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Research: A transcriptome-wide systematic search does not detect A-to-I RNA editing in cis-antisense RNA duplexes
- Zohar Rosenwasser,
- Roni Cohen-Fultheim,
- Ofir Shliefer,
- Erez Y. Levanon,
- and Eli Eisenberg
Genome Res. March 12, 2026 ; Published in Advance March 12, 2026, doi:10.1101/gr.280820.125
.... Genome-wide quantification of ADAR adenosine-to-inosine RNA editing activity. Nat Methods 16: 1131–1138. doi:10.1038/s41592-019-0610-9 Schneider N, Steinberg R, Ben-David A, Valensi J, David-Kadoch G, Rosenwasser Z, Banin E, Levanon EY, Sharon D, Ben-Aroya S. 2024. A pipeline for identifying guide RNA...
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Research: Dynamic A-to-I RNA editing in response to gut microbiome in honeybees
- Yuange Duan,
- Min Huang,
- Lin Ye,
- Ling Ma,
- Yashuai Wu,
- Yating Du,
- Jiyao Liu,
- Fan Song,
- Li Tian,
- Wanzhi Cai,
- Hu Li,
- Xin Zhou,
- and Shiqi Luo
Genome Res. March 4, 2026 ; Published in Advance March 4, 2026, doi:10.1101/gr.280291.124
...of Plant Protection, China Agricultural University, Beijing 100193, China ADAR-mediated adenosine-to-inosine (A-to-I) mRNA editing contributes to the proteomic diversity and behavioral complexity of animals. Although recent studies indicate that the gut microbiome influences various aspects of animal...
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Research: RNA Pol II–dependent transcription efficiency fine-tunes A-to-I editing levels
- Brigitta Szabo,
- Therese C. Mandl,
- Bernhard Woldrich,
- Gregor Diensthuber,
- David Martin,
- Michael F. Jantsch,
- and Konstantin Licht
Genome Res. February 2024 34: 231-242; Published in Advance March 12, 2024, doi:10.1101/gr.277686.123
...to stress or other external stimuli (Licht and Jantsch 2016). In analogy to epigenetic mechanisms, this phenomenon has been termed epitranscriptomics (Schwartz 2016).One of the most prevalent epitranscriptomic processes is adenosine-to-inosine RNA editing (A-to-I editing). A-to-I editing is catalyzed...
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Research: Preferential formation of Z-RNA over intercalated motifs in long noncoding RNA
- Uditi Bhatt,
- Anne Cucchiarini,
- Yu Luo,
- Cameron W. Evans,
- Jean-Louis Mergny,
- K. Swaminathan Iyer,
- and Nicole M. Smith
Genome Res. February 2024 34: 217-230; Published in Advance February 14, 2024, doi:10.1101/gr.278236.123
...secondary structures in lncRNA.G4s form in certain guanine-rich regions through the self-assembly of guanines into planar quartets, which are stacked into a three-dimensional structure. G4 formation can alter gene expression by inhibiting initiation complex binding at mRNA transcripts, recruiting splicing...
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Research: Profiling neural editomes reveals a molecular mechanism to regulate RNA editing during development
- Suba Rajendren,
- Alfa Dhakal,
- Pranathi Vadlamani,
- Jack Townsend,
- Sarah N. Deffit,
- and Heather A. Hundley
Genome Res. January 2021 31: 27-39; Published in Advance December 18, 2020, doi:10.1101/gr.267575.120
...and growth of an organism, it is critical to understand how the specificity and efficiency of A-to-I RNA editing are regulated.A-to-I editing is essential for proper neuronal development in mammals (Li and Church 2013; Behm and Öhman 2016). Altered RNA editing levels in central nervous system (CNS...
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Research: RNA editing in nascent RNA affects pre-mRNA splicing
- Yun-Hua Esther Hsiao,
- Jae Hoon Bahn,
- Yun Yang,
- Xianzhi Lin,
- Stephen Tran,
- Ei-Wen Yang,
- Giovanni Quinones-Valdez,
- and Xinshu Xiao
Genome Res. June 2018 28: 812-823; Published in Advance May 3, 2018, doi:10.1101/gr.231209.117
...). Catalyzed by the Adenosine Deaminases Acting on RNA (ADARs), adenosine-to-inosine (A-to-I) editing is the most prevalent type of RNA editing in mammals (Nishikura 2010; Bazak et al. 2014). Inosine is recognized as guanosine (G) by most cellular machineries. As a result, A-to-I editing could alter regulatory...
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Research: A-to-I RNA editing contributes to the persistence of predicted damaging mutations in populations
- Te-Lun Mai and
- Trees-Juen Chuang
Genome Res. November 2019 29: 1766-1776; Published in Advance September 12, 2019, doi:10.1101/gr.246033.118
...Te-Lun Mai and Trees-Juen Chuang Genomics Research Center, Academia Sinica, Taipei 11529, Taiwan Corresponding author: trees@gate.sinica.edu.twAbstractAdenosine-to-inosine (A-to-I) RNA editing is a very common co-/posttranscriptional modification that can lead to A-to-G changes at the RNA level...
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Research: A-to-I RNA editing promotes developmental stage–specific gene and lncRNA expression
- Boaz Goldstein,
- Lily Agranat-Tamir,
- Dean Light,
- Orna Ben-Naim Zgayer,
- Alla Fishman,
- and Ayelet T. Lamm
Genome Res. March 2017 27: 462-470; Published in Advance December 28, 2016, doi:10.1101/gr.211169.116
...Genomics 15: 940. ↵Desterro JM, Keegan LP, Jaffray E, Hay RT, O'Connell MA, Carmo-Fonseca M. 2005. SUMO-1 modification alters ADAR1 editing activity. Mol Biol Cell 16: 5115–5126. ↵García-López J, Hourcade Jde D, Del Mazo J. 2013. Reprogramming of microRNAs by adenosine-to-inosine editing and the selective...
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Research: Systematic characterization of A-to-I RNA editing hotspots in microRNAs across human cancers
- Yumeng Wang,
- Xiaoyan Xu,
- Shuangxing Yu,
- Kang Jin Jeong,
- Zhicheng Zhou,
- Leng Han,
- Yiu Huen Tsang,
- Jun Li,
- Hu Chen,
- Lingegowda S. Mangala,
- Yuan Yuan,
- A. Karina Eterovic,
- Yiling Lu,
- Anil K. Sood,
- Kenneth L. Scott,
- Gordon B. Mills,
- and Han Liang
Genome Res. July 2017 27: 1112-1125; Published in Advance April 14, 2017, doi:10.1101/gr.219741.116
...from miRNA sequencing data of The Cancer Genome Atlas and identified 19 adenosine-to-inosine (A-to-I) RNA editing hotspots. We independently validated 15 of them by perturbation experiments in several cancer cell lines. These miRNA editing events show extensive correlations with key clinical variables...
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Research: Genome-wide A-to-I RNA editing in fungi independent of ADAR enzymes
- Huiquan Liu,
- Qinhu Wang,
- Yi He,
- Lingfeng Chen,
- Chaofeng Hao,
- Cong Jiang,
- Yang Li,
- Yafeng Dai,
- Zhensheng Kang,
- and Jin-Rong Xu
Genome Res. April 2016 26: 499-509; Published in Advance March 2, 2016, doi:10.1101/gr.199877.115
...-encoded messenger RNA (mRNA). One is the cytidine-to-uridine (C-to-U) RNA editing that is rare in mammals, such as the well-characterized target of APOB mRNA in human intestine (Powell et al. 1987). The other is the adenosine-to-inosine (A-to-I) editing, the most prevalent type of RNA editing known in the animal...
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