1887

Epigenetics for the 21st-Century Biology Student

    Authors: Jonghoon Kang1,*, Jenna R. Daines1, Abbey N. Warren1, Matthew L. Cowan1
    VIEW AFFILIATIONS HIDE AFFILIATIONS
    Affiliations: 1: Department of Biology, Valdosta State University, Valdosta, GA 31698
    AUTHOR AND ARTICLE INFORMATION AUTHOR AND ARTICLE INFORMATION
    • Received 29 August 2019 Accepted 16 September 2019 Published 18 December 2019
    • ©2019 Author(s). Published by the American Society for Microbiology.
    • [open-access] This is an Open Access article distributed under the terms of the Creative Commons Attribution-Noncommercial-NoDerivatives 4.0 International license (https://creativecommons.org/licenses/by-nc-nd/4.0/ and https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode), which grants the public the nonexclusive right to copy, distribute, or display the published work.

    • *Corresponding author. Mailing address: Department of Biology, 1500 N. Patterson St., Valdosta State University, Valdosta, GA 31698. Phone: 229-333-7140. E-mail: [email protected].
    Source: J. Microbiol. Biol. Educ. December 2019 vol. 20 no. 3 doi:10.1128/jmbe.v20i3.1687
MyBook is a cheap paperback edition of the original book and will be sold at uniform, low price.
  • PDF
    400.45 Kb
  • HTML
    44.43 Kb
  • XML
    59.03 Kb

    Abstract:

    Epigenetics, a rapidly emerging biological science, investigates changes in gene expression without any change to the primary DNA sequence. Epigenetics plays an important role in diverse areas, including nutritional sciences, psychology, and environmental sciences. In addition, epigenetic phenomena are closely implicated in various diseases, including cancer and neurological disorders. Even though the importance of epigenetics has been widely discussed in the literature, there is no quantitative assessment on the development of epigenetics. In this paper, we show our metadata analysis of PubMed to quantitatively measure the temporal development of epigenetics. Our analysis indicates that the publication volume of epigenetics will reach 20.7% of all genetics paper in 10 years (year 2029). Based on our analysis, we suggest that epigenetics be added to the biology undergraduate curriculum.

References & Citations

1. Tarca AL, Romero R, Draghici S 2006 Analysis of microarray experiments of gene expression profiling Am J Obstet Gynecol 195 373 388https://doi.org/10.1016/j.ajog.2006.07.001 10.1016/j.ajog.2006.07.001 16890548 2435252 http://dx.doi.org/10.1016/j.ajog.2006.07.001
2. López-Maury L, Marguerat S, Bähler J 2008 Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation Nat Rev Genet 9 583 593https://doi.org/10.1038/nrg2398 10.1038/nrg2398 18591982 http://dx.doi.org/10.1038/nrg2398
3. Weinhold B 2006 Epigenetics: the science of change Environ Health Perspect 114 A160 A167https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1392256/ 10.1289/ehp.114-a160 16507447 1392256 http://dx.doi.org/10.1289/ehp.114-a160
4. Riggs AD, Porter TN 1996 Overview of epigenetic mechanisms 29 45 Russo VEA, Martienssen R, Riggs AD Epigenetic mechanisms of gene regulation 2 CSHL Press Long Island, NY
5. Holliday R, Ho T 2002 DNA methylation and epigenetic inheritance Methods 27 179 183https://doi.org/10.1016/S1046-2023(02)00072-5 10.1016/S1046-2023(02)00072-5 12095278 http://dx.doi.org/10.1016/S1046-2023(02)00072-5
6. Goldberg AD, Allis CD, Bernstein E 2007 Epigenetics: a landscape takes shape Cell 128 635 638https://doi.org/10.1016/j.cell.2007.02.006 10.1016/j.cell.2007.02.006 17320500 http://dx.doi.org/10.1016/j.cell.2007.02.006
7. Heard E, Martienssen RA 2014 Transgenerational epigenetic inheritance: myths and mechanisms Cell 157 95 109https://doi.org/10.1016/j.cell.2014.02.045 10.1016/j.cell.2014.02.045 24679529 4020004 http://dx.doi.org/10.1016/j.cell.2014.02.045
8. Turner B 2017 Epigenetics can free us from the tyranny of selfish DNA The Biochemist 39 5 4 7http://www.biochemist.org/bio/03905/0004/039050004.pdf 10.1042/BIO03905004 http://dx.doi.org/10.1042/BIO03905004
9. Multhaup ML, Seldin MM, Jaffe AE, Lei X, Kirchner H, Mondal P, Li Y, Rodriguez V, Drong A, Hussain M, Lindgren C, McCarthy M, Näslund E, Zierath JR, Wong GW, Feinberg AP 2015 Mouse–human experimental epigenetic analysis unmasks dietary targets and genetic liability for diabetic phenotypes Cell Metab 21 138 149https://doi.org/10.1016/j.cmet.2014.12.014 10.1016/j.cmet.2014.12.014 25565211 4340475 http://dx.doi.org/10.1016/j.cmet.2014.12.014
10. Timp W, Bravo HC, McDonald OG, Goggins M, Umbricht C, Zeiger M, Feinberg AP, Irizarry RA 2014 Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors Genome Med 6 8 61http://doi.org/10.1186/s13073-014-0061-y 10.1186/s13073-014-0061-y 25191524 4154522 http://dx.doi.org/10.1186/s13073-014-0061-y
11. Andrews SV, Sheppard B, Windham GC, Schieve LA, Schendel DE, Croen LA, Chopra P, Alisch RS, Newschaffer CJ, Warren ST, Feinberg AP, Fallin MD, Ladd-Acosta C 2018 Case-control meta-analysis of blood DNA methylation and autism spectrum disorder Mol Autism 9 40http://doi.org/10.1186/s13229-018-0224-6 10.1186/s13229-018-0224-6 29988321 6022498 http://dx.doi.org/10.1186/s13229-018-0224-6
12. Kang J, Purnell CB 2011 Implications for undergraduate education of two interdisciplinary biological sciences: biochemistry and biophysics CBE Life Sci Educ 10 111 112https://doi.org/10.1187/cbe.10-09-0124 10.1187/cbe.10-09-0124 21633055 3105913 http://dx.doi.org/10.1187/cbe.10-09-0124
13. Kang J, Park S, Venkat A, Gopinath A 2015 Quantitative analysis of the trends exhibited by the three interdisciplinary biological sciences: biophysics, bioinformatics, and systems biology J Microbiol Biol Educ 16 198 202https://doi.org/10.1128/jmbe.v16i2.949 10.1128/jmbe.v16i2.949 http://dx.doi.org/10.1128/jmbe.v16i2.949
14. Kang J, Clifton EC 2018 Quantitative analysis of food science trends J Food Sci 83 2405 2406https://doi.org/10.1111/1750-3841.13902 10.1111/1750-3841.13902 30300466 http://dx.doi.org/10.1111/1750-3841.13902
15. Rosenblum B, Kuttner F 2008 Quantum enigma: physics encounters consciousness Oxford University Press New York, NY
16. He C, Cole P 2015 Introduction: epigenetics Chem Rev 115 2223 2224https://doi.org/10.1021/acs.chemrev.5b00137 10.1021/acs.chemrev.5b00137 25804907 4729185 http://dx.doi.org/10.1021/acs.chemrev.5b00137
17. Cridge AG, Leask MP, Duncan EJ, Dearden PK 2015 What do studies of insect polyphenisms tell us about nutritionally-triggered epigenomic changes and their consequences? Nutrients 7 1787 1797 https://doi.org/10.3390/nu7031787 10.3390/nu7031787 25768950 4377881 http://dx.doi.org/10.3390/nu7031787
18. Bishop KS, Ferguson LR 2015 The interaction between epigenetics, nutrition and the development of cancer Nutrients 7 922 947https://doi.org/10.3390/nu7020922 10.3390/nu7020922 25647662 4344568 http://dx.doi.org/10.3390/nu7020922
19. Gat-Yablonski G, Phillip M 2015 Nutritionally-induced catch-up growth Nutrients 7 517 551https://doi.org/10.3390/nu7010517 10.3390/nu7010517 25594438 4303852 http://dx.doi.org/10.3390/nu7010517
20. Hardivillé S, Hart GW 2014 Nutrient regulation of signaling, transcription, and cell physiology by O-GlcNAcylation Cell Metab 20 208 213https://doi.org/10.1016/j.cmet.2014.07.014 10.1016/j.cmet.2014.07.014 25100062 4159757 http://dx.doi.org/10.1016/j.cmet.2014.07.014
21. Mak A, Tay SH 2014 Environmental factors, toxicants and systemic lupus erythematosus Int J Mol Sci 15 16043 16056https://doi.org/10.3390/ijms150916043 10.3390/ijms150916043 25216337 4200809 http://dx.doi.org/10.3390/ijms150916043
22. Delgado-Morales R, Agís-Balboa RC, Esteller M, Berdasco M 2017 Epigenetic mechanisms during ageing and neurogenesis as novel therapeutic avenues in human brain disorders Clin Epigenetics 9 67https://doi.org/10.1186/s13148-017-0365-z 10.1186/s13148-017-0365-z 28670349 5493012 http://dx.doi.org/10.1186/s13148-017-0365-z
23. Maze I, Shen L, Zhang B, Garcia BA, Shao N, Mitchell A, Sun H, Akbarian S, Allis CD, Nestler EJ 2014 Analytical tools and current challenges in the modern era of neuroepigenomics Nat Neurosci 17 1476 1490https://doi.org/10.1038/nn.3816 10.1038/nn.3816 25349914 4262187 http://dx.doi.org/10.1038/nn.3816
24. Krishnan HR, Sakharkar AJ, Teppen TL, Berkel TD, Pandey SC 2014 The epigenetic landscape of alcoholism Int Rev Neurobiol 115 75 116https://doi.org/10.1016/B978-0-12-801311-3.00003-2 10.1016/B978-0-12-801311-3.00003-2 25131543 4337828 http://dx.doi.org/10.1016/B978-0-12-801311-3.00003-2
25. D’Urso A, Brickner JH 2014 Mechanisms of epigenetic memory Trends Genet 30 230 236https://doi.org/10.1016/j.tig.2014.04.004 10.1016/j.tig.2014.04.004 http://dx.doi.org/10.1016/j.tig.2014.04.004
26. Innes KE, Selfe TK 2014 Meditation as a therapeutic intervention for adults at risk for Alzheimer’s disease—potential benefits and underlying mechanisms Front Psychiatry 5 40https://doi.org/10.3389/fpsyt.2014.00040 10.3389/fpsyt.2014.00040 http://dx.doi.org/10.3389/fpsyt.2014.00040
27. Kaliman P, Alvarez-López MJ, Cosín-Tomás M, Rosenkranz MA, Lutz A, Davidson RJ 2014 Rapid changes in histone deacetylases and inflammatory gene expression in expert meditators Psychoneuroendocrinology 40 96 107https://doi.org/10.1016/j.psyneuen.2013.11.004 10.1016/j.psyneuen.2013.11.004 24485481 4039194 http://dx.doi.org/10.1016/j.psyneuen.2013.11.004
28. Gosselin D, Glass CK 2014 Epigenomics of macrophages Immunol Rev 262 96 112https://doi.org/10.1111/imr.12213 10.1111/imr.12213 25319330 4203424 http://dx.doi.org/10.1111/imr.12213
29. Lynch B 2018 Dirty genes: a breakthrough program to treat the root cause of illness and optimize your health HarperOne San Francisco, CA
30. Carey N 2013 The epigenetics revolution: how modern biology is rewriting our understanding of genetics, disease, and inheritance Columbia University Press New York, NY
31. Wallach JD, Lan M, Schrauzer GN 2014 Epigenetics: the death of the genetic theory of disease transmission SelectBooks New York, NY
32. Francis RC 2012 Epigenetics: how environment shapes our genes W. W. Norton & Company New York, NY
33. Ennis C 2017 Introducing epigenetics: a graphic guide Icon Books London, UK
34. Moalem S 2015 Inheritance: how our genes change our lives– and our lives change our genes Grand Central Publishing New York, NY
35. Woodward TE, Gills JP 2012 The mysterious epigenome: what lies beyond DNA Kregel Publications Grand Rapids, MI
36. Moore DS 2017 The developing genome: an introduction to behavioral epigenetics Oxford University Press New York, NY
37. Allis CD, Caparros M-L, Jenuwein T, Reinberg D 2015 Epigenetics 2nd ed. CSHL Press Long Island, NY
38. Armstrong L 2014 Epigenetics Garland Science New York, NY
39. Kovalchuk I, Kovalchuk O 2016 Genome stability: from virus to human application Academic Press London, UK
40. Roe C, May L 2015 Book review: the epigenetics revolution Front Genet 6 250https://doi.org/10.3389/fgene.2015.00250 10.3389/fgene.2015.00250 4534858 http://dx.doi.org/10.3389/fgene.2015.00250
41. Stark LA 2010 Epigenetics online: multimedia teaching resources CBE Life Sci Educ 9 6 9https://doi.org/10.1187/cbe.09-12-0095 10.1187/cbe.09-12-0095 20194801 2830163 http://dx.doi.org/10.1187/cbe.09-12-0095
42. Williams ME 2013 Epigenetics. Teaching tools in plant biology: lecture notes The Plant Cell (online) https://doi.org/10.1105/tpc.110.tt0110
43. Cortini R, Barbi M, Caré BR, Lavelle C, Lesne A, Mozziconacci J, Victor JM 2016 The physics of epigenetics Rev Mod Phys 88 025002https://doi.org/10.1103/RevModPhys.88.025002 10.1103/RevModPhys.88.025002 http://dx.doi.org/10.1103/RevModPhys.88.025002
44. Lim SJ, Tan TW, Tong JC 2010 Computational epigenetics: the new scientific paradigm Bioinformation 4 331 337 10.6026/97320630004331 20978607 2957762 http://dx.doi.org/10.6026/97320630004331
45. Bock C, Lengauer T 2008 Computational epigenetics Bioinformatics 24 1 10https://doi.org/10.1093/bioinformatics/btm546 10.1093/bioinformatics/btm546 http://dx.doi.org/10.1093/bioinformatics/btm546
46. Militello KT 2013 Studying epigenetic DNA modifications in undergraduate laboratories using complementary bioinformatic and molecular approaches Biochem Mol Biol Educ 41 334 340https://doi.org/10.1002/bmb.20713 24022990

Supplemental Material

No supplementary material available for this content.

Loading

Article metrics loading...

/content/journal/jmbe/10.1128/jmbe.v20i3.1687
2019-12-18
2020-07-09

Abstract:

Epigenetics, a rapidly emerging biological science, investigates changes in gene expression without any change to the primary DNA sequence. Epigenetics plays an important role in diverse areas, including nutritional sciences, psychology, and environmental sciences. In addition, epigenetic phenomena are closely implicated in various diseases, including cancer and neurological disorders. Even though the importance of epigenetics has been widely discussed in the literature, there is no quantitative assessment on the development of epigenetics. In this paper, we show our metadata analysis of PubMed to quantitatively measure the temporal development of epigenetics. Our analysis indicates that the publication volume of epigenetics will reach 20.7% of all genetics paper in 10 years (year 2029). Based on our analysis, we suggest that epigenetics be added to the biology undergraduate curriculum.

Highlighted Text: Show | Hide
Loading full text...

Full text loading...

/deliver/fulltext/jmbe/20/3/jmbe-20-56.html?itemId=/content/journal/jmbe/10.1128/jmbe.v20i3.1687&mimeType=html&fmt=ahah

Figures

Image of FIGURE 1

Click to view

FIGURE 1

Publication trend in genetics (A) and epigenetics (B) and normalized publication data of epigenetics (C) in PubMed. Acceleration in the temporal progress of epigenetics is shown in (D).

Source: J. Microbiol. Biol. Educ. December 2019 vol. 20 no. 3 doi:10.1128/jmbe.v20i3.1687
Download as Powerpoint
Image of FIGURE 2

Click to view

FIGURE 2

Standard hierarchical structure of sciences (A) and a hierarchical structure including epigenetics (B).

Source: J. Microbiol. Biol. Educ. December 2019 vol. 20 no. 3 doi:10.1128/jmbe.v20i3.1687
Download as Powerpoint

This is a required field
Please enter a valid email address
Please check the format of the address you have entered.
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error