Literature DB >> 16138094

Letter from the editor: Adenosine-to-inosine RNA editing in Alu repeats in the human genome.

Keren Levanon, Eli Eisenberg, Gideon Rechavi, Erez Y Levanon.   

Abstract

Adenosine-to-inosine (A-to-I) RNA editing increases the complexity of the human transcriptome and is essential for maintenance of normal life in mammals. Most A-to-I substitutions occur within repetitive elements in the genome, mainly in Alu repeats. The phenomenon of A-to-I editing is far less abundant in mice, rats, chickens and flies than in humans, which correlates with the relative under-representation of Alu repeats in these non-primate genomes. Here, we review the recent results of bioinformatic and laboratory approaches that have estimated the extent of the editing phenomenon. We discuss the possible biological relevance of the editing pathway, its possible interaction with other cellular pathways that respond to double-stranded RNA and its possible contribution to the accelerated evolution of primates.

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Year:  2005        PMID: 16138094      PMCID: PMC1369171          DOI: 10.1038/sj.embor.7400507

Source DB:  PubMed          Journal:  EMBO Rep        ISSN: 1469-221X            Impact factor:   8.807


  48 in total

1.  Initial sequencing and analysis of the human genome.

Authors:  E S Lander; L M Linton; B Birren; C Nusbaum; M C Zody; J Baldwin; K Devon; K Dewar; M Doyle; W FitzHugh; R Funke; D Gage; K Harris; A Heaford; J Howland; L Kann; J Lehoczky; R LeVine; P McEwan; K McKernan; J Meldrim; J P Mesirov; C Miranda; W Morris; J Naylor; C Raymond; M Rosetti; R Santos; A Sheridan; C Sougnez; Y Stange-Thomann; N Stojanovic; A Subramanian; D Wyman; J Rogers; J Sulston; R Ainscough; S Beck; D Bentley; J Burton; C Clee; N Carter; A Coulson; R Deadman; P Deloukas; A Dunham; I Dunham; R Durbin; L French; D Grafham; S Gregory; T Hubbard; S Humphray; A Hunt; M Jones; C Lloyd; A McMurray; L Matthews; S Mercer; S Milne; J C Mullikin; A Mungall; R Plumb; M Ross; R Shownkeen; S Sims; R H Waterston; R K Wilson; L W Hillier; J D McPherson; M A Marra; E R Mardis; L A Fulton; A T Chinwalla; K H Pepin; W R Gish; S L Chissoe; M C Wendl; K D Delehaunty; T L Miner; A Delehaunty; J B Kramer; L L Cook; R S Fulton; D L Johnson; P J Minx; S W Clifton; T Hawkins; E Branscomb; P Predki; P Richardson; S Wenning; T Slezak; N Doggett; J F Cheng; A Olsen; S Lucas; C Elkin; E Uberbacher; M Frazier; R A Gibbs; D M Muzny; S E Scherer; J B Bouck; E J Sodergren; K C Worley; C M Rives; J H Gorrell; M L Metzker; S L Naylor; R S Kucherlapati; D L Nelson; G M Weinstock; Y Sakaki; A Fujiyama; M Hattori; T Yada; A Toyoda; T Itoh; C Kawagoe; H Watanabe; Y Totoki; T Taylor; J Weissenbach; R Heilig; W Saurin; F Artiguenave; P Brottier; T Bruls; E Pelletier; C Robert; P Wincker; D R Smith; L Doucette-Stamm; M Rubenfield; K Weinstock; H M Lee; J Dubois; A Rosenthal; M Platzer; G Nyakatura; S Taudien; A Rump; H Yang; J Yu; J Wang; G Huang; J Gu; L Hood; L Rowen; A Madan; S Qin; R W Davis; N A Federspiel; A P Abola; M J Proctor; R M Myers; J Schmutz; M Dickson; J Grimwood; D R Cox; M V Olson; R Kaul; C Raymond; N Shimizu; K Kawasaki; S Minoshima; G A Evans; M Athanasiou; R Schultz; B A Roe; F Chen; H Pan; J Ramser; H Lehrach; R Reinhardt; W R McCombie; M de la Bastide; N Dedhia; H Blöcker; K Hornischer; G Nordsiek; R Agarwala; L Aravind; J A Bailey; A Bateman; S Batzoglou; E Birney; P Bork; D G Brown; C B Burge; L Cerutti; H C Chen; D Church; M Clamp; R R Copley; T Doerks; S R Eddy; E E Eichler; T S Furey; J Galagan; J G Gilbert; C Harmon; Y Hayashizaki; D Haussler; H Hermjakob; K Hokamp; W Jang; L S Johnson; T A Jones; S Kasif; A Kaspryzk; S Kennedy; W J Kent; P Kitts; E V Koonin; I Korf; D Kulp; D Lancet; T M Lowe; A McLysaght; T Mikkelsen; J V Moran; N Mulder; V J Pollara; C P Ponting; G Schuler; J Schultz; G Slater; A F Smit; E Stupka; J Szustakowki; D Thierry-Mieg; J Thierry-Mieg; L Wagner; J Wallis; R Wheeler; A Williams; Y I Wolf; K H Wolfe; S P Yang; R F Yeh; F Collins; M S Guyer; J Peterson; A Felsenfeld; K A Wetterstrand; A Patrinos; M J Morgan; P de Jong; J J Catanese; K Osoegawa; H Shizuya; S Choi; Y J Chen; J Szustakowki
Journal:  Nature       Date:  2001-02-15       Impact factor: 49.962

2.  Point mutation in an AMPA receptor gene rescues lethality in mice deficient in the RNA-editing enzyme ADAR2.

Authors:  M Higuchi; S Maas; F N Single; J Hartner; A Rozov; N Burnashev; D Feldmeyer; R Sprengel; P H Seeburg
Journal:  Nature       Date:  2000-07-06       Impact factor: 49.962

3.  The fate of dsRNA in the nucleus: a p54(nrb)-containing complex mediates the nuclear retention of promiscuously A-to-I edited RNAs.

Authors:  Z Zhang; G G Carmichael
Journal:  Cell       Date:  2001-08-24       Impact factor: 41.582

4.  HUGE: a database for human large proteins identified in the Kazusa cDNA sequencing project.

Authors:  Reiko Kikuno; Takahiro Nagase; Mina Waki; Osamu Ohara
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

5.  An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22.

Authors:  Adam Jarmuz; Ann Chester; Jayne Bayliss; Jane Gisbourne; Ian Dunham; James Scott; Naveenan Navaratnam
Journal:  Genomics       Date:  2002-03       Impact factor: 5.736

6.  Specific cleavage of hyper-edited dsRNAs.

Authors:  A D Scadden; C W Smith
Journal:  EMBO J       Date:  2001-08-01       Impact factor: 11.598

7.  Recently integrated human Alu repeats: finding needles in the haystack.

Authors:  A M Roy; M L Carroll; D H Kass; S V Nguyen; A H Salem; M A Batzer; P L Deininger
Journal:  Genetica       Date:  1999       Impact factor: 1.082

8.  Requirement of the RNA editing deaminase ADAR1 gene for embryonic erythropoiesis.

Authors:  Q Wang; J Khillan; P Gadue; K Nishikura
Journal:  Science       Date:  2000-12-01       Impact factor: 47.728

9.  Underediting of glutamate receptor GluR-B mRNA in malignant gliomas.

Authors:  S Maas; S Patt; M Schrey; A Rich
Journal:  Proc Natl Acad Sci U S A       Date:  2001-11-20       Impact factor: 11.205

10.  Substrate recognition by ADAR1 and ADAR2.

Authors:  S K Wong; S Sato; D W Lazinski
Journal:  RNA       Date:  2001-06       Impact factor: 4.942

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  26 in total

1.  Hypothesis: RNA editing of microRNA target sites in humans?

Authors:  Han Liang; Laura F Landweber
Journal:  RNA       Date:  2007-01-25       Impact factor: 4.942

2.  Widespread cleavage of A-to-I hyperediting substrates.

Authors:  Sivan Osenberg; Dan Dominissini; Gideon Rechavi; Eli Eisenberg
Journal:  RNA       Date:  2009-07-21       Impact factor: 4.942

Review 3.  Non-coding RNA transcripts: sensors of neuronal stress, modulators of synaptic plasticity, and agents of change in the onset of Alzheimer's disease.

Authors:  Georges St Laurent; Mohammad Ali Faghihi; Claes Wahlestedt
Journal:  Neurosci Lett       Date:  2009-08-20       Impact factor: 3.046

4.  Positive correlation between ADAR expression and its targets suggests a complex regulation mediated by RNA editing in the human brain.

Authors:  Noa Liscovitch; Lily Bazak; Erez Y Levanon; Gal Chechik
Journal:  RNA Biol       Date:  2014       Impact factor: 4.652

Review 5.  Long non-coding RNAs in nervous system function and disease.

Authors:  Irfan A Qureshi; John S Mattick; Mark F Mehler
Journal:  Brain Res       Date:  2010-04-07       Impact factor: 3.252

6.  Down-regulation of 21A Alu RNA as a tool to boost proliferation maintaining the tissue regeneration potential of progenitor cells.

Authors:  Arianna Gigoni; Delfina Costa; Massimiliano Gaetani; Roberta Tasso; Federico Villa; Tullio Florio; Aldo Pagano
Journal:  Cell Cycle       Date:  2016-08-05       Impact factor: 4.534

Review 7.  Paraspeckles.

Authors:  Archa H Fox; Angus I Lamond
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-06-23       Impact factor: 10.005

Review 8.  Unveiling Human Non-Random Genome Editing Mechanisms Activated in Response to Chronic Environmental Changes: I. Where Might These Mechanisms Come from and What Might They Have Led To?

Authors:  Loris Zamai
Journal:  Cells       Date:  2020-10-27       Impact factor: 6.600

9.  Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR).

Authors:  Oz Solomon; Shirley Oren; Michal Safran; Naamit Deshet-Unger; Pinchas Akiva; Jasmine Jacob-Hirsch; Karen Cesarkas; Reut Kabesa; Ninette Amariglio; Ron Unger; Gideon Rechavi; Eran Eyal
Journal:  RNA       Date:  2013-03-08       Impact factor: 4.942

Review 10.  Paraspeckles: nuclear bodies built on long noncoding RNA.

Authors:  Charles S Bond; Archa H Fox
Journal:  J Cell Biol       Date:  2009-08-31       Impact factor: 10.539

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