The Role of Transposable Elements in Health and Diseases of the Central Nervous System
Open accessAbstract
First discovered in maize by Barbara McClintock in the 1940s, transposable elements (TEs) are DNA sequences that in some cases have the ability to move along chromosomes or “transpose” in the genome. This revolutionary finding was initially met with resistance by the scientific community and viewed by some as heretical. A large body of knowledge has accumulated over the last 60 years on the biology of TEs. Indeed, it is now known that TEs can generate genomic instability and reconfigure gene expression networks both in the germline and somatic cells. This review highlights recent findings on the role of TEs in health and diseases of the CNS, which were presented at the 2013 Society for Neuroscience meeting. The work of the speakers in this symposium shows that TEs are expressed and active in the brain, challenging the dogma that neuronal genomes are static and revealing that they are susceptible to somatic genomic alterations. These new findings on TE expression and function in the CNS have major implications for understanding the neuroplasticity of the brain, which could hypothetically have a role in shaping individual behavior and contribute to vulnerability to disease.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
L1 activity has been implicated in a variety of age-related disorders, including cancer and neurodegeneration.
“L1 activity has been implicated in a variety of age-related disorders12, including cancer7,13 and neurodegeneration14,15.”
From SIRT6 represses LINE1 retrotransposons by ribosylating KAP1 but this repression fails with stress and age (2014) · cites this paper as [14]
Several groups have independently detected elevated TE transcripts in human AD, adding to an intriguing phenomenon of TE dysregulation in neurodegenerative diseases.
“Several groups have independently detected elevated TE transcripts in human AD [122–124], adding to an intriguing phenomenon of TE dysregulation in neurodegenerative diseases [125–128].”
From What would it take to prove that a chronic infection is a causal agent in Alzheimer’s disease? (2025) · cites this paper as [128]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Finding the missing heritability of complex diseases
Manolio, T. A., Collins, F. S., Cox, N. J., Goldstein, D. B., Hindorff, L. A., Hunter, D. J., McCarthy, M. I., Ramos, E. M., Cardon, L. R., Chakravarti, A., et al. (2009) · Nature · doi:10.1038/nature08494 · Cited by 8,336 · see citing works
Initial sequencing and comparative analysis of the mouse genome
Mouse Genome Sequencing Consortium (2002) · Nature · doi:10.1038/nature01262 · Cited by 7,187 · see citing works
Landscape of transcription in human cells
Djebali, S., Davis, C. A., Merkel, A., Dobin, A., Lassmann, T., Mortazavi, A., Tanzer, A., Lagarde, J., Lin, W., Schlesinger, F., et al. (2012) · Nature · doi:10.1038/nature11233 · Cited by 5,187 · see citing works
Rehm, J., Mathers, C., Popova, S., Thavorncharoensap, M., Teerawattananon, Y., & Patra, J. (2009) · The Lancet · doi:10.1016/s0140-6736(09)60746-7 · Cited by 3,870 · see citing works
Origin and evolution of retroelements based upon their reverse transcriptase sequences
Xiong, Y., & Eickbush, T. H. (1990) · The EMBO Journal · doi:10.1002/j.1460-2075.1990.tb07536.x · Cited by 1,374 · see citing works
Long pre-mRNA depletion and RNA missplicing contribute to neuronal vulnerability from loss of TDP-43
Polymenidou, M., Lagier-Tourenne, C., Hutt, K. R., Huelga, S. C., Moran, J., Liang, T. Y., Ling, S.-C., Sun, E., Wancewicz, E., Mazur, C., et al. (2011) · Nature Neuroscience · doi:10.1038/nn.2779 · Cited by 1,335 · see citing works
Functional organization of the transcriptome in human brain
Oldham, M. C., Konopka, G., Iwamoto, K., Langfelder, P., Kato, T., Horvath, S., & Geschwind, D. H. (2008) · Nature Neuroscience · doi:10.1038/nn.2207 · Cited by 752 · cited 1× · see citing works
“An alternative is to take a systems genomics approach, focusing on the regulation of the transcriptome as a whole, including both coding and noncoding regions (Oldham et al., 2008; Ward and Kellis, 2012).”
BackgroundLINE-1 Retrotransposition Activity in Human Genomes
Beck, C. R., Collier, P., Macfarlane, C., Malig, M., Kidd, J. M., Eichler, E. E., Badge, R. M., & Moran, J. V. (2010) · Cell · doi:10.1016/j.cell.2010.05.021 · Cited by 632 · see citing works
Single-Neuron Sequencing Analysis of L1 Retrotransposition and Somatic Mutation in the Human Brain
Evrony, G. D., Cai, X., Lee, E., Hills, L. B., Elhosary, P. C., Lehmann, H. S., Parker, J. J., Atabay, K. D., Gilmore, E. C., Poduri, A., et al. (2012) · Cell · doi:10.1016/j.cell.2012.09.035 · Cited by 548 · see citing works
Activation of transposable elements during aging and neuronal decline in Drosophila
Li, W., Prazak, L., Chatterjee, N., Grüninger, S., Krug, L., Theodorou, D., & Dubnau, J. (2013) · Nature Neuroscience · doi:10.1038/nn.3368 · Cited by 346 · see citing works
Self-citationInduction of innate immune genes in brain create the neurobiology of addiction
Crews, F. T., Zou, J., & Qin, L. (2011) · Brain, Behavior, and Immunity · doi:10.1016/j.bbi.2011.03.003 · Cited by 313 · see citing works
Determination of L1 retrotransposition kinetics in cultured cells
Ostertag, E. M. (2000) · Nucleic Acids Research · doi:10.1093/nar/28.6.1418 · Cited by 291 · see citing works
Transposable Elements in TDP-43-Mediated Neurodegenerative Disorders
Li, W., Jin, Y., Prazak, L., Hammell, M., & Dubnau, J. (2012) · PLoS ONE · doi:10.1371/journal.pone.0044099 · Cited by 195 · see citing works
Self-citation
Flagged first, then by citations
Research works printed but not linked: 118
- Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, Scherer SE, Li PW, Hoskins RA, Galle RF, George RA, Lewis SE, Richards S, Ashburner M, Henderson SN, Sutton GG, Wortman JR, Yandell MD, Zhang Q, Chen LX, et al. (2000) The genome sequence of Drosophila melanogaster. Science 287:2185-2195. CrossRef Medline · DOI
- Antony JM, van Marle G, Opii W, Butterfield DA, Mallet F, Yong VW, Wal- lace JL, Deacon RM, Warren K, Power C (2004) Human endogenous retrovirus glycoprotein-mediated induction of redox reactants causes oli- godendrocyte death and demyelination. Nat Neurosci 7:1088 -1095. CrossRef Medline · DOI · Paper page
- Azevedo FA, Carvalho LR, Grinberg LT, Farfel JM, Ferretti RE, Leite RE, Jacob Filho W, Lent R, Herculano-Houzel S (2009) Equal numbers of neuronal and nonneuronal cells make the human brain an isometrically scaled-up primate brain. J Comp Neurol 513:532-541. CrossRef Medline · DOI · Paper page
- Baillie JK, Barnett MW, Upton KR, Gerhardt DJ, Richmond TA, De Sapio F, Brennan PM, Rizzu P, Smith S, Fell M, Talbot RT, Gustincich S, Freeman TC, Mattick JS, Hume DA, Heutink P, Carninci P, Jeddeloh JA, Faulkner GJ (2011) Somatic retrotransposition alters the genetic landscape of the human brain. Nature 479:534 -537. CrossRef Medline · DOI · Paper page
- Balada E, Ordi-Ros J, Vilardell-Tarre ´s M (2009) Molecular mechanisms mediated by human endogenous retroviruses (HERVs) in autoimmunity. Rev Med Virol 19:273-286. CrossRef Medline · DOI · Paper page
- Barsoum E, Martinez P, Astro ¨m SU (2010) Alpha3, a transposable element that promotes host sexual reproduction. Genes Dev 24:33-44. CrossRef Medline · DOI
- Batzer MA, Arcot SS, Phinney JW, Alegria-Hartman M, Kass DH, Milligan SM, Kimpton C, Gill P, Hochmeister M, Ioannou PA, Herrera RJ, Boud- reau DA, Scheer WD, Keats BJ, Deininger PL, Stoneking M (1996) Ge- netic variation of recent Alu insertions in human populations. J Mol Evol 42:22-29. CrossRef Medline · DOI
- Beck CR, Garcia-Perez JL, Badge RM, Moran JV (2011) LINE-1 elements in structural variation and disease. Annu Rev Genomics Hum Genet 12:187- 215. CrossRef Medline · DOI · Paper page
- Becker HC, Lopez MF, Doremus-Fitzwater TL (2011) Effects of stress on alcohol drinking: a review of animal studies. Psychopharmacology (Berl) 218:131-156. CrossRef Medline · DOI
- Bie ´mont C (2010) A brief history of the status of transposable elements: from junk DNA to major players in evolution. Genetics 186:1085-1093. CrossRef Medline · DOI
- Boeke JD, Garfinkel DJ, Styles CA, Fink GR (1985) Ty elements transpose through an RNA intermediate. Cell 40:491-500. CrossRef Medline · DOI
- Britten RJ, Kohne DE (1968) Repeated sequences in DNA: hundreds of thousands of copies of DNA sequences have been incorporated into the genomes of higher organisms. Science 161:529 -540. CrossRef Medline · DOI
- Britten RJ, Stout DB, Davidson EH (1989) The current source of human Alu retroposons is a conserved gene shared with Old World monkey. Proc Natl Acad Sci U S A 86:3718 -3722. CrossRef Medline · DOI
- Buratti E, Baralle FE (2010) The multiple roles of TDP-43 in pre-mRNA processing and gene expression regulation. RNA Biol 7:420 -429. CrossRef Medline · DOI
- Carroll SB (2008) Evo-devo and an expanding evolutionary synthesis: a genetic theory of morphological evolution. Cell 134:25-36. CrossRef Medline · DOI · Paper page
- Cavalier-Smith T (1991) Intron phylogeny: a new hypothesis. Trends Genet 7:145-148. CrossRef Medline · DOI
- Chen Y, Pane A, Schu ¨pbach T (2007) Cutoff and aubergine mutations result in retrotransposon upregulation and checkpoint activation in Drosoph- ila. Curr Biol 17:637-642. CrossRef Medline · DOI
- Chung WJ, Okamura K, Martin R, Lai EC (2008) Endogenous RNA inter- ference provides a somatic defense against Drosophila transposons. Curr Biol 18:795-802. CrossRef Medline · DOI
- Cohen TJ, Lee VM, Trojanowski JQ (2011) TDP-43 functions and patho- genic mechanisms implicated in TDP-43 proteinopathies. Trends Mol Med 17:659 -667. CrossRef Medline · DOI
- Coufal NG, Garcia-Perez JL, Peng GE, Yeo GW, Mu Y, Lovci MT, Morell M, O'Shea KS, Moran JV, Gage FH (2009) L1 retrotransposition in human neural progenitor cells. Nature 460:1127-1131. CrossRef Medline · DOI · Paper page
- Coufal NG, Garcia-Perez JL, Peng GE, Marchetto MC, Muotri AR, Mu Y, Carson CT, Macia A, Moran JV, Gage FH (2011) Ataxia telangiectasia mutated (ATM) modulates long interspersed element-1 (L1) retrotrans- position in human neural stem cells. Proc Natl Acad Sci U S A 108:20382- 20387. CrossRef Medline · DOI · Paper page
- Czech B, Hannon GJ (2011) Small RNA sorting: matchmaking for Argo- nautes. Nat Rev Genet 12:19 -31. CrossRef Medline · DOI
- Czech B, Malone CD, Zhou R, Stark A, Schlingeheyde C, Dus M, Perrimon N, Kellis M, Wohlschlegel JA, Sachidanandam R, Hannon GJ, Brennecke J (2008) An endogenous small interfering RNA pathway in Drosophila. Nature 453:798 -802. CrossRef Medline · DOI
- Daniels GR, Deininger PL (1985) Repeat sequence families derived from mammalian tRNA genes. Nature 317:819 -822. CrossRef Medline · DOI
- Dewannieux M, Esnault C, Heidmann T (2003) LINE-mediated retrotranspo- sition of marked Alu sequences. Nat Genet 35:41-48. CrossRef Medline · DOI
- Dombroski BA, Mathias SL, Nanthakumar E, Scott AF, Kazazian HH Jr (1991) Isolation of an active human transposable element. Science 254: 1805-1808. CrossRef Medline · DOI
- Douville R, Liu J, Rothstein J, Nath A (2011) Identification of active loci of a human endogenous retrovirus in neurons of patients with amyotrophic lateral sclerosis. Ann Neurol 69:141-151. CrossRef Medline · DOI
- Dranovsky A, Hen R (2006) Hippocampal neurogenesis: regulation by stress and antidepressants. Biol Psychiatry 59:1136 -1143. CrossRef Medline · DOI · Paper page
- Dunham I, Bernstein BE, Birney E, Dunham I, Green ED, Gunter C, Snyder M (2012) An integrated encyclopedia of DNA elements in the human genome. Nature 489:57-74. CrossRef Medline · DOI · Paper page
- Eickbush TH, Burke WD, Eickbush DG, Lathe WC 3rd (1997) Evolution of R1 and R2 in the rDNA units of the genus Drosophila. Genetica 100:49 -61. CrossRef Medline · DOI
- Emera D, Wagner GP (2012) Transformation of a transposon into a derived prolactin promoter with function during human pregnancy. Proc Natl Acad Sci U S A 109:11246 -11251. CrossRef Medline · DOI
- Eriksson PS, Perfilieva E, Bjo ¨rk-Eriksson T, Alborn AM, Nordborg C, Peter- son DA, Gage FH (1998) Neurogenesis in the adult human hippocam- pus. Nat Med 4:1313-1317. CrossRef Medline · DOI · Paper page
- Esnault C, Maestre J, Heidmann T (2000) Human LINE retrotransposons gen- erate processed pseudogenes. Nat Genet 24:363-367. CrossRef Medline · DOI
- Ewing AD, Kazazian HH Jr (2010) High-throughput sequencing reveals ex- tensive variation in human-specific L1 content in individual human ge- nomes. Genome Res 20:1262-1270. CrossRef Medline · DOI
- Faulkner GJ, Kimura Y, Daub CO, Wani S, Plessy C, Irvine KM, Schroder K, Cloonan N, Steptoe AL, Lassmann T, Waki K, Hornig N, Arakawa T, Takahashi H, Kawai J, Forrest AR, Suzuki H, Hayashizaki Y, Hume DA, Orlando V, et al. (2009) The regulated retrotransposon transcriptome of mammalian cells. Nat Genet 41:563-571. CrossRef Medline · DOI
- Feschotte C (2008) Transposable elements and the evolution of regulatory networks. Nat Rev Genet 9:397-405. CrossRef Medline · DOI
- Fraga MF, Ballestar E, Paz MF, Ropero S, Setien F, Ballestar ML, Heine-Sun ˜er D, Cigudosa JC, Urioste M, Benitez J, Boix-Chornet M, Sanchez-Aguilera A, Ling C, Carlsson E, Poulsen P, Vaag A, Stephan Z, Spector TD, Wu YZ, Plass C, et al. (2005) Epigenetic differences arise during the lifetime of monozygotic twins. Proc Natl Acad Sci U S A 102:10604 -10609. CrossRef Medline · DOI · Paper page
- Garcia-Perez JL, Morell M, Scheys JO, Kulpa DA, Morell S, Carter CC, Ham- mer GD, Collins KL, O'Shea KS, Menendez P, Moran JV (2010) Epige- netic silencing of engineered L1 retrotransposition events in human embryonic carcinoma cells. Nature 466:769 -773. CrossRef Medline · DOI
- Ghildiyal M, Zamore PD (2009) Small silencing RNAs: an expanding uni- verse. Nat Rev Genet 10:94 -108. CrossRef Medline · DOI
- Ghildiyal M, Seitz H, Horwich MD, Li C, Du T, Lee S, Xu J, Kittler EL, Zapp ML, Weng Z, Zamore PD (2008) Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells. Science 320:1077- 1081. CrossRef Medline · DOI · Paper page
- Gibbs RA, Weinstock GM, Metzker ML, Muzny DM, Sodergren EJ, Scherer S, Scott G, Steffen D, Worley KC, Burch PE, Okwuonu G, Hines S, Lewis L, DeRamo C, Delgado O, Dugan-Rocha S, Miner G, Morgan M, Hawes A, Gill R, et al. (2004) Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature 428:493-521. CrossRef Medline · DOI
- Grant BF, Dawson DA, Stinson FS, Chou SP, Dufour MC, Pickering RP (2004) The 12-month prevalence and trends in DSM-IV alcohol abuse and dependence: United States, 1991-1992 and 2001-2002. Drug Alcohol Depend 74:223-234. CrossRef Medline · DOI
- Graves JA (2010) Review: sex chromosome evolution and the expression of sex-specific genes in the placenta. Placenta 31 [Suppl]:S27-S32.
- Grimaldi G, Singer MF (1982) A monkey Alu sequence is flanked by 13-base pair direct repeats by an interrupted alpha-satellite DNA sequence. Proc Natl Acad Sci U S A 79:1497-1500. CrossRef Medline · DOI
- Guo JH, Huang Q, Studholme DJ, Wu CQ, Zhao Z (2005) Transcriptomic analyses support the similarity of gene expression between brain and testis in human as well as mouse. Cytogenet Genome Res 111:107-109. CrossRef Medline · DOI
- Guo J, Zhu P, Wu C, Yu L, Zhao S, Gu X (2003) In silico analysis indicates a similar gene expression pattern between human brain and testis. Cyto- genet Genome Res 103:58 -62. CrossRef Medline · DOI
- Hancks DC, Mandal PK, Cheung LE, Kazazian HH Jr (2012) The minimal active human SVA retrotransposon requires only the 5Ј-hexamer and Alu-like domains. Mol Cell Biol 32:4718 -4726. CrossRef Medline · DOI
- Harper C, Dixon G, Sheedy D, Garrick T (2003) Neuropathological altera- tions in alcoholic brains: studies arising from the New South Wales Tissue Resource Centre. Prog Neuropsychopharmacol Biol Psychiatry 27:951- 961. CrossRef Medline · DOI
- Heard E, Tishkoff S, Todd JA, Vidal M, Wagner GP, Wang J, Weigel D, Young R (2010) Ten years of genetics and genomics: what have we achieved and where are we heading? Nat Rev Genet 11:723-733. CrossRef Medline · DOI
- Henn BM, Cavalli-Sforza LL, Feldman MW (2012) The great human expan- sion. Proc Natl Acad Sci U S A 109:17758 -17764. CrossRef Medline · DOI
- Houle D, Nuzhdin SV (2004) Mutation accumulation and the effect of co- pia insertions in Drosophila melanogaster. Genet Res 83:7-18. CrossRef Medline · DOI
- Huang CR, Schneider AM, Lu Y, Niranjan T, Shen P, Robinson MA, Steranka JP, Valle D, Civin CI, Wang T, Wheelan SJ, Ji H, Boeke JD, Burns KH (2010) Mobile interspersed repeats are major structural variants in the human genome. Cell 141:1171-1182. CrossRef Medline · DOI
- Hunter RG, Murakami G, Dewell S, Seligsohn M, Baker ME, Datson NA, McEwen BS, Pfaff DW (2012) Acute stress and hippocampal histone H3 lysine 9 trimethylation, a retrotransposon silencing response. Proc Natl Acad Sci U S A 109:17657-17662. CrossRef Medline · DOI
- Iskow RC, McCabe MT, Mills RE, Torene S, Pittard WS, Neuwald AF, Van Meir EG, Vertino PM, Devine SE (2010) Natural mutagenesis of human genomes by endogenous retrotransposons. Cell 141:1253-1261. CrossRef Medline · DOI · Paper page
- Jensen S, Cavarec L, Gassama MP, Heidmann T (1995) Defective I elements introduced into Drosophila as transgenes can regulate reactivity and pre- vent I-R hybrid dysgenesis. Mol Gen Genet 248:381-390. CrossRef Medline · DOI
- Jensen S, Gassama MP, Heidmann T (1999) Taming of transposable ele- ments by homology-dependent gene silencing. Nat Genet 21:209 -212. CrossRef Medline · DOI
- Jeong BH, Lee YJ, Carp RI, Kim YS (2010) The prevalence of human endog- enous retroviruses in cerebrospinal fluids from patients with sporadic Creutzfeldt-Jakob disease. J Clin Virol 47:136 -142. CrossRef Medline · DOI
- Ji Y, Xu Y, Zhang Q, Tsui KW, Yuan Y, Norris C Jr, Liang S, Liang H (2011) BM-map: Bayesian mapping of multireads for next-generation sequenc- ing data. Biometrics 67:1215-1224. CrossRef Medline · DOI
- Kajikawa M, Okada N (2002) LINEs mobilize SINEs in the eel through a shared 3Ј sequence. Cell 111:433-444. CrossRef Medline · DOI
- Kaneko H, Dridi S, Tarallo V, Gelfand BD, Fowler BJ, Cho WG, Kleinman ME, Ponicsan SL, Hauswirth WW, Chiodo VA, Kariko ´K, Yoo JW, Lee DK, Hadziahmetovic M, Song Y, Misra S, Chaudhuri G, Buaas FW, Braun RE, Hinton DR, et al. (2011) DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration. Nature 471:325-330. CrossRef Medline · DOI · Paper page
- Kawamura Y, Saito K, Kin T, Ono Y, Asai K, Sunohara T, Okada TN, Siomi MC, Siomi H (2008) Drosophila endogenous small RNAs bind to Argo- naute 2 in somatic cells. Nature 453:793-797. CrossRef Medline · DOI
- Kazazian HH Jr, Wong C, Youssoufian H, Scott AF, Phillips DG, Antonarakis SE (1988) Haemophilia A resulting from de novo insertion of L1 se- quences represents a novel mechanism for mutation in man. Nature 332: 164 -166. CrossRef Medline · DOI
- Klattenhoff C, Bratu DP, McGinnis-Schultz N, Koppetsch BS, Cook HA, Theurkauf WE (2007) Drosophila rasiRNA pathway mutations disrupt embryonic axis specification through activation of an ATR/Chk2 DNA damage response. Dev Cell 12:45-55. CrossRef Medline · DOI
- Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, et al. (2001) Initial sequencing and analysis of the human genome. Nature 409:860 -921. CrossRef Medline · DOI · Paper page
- Lathe R, Harris A (2009) Differential display detects host nucleic acid motifs altered in scrapie-infected brain. J Mol Biol 392:813-822. CrossRef Medline · DOI
- Levin HL, Moran JV (2011) Dynamic interactions between transposable el- ements and their hosts. Nat Rev Genet 12:615-627. CrossRef Medline · DOI · Paper page
- Lupski JR (2013) Genetics. Genome mosaicism: one human, multiple ge- nomes. Science 341:358 -359. CrossRef Medline · DOI
- Malone CD, Hannon GJ (2009) Molecular evolution of piRNA and trans- poson control pathways in Drosophila. Cold Spring Harb Symp Quant Biol 74:225-234. CrossRef Medline · DOI
- Mattick JS, Taft RJ, Faulkner GJ (2010) A global view of genomic informa- tion: moving beyond the gene and the master regulator. Trends Genet 26:21-28. CrossRef Medline · DOI
- McCarthy E, Petrakis I (2010) Epidemiology and management of alcohol dependence in individuals with post-traumatic stress disorder. CNS Drugs 24:997-1007. CrossRef Medline · DOI
- McClintock B (1951) Chromosome organization and genic expression. Cold Spring Harb Symp Quant Biol 16:13-47. CrossRef Medline · DOI
- McClintock B (1984) The significance of responses of the genome to chal- lenge. Science 226:792-801. CrossRef Medline · DOI
- Moran JV, Holmes SE, Naas TP, DeBerardinis RJ, Boeke JD, Kazazian HH Jr (1996) High frequency retrotransposition in cultured mammalian cells. Cell 87:917-927. CrossRef Medline · DOI · Paper page
- Moran JV, DeBerardinis RJ, Kazazian HH Jr (1999) Exon shuffling by L1 retrotransposition. Science 283:1530 -1534. CrossRef Medline · DOI
- Moss WN, Eickbush DG, Lopez MJ, Eickbush TH, Turner DH (2011) The R2 retrotransposon RNA families. RNA Biol 8:714 -718. CrossRef Medline · DOI
- Moyes D, Griffiths DJ, Venables PJ (2007) Insertional polymorphisms: a new lease of life for endogenous retroviruses in human disease. Trends Genet 23:326 -333. CrossRef Medline · DOI
- Mukamel Z, Tanay A (2013) Hypomethylation marks enhancers within transposable elements. Nat Genet 45:717-718. CrossRef Medline · DOI
- Muotri AR, Chu VT, Marchetto MC, Deng W, Moran JV, Gage FH (2005) Somatic mosaicism in neuronal precursor cells mediated by L1 retro- transposition. Nature 435:903-910. CrossRef Medline · DOI · Paper page
- Muotri AR, Zhao C, Marchetto MC, Gage FH (2009) Environmental influ- ence on L1 retrotransposons in the adult hippocampus. Hippocampus 19:1002-1007. CrossRef Medline · DOI
- Muotri AR, Marchetto MC, Coufal NG, Oefner R, Yeo G, Nakashima K, Gage FH (2010) L1 retrotransposition in neurons is modulated by MeCP2. Nature 468:443-446. CrossRef Medline · DOI · Paper page
- Nakamura TM, Cech TR (1998) Reversing time: origin of telomerase. Cell 92:587-590. CrossRef Medline · DOI
- Navarro C, Bullock S, Lehmann R (2009) Altered dynein-dependent trans- port in piRNA pathway mutants. Proc Natl Acad Sci U S A 106:9691- 9696. CrossRef Medline · DOI
- Nellåker C, Keane TM, Yalcin B, Wong K, Agam A, Belgard TG, Flint J, Adams DJ, Frankel WN, Ponting CP (2012) The genomic landscape shaped by selection on transposable elements across 18 mouse strains. Genome Biol 13:R45. CrossRef Medline · DOI
- Nixon K (2006) Alcohol and adult neurogenesis: roles in neurodegenera- tion and recovery in chronic alcoholism. Hippocampus 16:287-295. CrossRef Medline · DOI
- Orgel LE, Crick FH (1980) Selfish DNA: the ultimate parasite. Nature 284: 604 -607. CrossRef Medline · DOI
- Perrat PN, DasGupta S, Wang J, Theurkauf W, Weng Z, Rosbash M, Waddell S (2013) Transposition-driven genomic heterogeneity in the Drosoph- ila brain. Science 340:91-95. CrossRef Medline · DOI
- Pfefferbaum A, Rosenbloom M, Rohlfing T, Sullivan EV (2009) Degrada- tion of association and projection white matter systems in alcoholism detected with quantitative fiber tracking. Biol Psychiatry 65:680 -690. CrossRef Medline · DOI
- Pignatelli PM, Mackay TF (1989) Hybrid dysgenesis-induced response to selection in Drosophila melanogaster. Genet Res 54:183-195. CrossRef Medline · DOI
- Ponomarev I, Rau V, Eger EI, Harris RA, Fanselow MS (2010) Amygdala transcriptome and cellular mechanisms underlying stress-enhanced fear learning in a rat model of posttraumatic stress disorder. Neuropsychop- harmacology 35:1402-1411. CrossRef Medline · DOI
- Ponomarev I, Wang S, Zhang L, Harris RA, Mayfield RD (2012) Gene co- expression networks in human brain identify epigenetic modifications in alcohol dependence. J Neurosci 32:1884 -1897. CrossRef Medline · DOI
- Radley JJ, Kabbaj M, Jacobson L, Heydendael W, Yehuda R, Herman JP (2011) Stress risk factors and stress-related pathology: neuroplasticity, epigenetics and endophenotypes. Stress 14:481-497. CrossRef Medline · DOI
- Raiz J, Damert A, Chira S, Held U, Klawitter S, Hamdorf M, Lo ¨wer J, Stra ¨tling WH, Lo ¨wer R, Schumann GG (2012) The non-autonomous retrotrans- poson SVA is trans-mobilized by the human LINE-1 protein machinery. Nucleic Acids Res 40:1666 -1683. CrossRef Medline · DOI
- Rau V, Fanselow MS (2009) Exposure to a stressor produces a long lasting en- hancement of fear learning in rats. Stress 12:125-133. CrossRef Medline · DOI
- Rau V, DeCola JP, Fanselow MS (2005) Stress-induced enhancement of fear learning: an animal model of posttraumatic stress disorder. Neurosci Biobehav Rev 29:1207-1223. CrossRef Medline · DOI
- Robison AJ, Nestler EJ (2011) Transcriptional and epigenetic mechanisms of addiction. Nat Rev Neurosci 12:623-637. CrossRef Medline · DOI · Paper page
- Sephton CF, Cenik C, Kucukural A, Dammer EB, Cenik B, Han Y, Dewey CM, Roth FP, Herz J, Peng J, Moore MJ, Yu G (2011) Identification of neu- ronal RNA targets of TDP-43-containing ribonucleoprotein complexes. J Biol Chem 286:1204 -1215. CrossRef Medline · DOI
- Shan X, Chiang PM, Price DL, Wong PC (2010) Altered distributions of Gemini of coiled bodies and mitochondria in motor neurons of TDP-43 transgenic mice. Proc Natl Acad Sci U S A 107:16325-16330. CrossRef Medline · DOI
- Singer T, McConnell MJ, Marchetto MC, Coufal NG, Gage FH (2010) LINE-1 retrotransposons: mediators of somatic variation in neuronal ge- nomes? Trends Neurosci 33:345-354. CrossRef Medline · DOI
- Slotkin RK, Martienssen R (2007) Transposable elements and the epigenetic regulation of the genome. Nat Rev Genet 8:272-285. CrossRef Medline · DOI · Paper page
- Solyom S, Ewing AD, Rahrmann EP, Doucet T, Nelson HH, Burns MB, Harris RS, Sigmon DF, Casella A, Erlanger B, Wheelan S, Upton KR, Shukla R, Faulkner GJ, Largaespada DA, Kazazian HH Jr (2012) Exten- sive somatic L1 retrotransposition in colorectal tumors. Genome Res 22: 2328 -2338. CrossRef Medline · DOI
- Tan H, Qurashi A, Poidevin M, Nelson DL, Li H, Jin P (2012) Retrotrans- poson activation contributes to fragile X premutation rCGG-mediated neurodegeneration. Hum Mol Genet 21:57-65. CrossRef Medline · DOI · Paper page
- Thomas CA, Paquola AC, Muotri AR (2012) LINE-1 retrotransposition in the nervous system. Annu Rev Cell Dev Biol 28:555-573. CrossRef Medline · DOI
- Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B, Garg K, John S, Sand- strom R, Bates D, Boatman L, Canfield TK, Diegel M, Dunn D, Ebersol AK, Frum T, et al. (2012) The accessible chromatin landscape of the human genome. Nature 489:75-82. CrossRef Medline · DOI · Paper page
- Tollervey JR, Curk T, Rogelj B, Briese M, Cereda M, Kayikci M, Ko ¨nig J, Hortoba ´gyi T, Nishimura AL, Zupunski V, Patani R, Chandran S, Rot G, Zupan B, Shaw CE, Ule J (2011) Characterizing the RNA targets and position-dependent splicing regulation by TDP-43. Nat Neurosci 14:452- 458. CrossRef Medline · DOI · Paper page
- Treangen TJ, Salzberg SL (2012) Repetitive DNA and next-generation se- quencing: computational challenges and solutions. Nat Rev Genet 13:36 - 46. CrossRef Medline · DOI
- Upton KR, Baillie JK, Faulkner GJ (2011) Is somatic retrotransposition a parasitic or symbiotic phenomenon? Mob Genet Elements 1:279 -282. CrossRef Medline · DOI
- Wagner GP, Zhang J (2011) The pleiotropic structure of the genotype- phenotype map: the evolvability of complex organisms. Nat Rev Genet 12:204 -213. CrossRef Medline · DOI
- Wanichnopparat W, Suwanwongse K, Pin-On P, Aporntewan C, Mutiran- gura A (2013) Genes associated with the cis-regulatory functions of in- tragenic LINE-1 elements. BMC Genomics 14:205. CrossRef Medline · DOI
- Ward LD, Kellis M (2012) Interpreting noncoding genetic variation in com- plex traits and human disease. Nat Biotechnol 30:1095-1106. CrossRef Medline · DOI · Paper page
- Wei W, Gilbert N, Ooi SL, Lawler JF, Ostertag EM, Kazazian HH, Boeke JD, Moran JV (2001) Human L1 retrotransposition: cis preference versus trans complementation. Mol Cell Biol 21:1429 -1439. CrossRef Medline · DOI
- Whitelaw E, Martin DI (2001) Retrotransposons as epigenetic mediators of phenotypic variation in mammals. Nat Genet 27:361-365. CrossRef Medline · DOI
- Wilda M, Ba ¨chner D, Zechner U, Kehrer-Sawatzki H, Vogel W, Hameister H (2000) Do the constraints of human speciation cause expression of the same set of genes in brain, testis, and placenta? Cytogenet Cell Genet 91:300 -302. CrossRef Medline · DOI
- Witherspoon DJ, Wooding S, Rogers AR, Marchani EE, Watkins WS, Batzer MA, Jorde LB (2007) Genetic similarities within and between human populations. Genetics 176:351-359. CrossRef Medline · DOI
- Xie M, Hong C, Zhang B, Lowdon RF, Xing X, Li D, Zhou X, Lee HJ, Maire CL, Ligon KL, Gascard P, Sigaroudinia M, Tlsty TD, Kadlecek T, Weiss A, O'Geen H, Farnham PJ, Madden PA, Mungall AJ, Tam A, et al. (2013) DNA hypomethylation within specific transposable element families as- sociates with tissue-specific enhancer landscape. Nat Genet 45:836 -841. CrossRef Medline · DOI
- Xiong YE, Eickbush TH (1988b) Functional expression of a sequence- specific endonuclease encoded by the retrotransposon R2Bm. Cell 55: 235-246. CrossRef Medline · DOI
- Zahr NM, Kaufman KL, Harper CG (2011) Clinical and pathological fea- tures of alcohol-related brain damage. Nat Rev Neurol 7:284 -294. CrossRef Medline · DOI
- Zhang L, Rong YS (2012) Retrotransposons at Drosophila telomeres: host domestication of a selfish element for the maintenance of genome integ- rity. Biochim Biophys Acta 1819:771-775. CrossRef Medline · DOI
- Zimmerly S, Guo H, Perlman PS, Lambowitz AM (1995) Group II intron mobility occurs by target DNA-primed reverse transcription. Cell 82: 545-554. CrossRef Medline · DOI
Cited by
Sorted by citations
Mechanisms of stress in the brain
McEwen, B. S., Bowles, N. P., Gray, J. D., Hill, M. N., Hunter, R. G., Karatsoreos, I. N., & Nasca, C. (2015) · Nature Neuroscience · doi:10.1038/nn.4086 · Cited by 1,386 · see citing works
Pal, S., & Tyler, J. K. (2016) · Science Advances · doi:10.1126/sciadv.1600584 · Cited by 860 · see citing works
Epigenetic regulation of ageing: linking environmental inputs to genomic stability
Benayoun, B. A., Pollina, E. A., & Brunet, A. (2015) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm4048 · Cited by 610 · see citing works
LINE1 Derepression in aged wild-type and SIRT6-deficient mice drives inflammation
Simon, M., Van Meter, M., Ablaeva, J., Ke, Z., Gonzalez, R. S., Taguchi, T., De Cecco, M., Leonova, K. I., Kogan, V., Helfand, S. L., et al. (2019) · Cell Metabolism · doi:10.1016/j.cmet.2019.02.014 · Cited by 498 · see citing works
The quest to slow ageing through drug discovery
Partridge, L., Fuentealba, M., & Kennedy, B. K. (2020) · Nature Reviews Drug Discovery · doi:10.1038/s41573-020-0067-7 · Cited by 468 · see citing works
Restricting retrotransposons: a review
Goodier, J. L. (2016) · Mobile DNA · doi:10.1186/s13100-016-0070-z · Cited by 436 · see citing works
Van Meter, M., Kashyap, M., Rezazadeh, S., Geneva, A. J., Morello, T. D., Seluanov, A., & Gorbunova, V. (2014) · Nature Communications · doi:10.1038/ncomms6011 · Cited by 455 · see citing works
“Consistent with this observation, L1 activity has been implicated in a variety of age-related disorders 12 , including cancer 7,13 and neurodegeneration 14,15 .”
Sun, W., Samimi, H., Gamez, M., Zare, H., & Frost, B. (2018) · Nature Neuroscience · doi:10.1038/s41593-018-0194-1 · Cited by 315 · see citing works
Cell lineage analysis in human brain using endogenous retroelements
Evrony, G. D., Lee, E., Mehta, B. K., Benjamini, Y., Johnson, R. M., Cai, X., Yang, L., Haseley, P., Lehmann, H. S., Park, P. J., et al. (2015) · Neuron · doi:10.1016/j.neuron.2014.12.028 · Cited by 269 · see citing works
Resolving rates of mutation in the brain using single-neuron genomics
Evrony, G. D., Lee, E., Park, P. J., & Walsh, C. A. (2016) · eLife · doi:10.7554/elife.12966 · Cited by 163 · see citing works
A comparative atlas of single-cell chromatin accessibility in the human brain
Li, Y. E., Preissl, S., Miller, M., Johnson, N. D., Wang, Z., Jiao, H., Zhu, C., Wang, Z., Xie, Y., Poirion, O., et al. (2023) · Science · doi:10.1126/science.adf7044 · Cited by 173 · see citing works
Gamdzyk, M., Doycheva, D. M., Araujo, C., Ocak, U., Luo, Y., Tang, J., & Zhang, J. H. (2020) · Molecular Neurobiology · doi:10.1007/s12035-020-01904-7 · Cited by 127 · see citing works
Chen, H., Zheng, X., Xiao, D., & Zheng, Y. (2016) · Aging Cell · doi:10.1111/acel.12465 · Cited by 107 · see citing works
Zhao, B., Wu, Q., Ye, A. Y., Guo, J., Zheng, X., Yang, X., Yan, L., Liu, Q.-R., Hyde, T. M., Wei, L., et al. (2019) · PLOS Genetics · doi:10.1371/journal.pgen.1008043 · Cited by 83 · see citing works
Genome to Phenome: A Systems Biology Approach to PTSD Using an Animal Model
Chakraborty, N., Meyerhoff, J., Jett, M., & Hammamieh, R. (2017) · Methods in Molecular Biology · doi:10.1007/978-1-4939-6952-4_6 · Cited by 14 · see citing works
What would it take to prove that a chronic infection is a causal agent in Alzheimer’s disease?
Brutkiewicz, R. R., Cao, W., Morgan, D., Reis, R. S. D., Suryadevara, V., Willette, A. A., Willette, S. A., Wyatt-Johnson, S. K., & Duggan, M. R. (2025) · Trends in Neurosciences · doi:10.1016/j.tins.2025.05.009 · Cited by 3 · see citing works
- Authors
- Reilly, M. T., Faulkner, G. J., Dubnau, J., Ponomarev, I., & Gage, F. H.
- Affiliations
- Cold Spring Harbor Laboratory (US)
- The University of Texas at Austin (US)
- Salk Institute for Biological Studies (US)
- Venue
- The Journal of Neuroscience
- Publisher
- Society for Neuroscience
- Published
- 2013-11-06
- Volume
- 33
- Issue
- 45
- Pages
- 17577-17586
- ISSN
- 0270-6474 (ISSN-L)
- 1529-2401
- PMC
- PMC3818539
- OpenAlex
- W2170687235
- Cited by
- 175
- References
- 13
- Citations by year
- 2026: 8 · 2025: 12 · 2024: 8 · 2023: 5 · 2022: 11 · 2021: 17 · 2020: 13 · 2019: 17 · 2018: 21 · 2017: 17 · 2016: 15 · 2015: 16 · 2014: 14
- FWCI
- 1.61
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Journal of Neuroscience (publishedVersion, cc-by-nc-sa)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory) (acceptedVersion)
- Funders
- National Institutes of Health (AA013517)
- Medical Research Council
- National Health and Medical Research Council (1045237, 1045991, 1042449)
- National Institute on Alcohol Abuse and Alcoholism (K01AA017234, AA013517, AA013476, U01AA013517, AA017234, U24AA013517, U01AA013476)
- National Institute of Mental Health (R01MH088485, R01MH095741)
- National Institute of Neurological Disorders and Stroke (R01NS067690)
- Telemedicine and Advanced Technology Research Center
- Topics
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomic variations and chromosomal abnormalities
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetics and Neurodevelopmental Disorders
- Keywords
- transposable elements, central nervous system, brain, gene expression networks, neuroplasticity, disease susceptibility
- MeSH terms
- Central Nervous System, Central Nervous System Diseases, DNA Transposable Elements, Humans, Genome
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review