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Characterization of the Clinical and Molecular Perspectives of Epigenetics

Review Article | DOI: https://doi.org/10.31579/2834-8087/003

Characterization of the Clinical and Molecular Perspectives of Epigenetics

  • Chrysanthus Chukwuma Sr

Executive Director the Chrysanthus Centre for Future-Oriented Studies Abakaliki, Ebonyi State, Nigeria.

*Corresponding Author: Chrysanthus Chukwuma Sr, Executive Director the Chrysanthus Centre for Future-Oriented Studies Abakaliki, Ebonyi State, Nigeria.

Citation: Chrysanthus Chukwuma Sr (2022). Characterization of the Clinical and Molecular Perspectives of Epigenetics. Archives of Clinical Investigation, 1(1) DOI:10.31579/2834-8087/003

Copyright: © 2022 Chrysanthus Chukwuma Sr, This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Received: 28 September 2022 | Accepted: 07 October 2022 | Published: 12 October 2022

Keywords: epigenesis; preformation; philosophy; epigenome; gwas; ewas; ageing; senescence; Covid-19; diabetes; obesity; therapy

Abstract

This review provides the latitude to examine the extant information in the univeral characterizations of epigenetic formulations. Epigenetics encompasses the interaction of behaviours and environment culminating in changes which influence  gene activity. In contrast to genetic modifications, epigenetic modifications are reversible;  and do  not  alter  the  DNA sequence  but  are capable  of  interferring in  the  way the DNA  sequence  is read.  Epigenetic  alterations involve  genetic  changes which  effect  gene functionality  without modifying  the  underlying DNA  sequence.  DNA methylation  depicts  the covalent superimposed  methyl  group to  cytosine  in CpG  dinucleotides.  DNA methylation presents  as  a veritable  epigenetic  modification; and  it  governs gene  expression  by changing chromosome structure,  DNA  conformation and  stability  as well  as  the function  trajectory between DNA and protein. DNA methylation regulates gene expression via the conscription of proteins  associated  with gene  expression  or by  the  inhibition of  the  binding of  transcription factor(s)  to DNA.  Whereas  genetic alterations  do  modify protein  formation,  it is  clear  that epigenetic alterations impact on gene expression to put genes ''on'' and ''off'', as appropriate. The resultant  impact of environmental  and anthropogenic  idiosyncracies,  such as diet  and physical activity  are liable  to  induce epigenetic  modifications  in behaviours  and  gene-environment interactions.  Genes are  not  always in  functional  mode. DNA  methylation  constitutes a  select epigenetic  process applied  by  cells for  the  control of  gene  expression. within  the  genome. Alterations  in gene  activity  and epigenetic  errors  can result  in  varying genetic,  metabolic  and degenerative  disorders which  may  disparately or  in  comorbid presentaions  influence  inter alia health, gene activity or expression, protein production and functionality. This entry exemplifies the reading and understanding of epigenetics in relation to inter alia beneficial developmental theories within the human race.

Introduction

Diverse disciplines have inculcated epigenetics  in the evaluation of organism-environment or gene-environment interactions with particular reference to the application of genetic information within the life span of a person and transgenerational inheritance. Epigenetics is a science discipline engulfed in the genetic and non-genetic spheres correlated to heritable   phenotypic  modifications,   DNA   methylation  and  regulation   of gene  expression. Epigenetic modifications are DNA alterations which regulate the turning ''on'' and ''off'' regarding genes.  These changes  are  attached to  genes,  and do  not  lead to  the  alteration of  the  building blocks  of the  DNA  [1]. In  the  genome that  constitutes  the complete  set  of cellular  DNA,  the epigenome regulates gene expression. Epigenetic changes aid in the determination of the turning
''on'' or ''off'' regarding genes by influencing cell protein production. The regulation correlates to specificity  and  uniqueness of  protein  production by  cells  appropriate to  its  functionality,  such that proteins which promote muscle growth and development are not produced in hepatic cells. There  are differences  or  variations in  epigenetic  modifications between  persons,  tissues, and disparate cells within the same tissue.  Epigenetic modifications can be sustained from one cell to the other during cell division. The environment, such as  diet [1, 2], pollutant or irritant exposure or  vulnerability  can impact  the  epigenome;  and  in  certain  instances  be  inherited within generations  or  gene-environment  interactions [3].  Instances  of mechanisms  which  enact such changes are DNA methylation and histone modification; and as may be implicated or evident in coronavirus infection [4-6]  The principal epigenetic processes involve DNA methylation, histone alterations and non-coding RNA. These mechanisms are established in patterned regulation of tissue-specific gene expression, cell differentiation and imprinting of the genome. 
DNA methylation and histones in epigenetic essence
Thus, a univerally acknowledged form of epigenetic change is DNA methylation that involves the attachment of the methyl group of one carbon and three hydrogen atoms to DNA building blocks.  The occurrence  of  methyl groups  in  a gene,  results  in the  gene  being turned  off  or suppressed, leading to non-production of protein. A significant epigenetic feature realizable  in the genome of higher eukaryotes is DNA methylation in the C-5 position of the cytosine ring. Depending on the DNA methylation locus, it may function as a suppressive or activation site for gene  expression. Thus,    DNA  methylation is  a  prime control  programne  in gene  expression modulation  within numerous  organisms. Gene silencing  results  from methylation  due to DNA methyltransferases which transfer a methyl group from S-adenosyl-L-methionine to the cytosine carbon 5 position [7]. As developmental stages progress, DNA methylation presentation in the genome   vary  due   to   regulated  compliance   between   de  novo   DNA   methylation  and demethylation.  Consequently,   a   unique  DNA   formation   that  drives   tissue-specific   gene expression  is inculcated  and  acquired by  differentiated  cells. Inasmuch  as,  DNA methylation ostensibly  poses  as a  stable  epigenetic mark,  it  is perspicuously  fragile,  with an  intricate complexity in the interaction of epigenome,  genome and other pertinent  environmental  factors during  life progression  antecedent  to delivery.  The  characteristic  of DNA  methylation  in  an individual   dynamically   varies  due  to  environmental   factors during  germ  cell  production, embryogenesis and  post-delivery  exposure. During  development  phases, the  dissipation  of balances in DNA methylation may culminate in imprinting health aberrations, with nonspecified loci  to increased  susceptibility  to diverse  disorders.  The epigenome  uniquely  drives lifetime experiences ab initio en utero  and present future opportunities in the improvisation of clinical applications [8].
Histones are  structural  proteins present  in  the cell  nucleus.  DNA encloses  histones  with resultant configuration of their forms. Histone modification is due to either the introduction or excision  of methyl  or  acethyl groups,  each  made up  of  two carbon,  three  hydrogen and  one oxygen atoms. These chemical groups determine the wrapped fortification of DNA on histones that  impacts gene  suppression  or not.  DNA  methylation may  either  inhibit binding  of  the transcription  machinery or  formulate  a platform  appropriate  for transcription,  as  evident in  a crosstalk   with  histone   modifiers   [8].  Definable   errors   in  the   epigenetic   process  due   to modification of the inappropriate gene or neglect to attach a chemical group to a specific gene or histone    may    culminate   in    aberrant    gene   functionality    or    outright   nonfunctionality. Unequivocally,  histone   modification   is  an   additional   ubiquitous  aetiology   of   epigenetic alteration.  Alteration in  gene  activity, in  addition  to that  engendered  via epigenetic  errors, constitutes  a  common aetiology  of genetic  disorders, with  tumors, metabolic  and degenerative diseases implicated in epigenetic untoward presentations. Exploration to explicate and elucidate the  interrelatedness  between the  genome  and the  chemical  moieties which  contribute  to  its modification are being intensified, especially, to unravel the impacts of epigenetic changes and aberrations in ageing, gene functionality, protein production, environment and health [9].
Epigenetics constitutes the reversible heritable mechanisms which result in the absence of any modification  of the  underlying  DNA sequence.  Even  though, chromosomes  in  the human genome convey genetic information, the epigenome has the task for the functional utlization and stabilization of that veritable or vital information that correlates the genotype with the phenotype [1].  These epigenetic  alterations  may occur  spontaneously  or governed  by  extraneous or  inate forces.

Epigenetics and ageing
The rate of aging is morw or less governed by evolutionarily conserved genetic pathways, enviromental facyors and biological mechanisms. Ageing  in  epigenetics relates  to  the functional  and  biological importance  of  the epigenetic changes which accumulate as ageing progresses, and are critical in tumorigenesis. Paradigmatic instances are extant due to the global dissipation of DNA methylation in ageing and cancer as 
well as via the promoter hypermethylation of genes with dual functionality in tumor suppression and progeria, such as the Werner syndrome (WRN) and lamin A/C genes [10]. Also sirtuins, a family  of NAD-dependent deacetylases act on Lys16 of histone H4 as a link between cellular transformation and lifespan.
Ageing involves intricately complex multifactorial biological, chemical and physical processes, gene-environment interactions [3] or disparately by genes or environment exhibited by all biota. Spatiotemporally,  it  is depicted  by  premature, gradual  or  accelerated decline  in  structural- functional  perspectives. Organismal  aging  is significant  in  human health  in  correlation to vulnerability  and  susceptibility  to diverse  diseases,  such as  diabetes,  metabolic and  other endocrine  disorders as  well  as cancer,  cardiovascular  and neurodegenerative  debilities  [11]. Conversely,   cellular  or   replicative   senescence  is   a   specialized  and   potential   endogenous anticancer  mechanism whereby  there  is irreversible  growth  obliteration due  to  response of potential  oncogenic  stimuli [12].  It  is a  potential  driver in  tissue  remodelling in  embryonic development  and in  the  aftermath of  tissue  derangement that  necessitates  proliferation arrest [13].   Cellular   senescence  shares   several   similarities   as  ageing   but   with  contrasting characteristics. Ageing and diabetes result in identical organ and system perturbations which are supported concurrently by molecular processes and cellular senescence. Cellular is basically an ageing mechanism implicated in numerous ageing-related diseases, and is significantly involved in  the aetiology  of  tissue degradation,  Senescent  cells agggregation  occurs  during the  ageing process: It is not clear how senescence contributes to diabetes pathogenesis  [14].
Epigenetic change depicts a critical underlying mechanism  in perspicuous in impaired  cellular activities during ageing and age-related diseases. Patterns of DNA methylation are determined by  the de  novo  DNA methyltransferases  DNMTs  being DNMT3A  and  DNMT3B, which  are eventually  sustained by  DNMY1  [7].  Ageing  and age-associated  aberrations  involve unique alterations   in   5-methylcytosine   concentration   with  usual   characterization   of  genome-wide hypomethylation and promoter-defined hypermethylation. These modifications in the epigenetic domain reflect  potential  disease biomarkers  and  contribute to  age-linked  disorders. Certain diseases,  such  as a  hereditary  type of  sensory  neuropathy with  concomitant  dementia are incontrovertibly  due  to methylomic  modifications.  Epigenetic information  and  alterations are reversible since they are determined by enzymes; and thus, epigenetics is a potential target for therapeutic  interventions in  contrast  to genetic  alterations  which are  irreversible  in humans. Drugs  which  target-specific  for DNMTs  included  5-azacytidine for  rejuvenation  [7]. The repercussions of epigenetic alterations in ageing are modified locus access to the genetic material with resultant  untoward  gene expression,  reactivation  of  transposable  elements as  well  as genomic instability [15].   A transposable element (TE, transposon, or jumping gene) is a DNA nucleic  acid   sequence   in  DNA   capable   of  changing   its   position  within   a   genome,  and periodically creating or reversing mutations and modifying the genetic identity and genome size of the cell. Transposition frequently occurs in the duplication of the same genetic material.
These epigenetic progressive alterations to epigenetic information run concurrently with ageing in  both dividing  and  nondividing cells  as  epigenetic changes  have  expansive influence  in  the ageing process,  with  occurrence at  diverse  levels, including  decreased  bulk levels  of  core histones, modified arrangements of histone posttranslational changes and methylation of DNA, canonical histone substitution with histone variants, and modified noncoding RNA expression in both  organismal  chronological ageing  and  replicative or  cellular  senescence [15].  Certain varieties   of  epigenetic   information   may  influence   the   lifespan  of   the   offspring  in   a transgenerational  way [15]. it is  sugggested that  lifespan is more epigenetically  predetermined
than genetically predetermined. Also, that diet and other environmental factors influence lifespan through  epigenetic information  alterations;  and epigenetic  enzyme  inhibitors may  drive  the lifespan of model organisms.   Epigenetics studies tend to postulate that it is not nature versus nurture rather nature plus nurture, enforcing the obliteration of genetic determinism. Irrespective of  the  epigenome   stance,   it  ostensibly   does  not  translate   across   generations  in  essence. Researchers are exploiting the sphere of the epigenome in order to explicate the manner in which lifestyle factors including alcohol, obesity and smoking dictate cancer risk.
Epigenetic markers, clocks and ageing
Epigenetic clocks depend on algorithms in calculating biological age, basically on the read-out of the magnitude in which various loci traversing the genome of an individual are bound by methyl groups, an instance of epigenetic alteration. DNA hypomethylation, the decrement in universal DNA methylation is probably due to methyl- deficiency from diverse environmental factors which have been postulated as a molecular marker in cancer and other biological processes [17]. The determination of the 5-mC concentration or global methylation in deteriorated or environmentally affected cells may provide the latitude for veritable  data   for   disease  detection   and   analysis.  The   detection   of  DNA   demethylation intermediate, 5-fC in diverse cells and tissues is applicable as a marker for indication of active DNA  demethylation.  Direct 5-fC  excision  by thymine DNA  glycosylase,  TDG for  subsequent base  excision repair,  BER  processing that  reverts  altered cytosine  to  its unaltered  form. Differentially  methylated  regions, DMRs  are  DNA spheres  which  present critically  different methylation status among numerous samples. Genome-wide methylation profiling is frequently conducted for the identification of DMRs among treated and untreated samples to unravel active areas  which  are associated  with  regulation of  gene  transcription due  to  inter alia  DMRs specificity to cells, tissues and individuals. DMRs are feasible as biomarkers or potential targets for epigenetic therapy [17].
Epigenetic   clocks  encompass   a   set  of   CpG   sites  with   determined   DNA   methylation concentrations correlate  to individual  age [18]. The clocks are recognisably esteemed accurate molecular correlate with chronological age in humans and other vertebrates, and quantification potential in rates of biological ageing as well as longevity tests and rejuvenating interventions. These  unravel  issues and  opportunities  to elucidate  clock  mechanisms and  biochemical  utility which necessitate  exploiting  or exploring  nonhuman  models, epigenomic  marks,  population studies, drivers and regulators of age-associated modifications in single-cell, tissue- and disease- specific  models, as  well  as ethical  issues  in forensic  age  determination and  prediction  of chronological  aging trajectory  in  a person  [18].  Research suggested  evidence,  particularly, epigenetics for genome-wide DNA methylation changes in ageing and age-related disorders [19]. Epigenetic clocks which determine alterations in a limited hundred specific CpG loci can predict chronological  age  accurately in  an  expansive range  of  species;   and  credible  biomarkers for mortality  prediction  in humans.  The  impacts of  ageing  across the  methylome  in an  expansive array  of human  and  mice tissues  exhibited  age-related hyper-  or hypo-methylation  alterations. There is the tendency for the DNA methylation age-related changes to be enriched and deficient in  specific genomic  contexts,  with certain  similarities  among tissues  and  species necessitating further research [19]. The indefatigable proof that the age-related changes in DNA methylation contribute to ageing emanates from anti-ageing interventions, such as caloric restriction [3, 20], dwarfism  and rapamycin  application  in mice  [20].  The anti-ageing  interventions  retard the epigenetic  clocks  with reversal  and/or  obliteration of  reasonable  age-related modifications  in DNA  methylation. Genome-wide  maps  [21] of  DNA  methylation can  be  generated to  track biological ageing, that is distinct from chronological ageing. The initial epigenetic clocks were determined  regarding  blood which  depicted  significant relationships  with  blood pressure  and lipid concentrations, which are other variables of blood ageing. However, the epigenetic ageing signature differs in disparate tissues [22], and thus, these observations cannot be extrapolated to the kidney, for instance. It will be interesting to configure tissue-specific epigenetic clocks which may correlate with other ageing indicators. These may expose robust divergence regarding the aetiology,  expanse,  mechanisms, consequence,  and genes  disrupted  in the  pathological  process for the development of novel diagnostic tools and clinical applications. These technologies may generate expansive data concerning the modification of genetic material in the present and in the future.
Epigenetics  is observed to  be divergent to genetics  but  they are both inextricably-linked,  with incessant research to elucidate the relationship per Jonathan Mill [23]. The environmental role in shaping the genome may have been exaggerated because cells have the self-preservation to self- insulate   from  environmental   assault   per  Adrian   Bird   [23].  Transgenerational   epigenetic inheritance prevails in the mention of epigenetics in terms of the nuances and complexities of human  health  and disorders.  The  accumulated marks  in  somatic cells  provide  expansive information   regarding  these   spheres   of  influence   and   mechanisms  as   modeled   for  the environment or lifestyle. Epigenetics has been defined as chromatin alterations with inclusion of RNA alterations.  Besides  DNA methylation,  DNA  can undergo  hydroxymethylation,  while modification can also be exerted on proteins in the chromatin complex. It has been postulated that  the ageing  process  is reversible.  Despite  the lifestyle,  the  internal clock  causes  certain individuals  to age  rapidly  and    die  early.  Also, it  is  suggested via  epigenome  study that  the biological scars of traumatic experiences are passed on to their children [23], thus suggesting that DNA is not merely the mode of biological inheritance in organisms, and that acquired traits are inheritable, however, researchers are more interested in its potential to determine disease risk. As the  full complement  of  genes are  received  in conception  without  modification until  death,  the information  is conceivably  transmitted  through ''epigenetic  marks''  as chemical  tags  on genes which  dial  gene output  up  or down  [23].  The  transgenerational  epigenetic inheritance phenomenon does not provide compelling evidence by any realisable physiological phenomenon for it to function, excepting in rare genetic disorders, definable genetic marks are deleted from the genetic material of the ovum and sperm of humans in fertilization following nuclei fusion. The nascent epigenetic configurations are determined in every generation. It has been well-nigh impossible to  estrange  the genetic,  epigenetic  and environmental  spheres  to traits  inherited. Neuroepigenetics  depicted  critical impact  in  the spheres  of  learned behaviour,  addiction, cognition neurotoxicology and psychopathology with tendency towards fascinating indictments rather than established or veritable findings [24].
Epigenetics and certain diseases
Numerous human  diseases  are connected  with  complex gene  regulations  and functions.  These are  integrated in  environmental  signals for  cell  modulation in  the  functional output  of  the genome. Diabetes  is inextricably-linked  with premature  .ageing. There is  palpable variation  in the  progression rate  of  ageing in  humans.  A simplistic  biological  paradigm is  well-nigh impossible   to  determine   both   the  clinicopathological   and   theoretical  modalities   in   gene- environment    interaction    processes   [3].    The    potential   epigenetic,   gerontological    and clinicopathplogical  correlates and  implications  are to  configure  the population  at  risk for developing premature ageing and senescence within diabetic and obese individuals [25, 26] for early development  of  therapeutic regimen  in  order to  stem  pecuniary nurden  and  aberrant sequelae. 
The extant understanding of the relationships between genetics, epigenetics, and environment in diabetes  and evidence  for the  role of epigenetic  factors in metabolism  regulation  and diabetes and  its  risks and  complications  highlight how  the  complex interactions  between  genes and environment  or  gene-environment  interactions [3]  may  partly be  mediated  via epigenetic alterations  and  how information  regarding  nutritional and  other  environmental stimuli  are transmitted  to the  next  generation. There  is  convergence in  knowledge  lacunae, research, recommendations and expansive interest in the epigenome, defined broadly as modifications to chromatin morphological  functionality  which exclude  the  modification of  DNA  sequence. Epigenetic control is crucial to both normal homeostasis and the disease state or process. Since diabetes risk complications are inextricably-linked to both genetic and environmental influences, numerous  studies  have perspicuously  addressed the intersection  of diabetes and  epigenetics  or epigenomics. Multiple layers of epigenetic regulation, such as direct methylation of cytosine or adenine residues, covalent changes to histone proteins, higher-order chromatin morphology, and noncoding  RNA  pertain [27].  These  have severally  been  indicted in  cellular  mechanisms pertinent   to  diabetes;   with   sustained  erstwhile  inextricably-linked  associations   between epigenetics, diabetes, obesity, and a litany of metabolic aberrations. For instance, the agouti Ay mouse  is  an inbred strain  that demonstrates  profound obesity  due to epigenomic  changes of a gene  that  affects  food consumption  [28].  Incontrovertibly,  obesity observed  in  Prader-Willi syndrome  results due  to  impaired imprinting,  a  specialized epigenomic  alteration  [29]. Depending on the experimental paradigm, data have demonstrated that epigenome alterations by manipulating    defined   chromatin-modifying    enzymes    are   associated    with    metabolic repercussions,  with resultant  obesity    or mitigating  obesity  and hyperglycemia  [30].  A  vast majority of extant data associate epigenetic processes [31-33] in the risk of inherited or acquired diabetes and obesity  [34,  35], as  in  infamy of  human  experiments documented  regarding  the Dutch Hunger Winter, for instance [31], in conjunction with inordinate rodent research. It is purposeful to enact  data  relating epigenomics  to  diabetes and metabolism  in advances  toward therapeutic intervention for the future.
In another spectrum, SARS-CoV-2, the pathological aetiologic agent of COVID-19 [36-41], an increasingly transmittable and pathogenic viral infection relies on the age and health status of an individual  to  exert its  severity  and untoward  consequences.  It provides  ample  latitude to comparatively analyze viral host epigenome regulation. Epigenetic changes may be conceivably involved in  the  initiation of  coronavirus  complications necessitating  epigenetic  drugs to  stem viral outbreak as well as configure pre- and post-exposure prophylaxis per COVID-19 [42]

DNA Methylation Analysis
In the epigenetic field, there are extant plethora of procedures in the determination of the status of  DNA methylation.  These  are categorized  into  (a) the  discovery  of unknown  epigenetic modifications;  and  (b) DNA  methylation  assessment within  defined  regulatory genes  and/or regions.  [43]. These  tools  are selected  based  on feasibility  and  cost-benefit analysis.  These epigenetic  technologies involve  nascent  strategies with  latitude  to single-cell  level,  elevated- throughput genomic and epigenomic profiling with augmented high resolution having beneficial progress in epigenetics [44].
Notwithstanding  the rewarding  outcome  of genome-wide  association  studies (GWAS)  in  the identification of loci connected to ubiquitous disorders, a vast majority of the aetiologies have not  been explicated.  Progress in genomic  technologies  has provided the latitude  to  commence large-scale   research  in   human   disease-related   epigenetic  disparity,   specifically   in  DNA methylation  [45].  These Epigenome-Wide  Association  Studies, EWAS provide ample and novel challenges and opportunities [46] which are not available in GWAS. Integrating EWAS and GWAS is a potential to analyse and elucidate the functionalities of complex GWAS haplotypes  Explicating and unravelling the genetic and non- genetic  determinants  of human  complex  disorders constitute  a  prime challenge  in  biomedical studies which exposed an excess of 800 single nucleotide polymorphism, SNP relationships for over 150 disorders and multiple traits. Despite the lacunae in the knowledge of complete genetic basis for human complex disorder, resequencing of exomes, and whole genomes make provision for the identification of the unelucidated causal genetic disparities. Interests persist to explore the influence of non-genetic and epigenetic factors in intricately complex disease aetiology.
Asthma  is  a ubiquitous chronic  respiratory airway  disorder elicited  by environmental  factors, and ostensibly via interaction with human genome culminating in epigenetic alterations. EWAS principally  examined DNA  methylation  and its  relationship  with disease  or  traits thereof, exposure variables or gene expression [47]. A method that is precise, specific and efficient for the detection  of the  exact DNA  methylation  levels is  pertient  for the elucidation  of the  prime functionalities of DNA methylation in biological processes or mechanisms with the objectives to augment  research and  development  of novel  optimum  diagnostic and  therapeutic  trends and targets.
Epigenesis vs epigenetics
The application  of  the terminologies  epigenesis  and epigenetics  has  remarkably increased concurrently  with confusing and conflating  disparate issues prevailing  in contextual  biological and philosophical literature. Due to the extant confusion encompassing these two terms, it has become pertinent to explicate the disparities within their conceptual and historical evolutionary perspectives.   The   term  ''epigenesis''   evolved   from  primordial   embryological   studies  [48].  In  contradistinction  to Aristotelian  natural  philosophy, it  was  determined that epigenesis  received  fluctuating prominence  since  the 17th  century,  with its  entry  into neo- classical  embryology  and relevance  in  divergence to  the  preformationist  stance. Whereas preformation relates that the germ cells of any organism contains preformed minute adults which unfold during  the  developmental process.  epigenesis  propounds that  the  embryo is  formed  in progressive consecutive exchanges within an amorphous zygote. Both stances tend to explicate developmental   organization,   religious  and   metaphysical   polemics  within   the   context  of embryonic  matter  exclusively as  active  or passive.  The  proponents of  these  two norms perspicuously  underlie  the application  of  gene-centric metaphors  in  20th century  molecular revolution.
On that score, development constitutes the central biological mechanism, and postulations about its  modalities have  influenced  biological reasoning.  Regarding  “epigenesis vs.preformation'', epigenesis states that any developing organism arises from an unformed material and, over time, the gradual  emergence  of form  during  the development  process.  Conversely, preformation postulates  that  development starts  with  an entity  as  either in  a  preformed, predelineated, predetermined  [49],   preestablished   or  predefined   manner.   The  debate  of “epigenesis   or preformation”is partly metaphysical about what is in existence. Whether it is form or also the unformed that  culminates in  the  formed. In  part,  it is  epistemological whther it is determined and established  by  observation or inference.  Polemics  in these  inextricably-linked  questions have  persisted  since eternity    but genetic  determinists currently  rely  on the  already  “formed”via genetic  inheritance,  whereas others depend on the efficacy of environmental plasticity. There are major development theories 
from Aristotle  on  generation to  current  systems-theoretic  and stem  cell-based  perspectives. Indubitably,  “epigenesis vs  preformation”does  not represent  the  exclusive enduring  theoretical divergence  on  development. However,  this  is an  inclusive  trajectory to  inculcate  patterns of transformation  and  consistency in  arguments  in biological  development.  Nature or    nurture, epigenesis or preformation, genetic determinism or developmental free will, or whether a certain version of  convergence  are plausible remain the issues for determination.  The  terms of  the  never-ending discourse,  and  the undergirding hypothesis incessantly  sustain  arguments on  the  temporal beginning  of    life, with  resultant indepth implications for bioethics and policy. Recently, molecular biology has rapidly evolved to incorporate epigenetic research for the evaluation of organism-environment interactions which are liable to present chronic resultant impacts. These sort of responses are likely to emanate from stress in early life stage, the usage of genetic information within the life span of an individual and transgenerational inheritance. Elucidation of epigenetic mechanisms potentiates the evaluation of multigenerational and heritable impacts due to environmental stressors, such as contaminants [50] and pollutants, as are driven by epigenetic modifiers for the identification of prime heritable marks with concomitant results at the levels of the organism and population.
Discussion
Epigenetics  is defined  as  the molecular   DNA  changes which  regulate  gene activity  and  are independent  of  DNA  sequence, and  are  stable mitotically.  Epigenetics  studies have  attained exponential  growth recently,  in  progressive trajectories  resulting  in groundbreaking  findings. These demand stringent methodologies and superior technologies to promote epigenetics to the apex of molecular biology. The prime epigenetic regulations include DNA methylation, histone modifications, and non-coding RNAs (ncRNAs) [44].
Genes are  susceptible  to diverse  fluctuations.  The stem  cell  epigenome simulates  a  fragile balance of chromatin (de-) alteration mechanisms. A model [51] demonstrated that modifications in  DNA methylation  were  due to  dynamics  of histone  alterations.  This model  may  create a mechanistic  explanation  in the  origin  of tissue,  age  and cancer-specific  DNA  methylation profiles. DNA methylation is a critical ingredient in epigenetic change that is inextricably-linked in  gene expression  regulation.  A key  DNA  methylation pathway  diminishes  the potential  of transcription factors to bind to gene promoter regions [52]. Although several investigations have been conducted have to measure genome-wide DNA methylation levels at high resolution, the significance  of  these varied  DNA  methylation levels  on  transcription/factor  binding potentials has not been clearly explicated.
The   stem    cell    epigenome   conveys    a    sensitive   mechanistic    balance    of   chromatin (de-)modification  mechanisms.   An   introduction   of   a   computational   model  of   stem   cell populations whereby each cell has an artificial genome, depicted that transcription of the genes encoded  by the  genome  was influenced  by  DNA methylation,  histone  alteration and  a  cis- regulatory network [51]. Model dynamics were investigated   using molecular crosstalk between the  disparate  mechanisms. The  epigenetic  states of  the  genes were  vulnerable  to disparate magnitudes of variations. It was exhibited that the timescales of these fluctuations effect if the condition or  form  connected with  a  defined gene  will  drift during  cell  replication. The  model suggests that  modifications in DNA methylation  states are determined  due to the dynamics of histone modification. It is suggested that the model demonstrates a mechanistic explication of the profiles pertaining to the origin of tissue, age and cancer-specific DNA methylation [51].

Conclusion

This article argues that epigenetic changes mediate environmental influences in gene expression, and   modulate  disease   risk   inextricably-linked   with  genetic   spationtemporal   variation  and transmissability.   Analytical    epigenetic    paradigm   presents    substainable    objectives    and advancements  for identifying,  explicating  and elucidating    mechanisms  wherein genetic  and environmental  influences are  combinatorial  contributary factors  to  disease risks  and  sequelae. The unravelling  of  spatiotemporal  disparities in  epigenetic  profiling is  of  pertinence for  the research  in aging,the  variables  associated with  diverse    diseases, such  as  cancer, respiratory diseases, SARS-CoV-2/COVID-19, diabetes,  metabolic  and endocrine  disorders.  Thus, the article reviews epigenetic mechanisms on DNA methylation; genetic and environmental as they influence ageing, cellular senescence and certain confounding diseases, and philosophical development theories as they relate to humans. A conspectus of methodological analysis for epigenetic profiling is considered for cost-benefit of tools and techniques as well as advancement in disease treatment.

Conclusion

This article argues that epigenetic changes mediate environmental influences in gene expression, and   modulate  disease   risk   inextricably-linked   with  genetic   spationtemporal   variation  and transmissability.   Analytical    epigenetic    paradigm   presents    substainable    objectives    and advancements  for identifying,  explicating  and elucidating    mechanisms  wherein genetic  and environmental  influences are  combinatorial  contributary factors  to  disease risks  and  sequelae. The unravelling  of  spatiotemporal  disparities in  epigenetic  profiling is  of  pertinence for  the research  in aging,the  variables  associated with  diverse    diseases, such  as  cancer, respiratory diseases, SARS-CoV-2/COVID-19, diabetes,  metabolic  and endocrine  disorders.  Thus, the article reviews epigenetic mechanisms on DNA methylation; genetic and environmental as they influence ageing, cellular senescence and certain confounding diseases, and philosophical development theories as they relate to humans. A conspectus of methodological analysis for epigenetic profiling is considered for cost-benefit of tools and techniques as well as advancement in disease treatment.

References

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Dr Shiming Tang

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Hameed khan