A comparative review of microRNA expression patterns in autism spectrum disorder

Frontiers in Psychiatry

Volumn 7, Issue NOV, 2016, Pages

  Hicks, Steven D ^a   Middleton, Frank A ^b  

^a PENN STATE COLLEGE OF MEDICINE   (United States)

^b State University of New York Upstate Medical University: College of Medicine   (United States)

Author keywords

Autism; Biomarker; MicroRNA; Neurodevelopment

Indexed keywords

BIOLOGICAL MARKER; MICRORNA;

ARTICLE; AUTISM; BRAIN; CLINICAL FEATURE; GENE EXPRESSION; GENE FUNCTION; GENE TARGETING; GENETIC ASSOCIATION; GENETIC DISORDER; HUMAN; NERVE CELL DIFFERENTIATION; OVERLAPPING GENE; PATHOGENESIS; PERIPHERAL NERVOUS SYSTEM; REGULATORY MECHANISM;

EID: 85006379771     PISSN: None     EISSN: 16640640     Source Type: Journal    
DOI: 10.3389/fpsyt.2016.00176     Document Type: Article

References (68)

1. Lee RC, Feinbaum RL, Ambros V. The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell (1993) 75(5):843-54. doi:10.1016/0092-8674(93)90529-Y
2. Wightman B, Ha I, Ruvkun G. Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans. Cell (1993) 75(5):855-62. doi:10.1016/0092-8674(93)90530-4
3. Lau NC, Lim LP, Weinstein EG, Bartel DP. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science (2001) 294(5543):858-62. doi:10.1126/science.1065062
4. Rodriguez A, Griffiths-Jones S, Ashurst JL, Bradley A. Identification of mammalian microRNA host genes and transcription units. Genome Res (2004) 14(10a):1902-10. doi:10.1101/gr.2722704
5. Schratt G. microRNAs at the synapse. Nat Rev Neurosci (2009) 10(12):842-9. doi:10.1038/nrn2763
6. Kos A, Loohuis NO, Meinhardt J, van Bokhoven H, Kaplan BB, Martens GJ, et al. MicroRNA-181 promotes synaptogenesis and attenuates axonal outgrowth in cortical neurons. Cell Mol Life Sci (2016) 73(18):3555-67. doi:10.1007/s00018-016-2179-0
7. Wang W, Kwon EJ, Tsai LH. MicroRNAs in learning, memory, and neurological diseases. Learn Mem (2012) 19(9):359-68. doi:10.1101/lm.026492.112
8. Abu-Elneel K, Liu T, Gazzaniga FS, Nishimura Y, Wall DP, Geschwind DH, et al. Heterogeneous dysregulation of microRNAs across the autism spectrum. Neurogenetics (2008) 9(3):153-61. doi:10.1007/s10048-008-0133-5
9. Talebizadeh Z, Butler MG, Theodoro MF. Feasibility and relevance of examining lymphoblastoid cell lines to study role of microRNAs in autism. Autism Res (2008) 1(4):240-50. doi:10.1002/aur.33
10. Sarachana T, Zhou R, Chen G, Manji HK, Hu VW. Investigation of post-transcriptional gene regulatory networks associated with autism spectrum disorders by microRNA expression profiling of lymphoblastoid cell lines. Genome Med (2010) 2(4):23. doi:10.1186/gm144
11. Seno MMG, Hu P, Gwadry FG, Pinto D, Marshall CR, Casallo G, et al. Gene and miRNA expression profiles in autism spectrum disorders. Brain Res (2011) 1380:85-97. doi:10.1016/j.brainres.2010.09.046
12. Popov NT, Madjirova NP, Minkov IN, Vachev TI. MicroRNA HSA-486-3P gene expression profiling in the whole blood of patients with autism. Biotechnol Biotechnol Equip (2012) 26(6):3385-8. doi:10.5504/BBEQ.2012.0093
13. Vasu MM, Anitha A, Thanseem I, Suzuki K, Yamada K, Takahashi T, et al. Serum microRNA profiles in children with autism. Mol Autism (2014) 5:40. doi:10.1186/2040-2392-5-40
14. Huang F, Long Z, Chen Z, Li J, Hu Z, Qiu R, et al. Investigation of gene regulatory networks associated with autism spectrum disorder based on MiRNA expression in China. PLoS One (2015) 10(6):e0129052. doi:10.1371/journal.pone.0129052
15. Hicks SD, Ignacio C, Gentile K, Middleton FA. Salivary miRNA profiles identify children with autism spectrum disorder, correlate with adaptive behavior, and implicate ASD candidate genes involved in neurodevelopment. BMC Pediatr (2016) 16:52. doi:10.1186/s12887-016-0586-x
16. Nguyen LS, Lepleux M, Makhlouf M, Martin C, Fregeac J, Siquier-Pernet K, et al. Profiling olfactory stem cells from living patients identifies miRNAs relevant for autism pathophysiology. Mol Autism (2016) 7(1):1. doi:10.1186/s13229-015-0064-6
17. Jin XF, Wu N, Wang L, Li J. Circulating microRNAs: a novel class of potential biomarkers for diagnosing and prognosing central nervous system diseases. Cell Mol Neurobiol (2013) 33(5):601-13. doi:10.1007/s10571-013-9940-9
18. Volkmar FR, Reichow B, Westphal A, Mandell DS. Autism and the autism spectrum: diagnostic concepts. In: Volkmar FR, editor. Handbook of Autism and Pervasive Developmental Disorders. 4th ed. Hoboken, NJ: John Wiley & Sons Inc. (2014). doi:10.1002/9781118911389.hautc01
19. Tsatsanis KD, Volkmar FR, Paul R, Klin A, Cohen D. Neuropsychological characteristics in autism and related conditions. In: Volkmar FR, Paul R, Klin A, Cohen D, editors. Handbook of Autism and Pervasive Developmental Disorders: Diagnosis, Development, Neurobiology, and Behavior. Vol. 1, 3rd ed. Hoboken, NJ: John Wiley & Sons Inc. (2014). p. 365-81. doi:10.1002/9780470939345.ch13
20. Developmental Disabilities Monitoring Network Surveillance Year 2010 Principal Investigators, Centers for Disease Control and Prevention (CDC). Prevalence of autism spectrum disorder among children aged 8 years-autism and developmental disabilities monitoring network, 11 sites, United States, 2010. MMWR Surveill Summ (2014) 63(2):1-21.
21. Barad DH, Kushnir VA, Albertini D, Gleicher N. CDC analysis of ICSI/autism: association is not causation. Hum Reprod (2015) 30(7):1745-6. doi:10.1093/humrep/dev104
22. Huguet G, Benabou M, Bourgeron T. The Genetics of Autism Spectrum Disorders. In a Time for Metabolism and Hormones. New York, NY: Springer International Publishing (2016). p. 101-29.
23. Bailey A, Le Couteur A, Gottesman I, Bolton P, Simonoff E, Yuzda E, et al. Autism as a strongly genetic disorder: evidence from a British twin study. Psychol Med (1995) 25(01):63-77. doi:10.1017/S0033291700028099
24. Pickles A, Bolton P, Macdonald H, Bailey A, Le Couteur A, Sim CH, et al. Latent-class analysis of recurrence risks for complex phenotypes with selection and measurement error: a twin and family history study of autism. Am J Hum Genet (1995) 57(3):717.
25. Gaugler T, Klei L, Sanders SJ, Bodea CA, Goldberg AP, Lee AB, et al. Most genetic risk for autism resides with common variation. Nat Genet (2014) 46(8):881-5. doi:10.1038/ng.3039
26. Huguet G, Ey E, Bourgeron T. The genetic landscapes of autism spectrum disorders. Annu Rev Genomics Hum Genet (2013) 14:191-213. doi:10.1146/annurev-genom-091212-153431
27. De Rubeis S, Buxbaum JD. Recent advances in the genetics of autism spectrum disorder. Curr Neurol Neurosci Rep (2015) 15(6):1-9. doi:10.1007/s11910-015-0553-1
28. Basu SN, Kollu R, Banerjee-Basu S. AutDB: a gene reference resource for autism research. Nucleic Acids Res (2009) 37:D832-6. doi:10.1093/nar/gkn835
29. Mazzio EA, Soliman KF. Basic concepts of epigenetics: impact of environmental signals on gene expression. Epigenetics (2012) 7(2):119-30. doi:10.4161/epi.7.2.18764
30. Miyake K, Hirasawa T, Koide T, Kubota T. Epigenetics in autism and other neurodevelopmental diseases. In: Ahmad SI, editor. Neurodegenerative Diseases. USA: Springer (2012). p. 91-8.
31. Rajalakshmi K. Epigenetics as a solution in autism: control above autism genes. Autism Open Access (2015) 5:e130. doi:10.4172/2165-7890.1000e130
32. Ross SA, Davis CD. The emerging role of microRNAs and nutrition in modulating health and disease. Annu Rev Nutr (2014) 34:305-36. doi:10.1146/annurev-nutr-071813-105729
33. Chen F, Hu SJ. Effect of microRNA-34a in cell cycle, differentiation, and apoptosis: a review. J Biochem Mol Toxicol (2012) 26(2):79-86. doi:10.1002/jbt.20412
34. Friedländer MR, Lizano E, Houben AJ, Bezdan D, Báñez-Coronel M, Kudla G, et al. Evidence for the biogenesis of more than 1,000 novel human microRNAs. Genome Biol (2014) 15(4):R57. doi:10.1186/gb-2014-15-4-r57
35. Agarwal V, Bell GW, Nam JW, Bartel DP. Predicting effective microRNA target sites in mammalian mRNAs. Elife (2015) 4:e05005. doi:10.7554/eLife.05005
36. Sun E, Shi Y. MicroRNAs: small molecules with big roles in neurodevelopment and diseases. Exp Neurol (2015) 268:46-53. doi:10.1016/j.expneurol.2014.08.005
37. Tritschler F, Huntzinger E, Izaurralde E. Role of GW182 proteins and PABPC1 in the miRNA pathway: a sense of déjà vu. Nat Rev Mol Cell Biol (2010) 11:379-84. doi:10.1038/nrm2885
38. Brennecke J, Stark A, Russell RB, Cohen SM. Principles of microRNA-target recognition. PLoS Biol (2005) 3(3):e85. doi:10.1371/journal.pbio.0030085
39. Friedman RC, Farth KK, Burge CB, Bartel DP. Most mammalian mRNAs are conserved targets of miRNAs. Genome Res (2009) 19(1):92-105. doi:10.1101/gr.082701.108
40. Weber JA, Baxter DH, Zhang S, Huang DY, Huang KH, Lee MJ, et al. The miRNA spectrum in 12 body fluids. Clin Chem (2010) 56(11):1733-41. doi:10.1373/clinchem.2010.147405
41. Adlakha YK, Saini N. Brain miRNAs and insights into biological functions and therapeutic potential of brain enriched miRNA-128. Mol Cancer (2014) 13:33. doi:10.1186/1476-4598-13-33
42. Ziats MN, Rennert OM. Identification of differentially expressed microRNAs across the developing human brain. Mol Psychiatry (2014) 19(7):848-52. doi:10.1038/mp.2013.93
43. Tonelli DDP, Pulvers JN, Haffner C, Murchison EP, Hannon GJ, Huttner WB. miRNAs are essential for survival and differentiation of newborn neurons but not for expansion of neural progenitors during early neurogenesis in the mouse embryonic neocortex. Development (2008) 135(23):3911-21. doi:10.1242/dev.025080
44. Davis TH, Cuellar TL, Koch SM, Barker AJ, Harfe BD, McManus MT, et al. Conditional loss of Dicer disrupts cellular and tissue morphogenesis in the cortex and hippocampus. J Neurosci (2008) 28(17):4322-30. doi:10.1523/JNEUROSCI.4815-07.2008
45. Im HI, Kenny PJ. MicroRNAs in neuronal function and dysfunction. Trends Neurosci (2012) 35(5):325-34. doi:10.1016/j.tins.2012.01.004
46. Karam R, Wilkinson M. A conserved microRNA/NMD regulatory circuit controls gene expression. RNA Biol (2012) 9(1):22-6. doi:10.4161/rna.9.1.18010
47. Zongaro S, Hukema R, D'Antoni S, Davidovic L, Barbry P, Catania MV, et al. The 3' UTR of FMR1 mRNA is a target of miR-101, miR-129-5p and miR-221: implications for the molecular pathology of FXTAS at the synapse. Hum Mol Genet (2013) 22(10):1971-82. doi:10.1093/hmg/ddt044
48. Schofield CM, Hsu R, Barker AJ, Gertz CC, Blelloch R, Ullian EM. Monoallelic deletion of the miRNA biogenesis gene Dgcr8 produces deficits in the development of excitatory synaptic transmission in the prefrontal cortex. Neural Dev (2011) 6(1):11. doi:10.1186/1749-8104-6-11
49. Fénelon K, Mukai J, Xu B, Hsu PK, Drew LJ, Karayiorgou M, et al. Deficiency of Dgcr8, a gene disrupted by the 22q11.2 microdeletion results in altered short-term plasticity in the prefrontal cortex. Proc Natl Acad Sci U S A (2011) 108(1):4447-52. doi:10.1073/pnas.1101219108
50. Issler O, Chen A. Determining the role of microRNAs in psychiatric disorders. Nat Rev Neurosci (2015) 16(4):201-12. doi:10.1038/nrn3879
51. Boccuto L, Lauri M, Sarasua SM, Skinner CD, Buccella D, Dwivedi A, et al. Prevalence of SHANK3 variants in patients with different subtypes of autism spectrum disorders. Eur J Hum Genet (2013) 21(3):310-6. doi:10.1038/ejhg.2012.175
52. Wu YE, Parikshak NN, Belgard TG, Geschwind DH. Genome-wide, integrative analysis implicates microRNA dysregulation in autism spectrum disorder. Nat Neurosci (2016). doi:10.1038/nn.4373
53. Mor M, Nardone S, Sams DS, Elliott E. Hypomethylation of miR-142 promoter and upregulation of microRNAs that target the oxytocin receptor gene in the autism prefrontal cortex. Mol Autism (2015) 6(1):1. doi:10.1186/s13229-015-0040-1
54. Ander BP, Barger N, Stamova B, Sharp FR, Schumann CM. Atypical miRNA expression in temporal cortex associated with dysregulation of immune, cell cycle, and other pathways in autism spectrum disorders. Mol Autism (2015) 6:37. doi:10.1186/s13229-015-0029-9
55. Wong N, Wang X. miRDB: an online resource for microRNA target prediction and functional annotations. Nucleic Acids Res (2015) 43(D1):D146-52. doi:10.1093/nar/gku1104
56. Huang DW, Sherman BT, Lempicki RA. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc (2009) 4(1):44-57. doi:10.1038/nprot.2008.211
57. Hutcheson HB, Olson LM, Bradford Y, Folstein SE, Santangelo SL, Sutcliffe JS, et al. Examination of NRCAM, LRRN3, KIAA0716, and LAMB1 as autism candidate genes. BMC Med Genet (2004) 5(1):1. doi:10.1186/1471-2156-5-1
58. Nakamura F, Kalb RG, Strittmatter SM. Molecular basis of semaphorin-mediated axon guidance. J Neurobiol (2000) 44(2):219-29. doi:10.1002/1097-4695(200008)44:2<219::AID-NEU11>3.0.CO;2-W
59. Hashimoto K, Iwata Y, Nakamura K, Tsujii M, Tsuchiya KJ, Sekine Y, et al. Reduced serum levels of brain-derived neurotrophic factor in adult male patients with autism. Prog Neuropsychopharmacol Biol Psychiatry (2006) 30(8):1529-31. doi:10.1016/j.pnpbp.2006.06.018
60. Stamova B, Ander BP, Barger N, Sharp FR, Schumann CM. Specific regional and age-related small Noncoding RNA expression patterns within superior temporal gyrus of typical human brains are less distinct in autism brains. J Child Neurol (2015) 30(14):1930-46. doi:10.1177/0883073815602067
61. Froehlich-Santino W, Tobon AL, Cleveland S, Torres A, Phillips J, Cohen B, et al. Prenatal and perinatal risk factors in a twin study of autism spectrum disorders. J Psychiatr Res (2014) 54:100-8. doi:10.1016/j.jpsychires.2014.03.019
62. Toma C, Torrico B, Hervás A, Salgado M, Rueda I, Valdés-Mas R, et al. Common and rare variants of microRNA genes in autism spectrum disorders. World J Biol Psychiatry (2015) 16(6):376-86. doi:10.3109/15622975.2015.1029518
63. Vaishnavi V, Manikandan M, Tiwary BK, Munirajan AK. Insights on the functional impact of microRNAs present in autism-associated copy number variants. PLoS One (2013) 8(2):e56781. doi:10.1371/journal.pone.0056781
64. Chaidez V, Hansen RL, Hertz-Picciotto I. Gastrointestinal problems in children with autism, developmental delays or typical development. J Autism Devel Disor (2014) 44(5):1117-27. doi:10.1007/s10803-013-1973-x
65. Cermak SA, Curtin C, Bandini L. Sensory sensitivity and food selectivity in children with autism spectrum disorders. In: Patel VB, Preedy VR, Martin CR, editors. Comprehensive Guide to Autism. New York: Springer (2014). p. 2061-76.
66. Tierney C, Mayes S, Lohs SR, Black A, Gisin E, Veglia M. How valid is the checklist for autism spectrum disorder when a child has apraxia of speech? J Dev Behav Pediatr (2015) 36(8):569-74. doi:10.1097/DBP.0000000000000189
67. Miller M, Chukoskie L, Zinni M, Townsend J, Trauner D. Dyspraxia, motor function and visual-motor integration in autism. Behav Brain Res (2014) 269:95-102. doi:10.1016/j.bbr.2014.04.011
68. Majem B, Rigau M, Reventós J, Wong DT. Non-coding RNAs in saliva: emerging biomarkers for molecular diagnostics. Int J Mol Sci (2015) 16(4):8676-98. doi:10.3390/ijms16048676