY ENHANCES THE INCIDENCE OF HEPATOCELLULAR CARCINOMA IN HUMANS IS EXPOSURE TO AFLATOXIN B(1) WHICH IS APPARENTLY POTENTIATED BY CONCURRENT LIVER CIRRHOSIS. BECAUSE MANY MORE AGENTS HAVE BEEN FOUND TO BE HEPATOCARCINOGENIC IN MICE AND RATS THAN IN MEN, A QUESTION ARISES AS TO THE DIRECT RELEVANCE OF RODENT STUDIES TO HUMANS. A BALANCED ASSESSMENT OF THE CARCINOGENICITY OF THE AGENT COULD ONLY BE REACHED IN CONSIDERING BOTH THE PHARMACOKINETICS AND THE DEVELOPMENT OF MALIGNANT NEOPLASIA IN OTHER ORGANS. IN THE CASE OF POSITIVE CARCINOGENICITY ASSESSMENT, THE OUTCOME OF THE MUTAGENICITY BIOASSAYS CAN SUGGEST GENIC (GENOTOXIC) OR PARAGENIC (EPIGENETIC) MODE OF ACTION IN MAMMALIAN SYSTEMS. 1982 17 2445 24 EPIGENETIC STATUS OF GDNF IN THE VENTRAL STRIATUM DETERMINES SUSCEPTIBILITY AND ADAPTATION TO DAILY STRESSFUL EVENTS. STRESSFUL EVENTS DURING ADULTHOOD ARE POTENT ADVERSE ENVIRONMENTAL FACTORS THAT CAN PREDISPOSE INDIVIDUALS TO PSYCHIATRIC DISORDERS, INCLUDING DEPRESSION; HOWEVER, MANY INDIVIDUALS EXPOSED TO STRESSFUL EVENTS CAN ADAPT AND FUNCTION NORMALLY. WHILE STRESS VULNERABILITY MAY INFLUENCE DEPRESSION, THE MOLECULAR MECHANISMS UNDERLYING THE SUSCEPTIBILITY AND ADAPTATION TO CHRONIC STRESS WITHIN THE BRAIN ARE POORLY UNDERSTOOD. IN THIS STUDY, TWO GENETICALLY DISTINCT MOUSE STRAINS THAT EXHIBIT DIFFERENT BEHAVIORAL RESPONSES TO CHRONIC STRESS WERE USED TO DEMONSTRATE HOW THE DIFFERENTIAL EPIGENETIC STATUS OF THE GLIAL CELL-DERIVED NEUROTROPHIC FACTOR (GDNF) GENE IN THE VENTRAL STRIATUM MODULATES SUSCEPTIBILITY AND ADAPTATION TO CHRONIC STRESS. OUR RESULTS SUGGEST THAT THE HISTONE MODIFICATIONS AND DNA METHYLATION OF THE GDNF PROMOTER HAVE CRUCIAL ROLES IN THE CONTROL OF BEHAVIORAL RESPONSES TO CHRONIC STRESS. OUR DATA PROVIDE INSIGHTS INTO THESE MECHANISMS, SUGGESTING THAT EPIGENETIC MODIFICATIONS OF GDNF, ALONG WITH GENETIC AND ENVIRONMENTAL FACTORS, CONTRIBUTE TO BEHAVIORAL RESPONSES TO STRESS. 2011 18 6528 34 TRANSCRIPTIONAL CORRELATES OF CHRONIC ALCOHOL NEUROADAPTATION IN DROSOPHILA LARVAE. WHEN PRESENTED WITH THE CHOICE, DROSOPHILA MELANOGASTER FEMALES WILL OFTEN PREFER TO LAY EGGS ON FOOD CONTAINING A SIGNIFICANT AMOUNT OF ALCOHOL. WHILE, IN SOME CASES, THIS BEHAVIORAL DECISION CAN PROVIDE A SURVIVAL ADVANTAGE TO THE DEVELOPING LARVAE, IT CAN ALSO LEAD TO DEVELOPMENTAL AND COGNITIVE PROBLEMS. ALCOHOL CONSUMPTION CAN AFFECT EXECUTIVE FUNCTIONS, EPISODIC MEMORY, AND OTHER BRAIN FUNCTION CAPACITIES. HOWEVER, IN THE FRUIT FLY, THE INITIAL COGNITIVE EFFECTS OF ALCOHOL CONSUMPTION HAVE BEEN SHOWN TO REVERSE UPON PERSISTENT EXPOSURE TO ALCOHOL. USING AN OLFACTORY CONDITIONING ASSAY WHERE AN ODORANT IS IMPLEMENTED AS A CONDITIONED STIMULUS AND PAIRED WITH A HEAT SHOCK AS AN UNCONDITIONED STIMULUS, A PREVIOUS STUDY HAS SHOWN THAT WHEN EXPOSED TO A SHORT ACUTE DOSE OF ALCOHOL, DROSOPHILA LARVAE CAN NO LONGER LEARN THIS ASSOCIATION. INTERESTINGLY, UPON PROLONGED CHRONIC ALCOHOL EXPOSURE, LARVAE SEEM TO SUCCESSFULLY AVOID THE CONDITIONED STIMULUS JUST AS WELL AS CONTROL ALCOHOL-NAIVE LARVAE, SUGGESTIVE OF ALCOHOL-INDUCED NEUROADAPTATIONS. HOWEVER, THE MECHANISMS BY WHICH DROSOPHILA ADAPT TO THE PRESENCE OF ALCOHOL REMAINS UNKNOWN. IN THIS STUDY, WE EXPLORE THE TRANSCRIPTIONAL CORRELATES OF NEUROADAPTATION IN DROSOPHILA LARVAE EXPOSED TO CHRONIC ALCOHOL TO UNDERSTAND THE GENETIC AND CELLULAR COMPONENTS RESPONSIBLE FOR THIS ADAPTATION. FOR THIS, WE EMPLOYED RNA SEQUENCING TECHNOLOGY TO EVALUATE DIFFERENCES IN GENE EXPRESSION IN THE BRAIN OF LARVAE CHRONICALLY EXPOSED TO ALCOHOL. OUR RESULTS SUGGEST THAT ALCOHOL-INDUCED NEUROADAPTATIONS ARE MODULATED BY A DIVERSE ARRAY OF SYNAPTIC GENES WITHIN THE LARVAL BRAIN THROUGH A SERIES OF EPIGENETIC MODULATORS. 2021 19 4943 31 PATERNAL PRECONCEPTION ALCOHOL EXPOSURE IMPARTS INTERGENERATIONAL ALCOHOL-RELATED BEHAVIORS TO MALE OFFSPRING ON A PURE C57BL/6J BACKGROUND. WHILE ALCOHOL USE DISORDER (AUD) IS A HIGHLY HERITABLE CONDITION, THE BASIS OF AUD IN FAMILIES WITH A HISTORY OF ALCOHOLISM IS DIFFICULT TO EXPLAIN BY GENETIC VARIATION ALONE. EMERGING EVIDENCE SUGGESTS THAT PARENTAL EXPERIENCE PRIOR TO CONCEPTION CAN AFFECT INHERITANCE OF COMPLEX BEHAVIORS IN OFFSPRING VIA NON-GENOMIC (EPIGENETIC) MECHANISMS. FOR INSTANCE, MALE C57BL/6J (B6) MICE EXPOSED TO CHRONIC INTERMITTENT VAPOR ETHANOL (CIE) PRIOR TO MATING WITH STRAIN 129S1/SVIMJ ETHANOL-NAIVE FEMALES PRODUCE MALE OFFSPRING WITH REDUCED ETHANOL-DRINKING PREFERENCE, INCREASED ETHANOL SENSITIVITY, AND INCREASED BRAIN-DERIVED NEUROTROPHIC FACTOR (BDNF) EXPRESSION IN THE VENTRAL TEGMENTAL AREA (VTA). IN THE PRESENT STUDY, WE TESTED THE HYPOTHESIS THAT THESE INTERGENERATIONAL EFFECTS OF PATERNAL CIE ARE REPRODUCIBLE IN MALE OFFSPRING ON AN INBRED B6 BACKGROUND. TO THIS END, B6 MALES WERE EXPOSED TO 6 WEEKS OF CIE (OR ROOM AIR AS A CONTROL) BEFORE MATING WITH ETHANOL-NAIVE B6 FEMALES TO PRODUCE ETHANOL (E)-SIRED AND CONTROL (C)-SIRED MALE AND FEMALE OFFSPRING. WE OBSERVED A SEX-SPECIFIC EFFECT, AS E-SIRED MALES EXHIBITED DECREASED TWO-BOTTLE FREE-CHOICE ETHANOL-DRINKING PREFERENCE, INCREASED SENSITIVITY TO THE ANXIOLYTIC EFFECTS OF ETHANOL, AND INCREASED VTA BDNF EXPRESSION; NO DIFFERENCES WERE OBSERVED IN FEMALE OFFSPRING. THESE FINDINGS CONFIRM AND EXTEND OUR PREVIOUS RESULTS BY DEMONSTRATING THAT THE EFFECTS OF PATERNAL PRECONCEPTION ETHANOL ARE REPRODUCIBLE USING GENETICALLY IDENTICAL, INBRED B6 ANIMALS. 2017 20 5752 26 SOCIAL ISOLATION AND SOCIAL SUPPORT AT ADULTHOOD AFFECT EPIGENETIC MECHANISMS, BRAIN-DERIVED NEUROTROPHIC FACTOR LEVELS AND BEHAVIOR OF CHRONICALLY STRESSED RATS. EPIGENETIC MODULATION OF BRAIN-DERIVED NEUROTROPHIC FACTOR (BDNF) PROVIDES ONE POSSIBLE EXPLANATION FOR THE DYSFUNCTIONS INDUCED BY STRESS, SUCH AS PSYCHIATRIC DISORDERS AND COGNITIVE DECLINE. INTERESTINGLY, SOCIAL SUPPORT CAN BE PROTECTIVE AGAINST SOME OF THESE EFFECTS, BUT THE MECHANISMS OF SOCIAL BUFFERING ARE POORLY UNDERSTOOD. CONVERSELY, EARLY ISOLATION EXACERBATES THE RESPONSES TO STRESSORS, ALTHOUGH ITS EFFECTS IN ADULTHOOD REMAIN UNCLEAR. THIS STUDY INVESTIGATED THE EFFECTS OF SOCIAL ISOLATION AND SOCIAL BUFFERING ON HIPPOCAMPAL EPIGENETIC MECHANISMS, BDNF LEVELS AND BEHAVIORAL RESPONSES OF CHRONICALLY STRESSED YOUNG ADULT RATS. MALE WISTAR RATS (3 MONTHS) WERE ASSIGNED TO ACCOMPANIED (PAIRED) OR ISOLATED HOUSING. AFTER ONE-MONTH HALF OF EACH GROUP WAS SUBMITTED TO A CHRONIC UNPREDICTABLE STRESS (CUS) PROTOCOL FOR 18 DAYS. AMONG ACCOMPANIED ANIMALS, ONLY ONE WAS EXPOSED TO STRESS. BEHAVIORAL ANALYSIS ENCOMPASSED THE OPEN FIELD, PLUS MAZE AND INHIBITORY AVOIDANCE TASKS. HIPPOCAMPAL H3K9 AND H4K12 ACETYLATION, HDAC5 EXPRESSION AND BDNF LEVELS WERE EVALUATED. ISOLATED HOUSING INCREASED HDAC5 EXPRESSION, DECREASED H3K9 AND H4K12 ACETYLATION, REDUCED BDNF LEVELS, AND IMPAIRED LONG-TERM MEMORY. STRESS AFFECTED WEIGHT GAIN, INDUCED ANXIETY-LIKE BEHAVIOR AND DECREASED ACK9H3 LEVELS. INTERACTIONS BETWEEN HOUSING CONDITIONS AND SOCIAL STRESS WERE SEEN ONLY FOR HDAC5 EXPRESSION, WHICH SHOWED A FURTHER INCREASE IN THE ISOLATED + CUS GROUP BUT REMAINED CONSTANT IN ACCOMPANIED ANIMALS. IN CONCLUSION, SOCIAL ISOLATION AT ADULTHOOD INDUCED EPIGENETIC ALTERATIONS AND EXACERBATED THE EFFECTS OF CHRONIC STRESS ON HDAC5. NOTWITHSTANDING, SOCIAL SUPPORT COUNTERACTED THE ADVERSE EFFECTS OF STRESS ON HDAC5 EXPRESSION. 2019