High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma

BACKGROUND: Emerging transcriptome-wide high-throughput screenings reveal the landscape and functions of RNAs, such as circular RNAs (circRNAs), in human cancer. In addition, the post-transcriptional RNA internal modifications, especially N(6)-methyladenosine (m(6)A), greatly enrich the variety of R...

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Autores principales: Zhao, Wei, Liu, Jingwen, Wu, Jie, Ma, Xiaozhou, Wang, Xi, Zhang, Leyu, Han, Zhe, Yang, Jianming, Cui, Yameng, Hu, Xin, Deng, Jiayin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9400228/
https://www.ncbi.nlm.nih.gov/pubmed/35999496
http://dx.doi.org/10.1186/s12864-022-08806-z
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author Zhao, Wei
Liu, Jingwen
Wu, Jie
Ma, Xiaozhou
Wang, Xi
Zhang, Leyu
Han, Zhe
Yang, Jianming
Cui, Yameng
Hu, Xin
Deng, Jiayin
author_facet Zhao, Wei
Liu, Jingwen
Wu, Jie
Ma, Xiaozhou
Wang, Xi
Zhang, Leyu
Han, Zhe
Yang, Jianming
Cui, Yameng
Hu, Xin
Deng, Jiayin
author_sort Zhao, Wei
collection PubMed
description BACKGROUND: Emerging transcriptome-wide high-throughput screenings reveal the landscape and functions of RNAs, such as circular RNAs (circRNAs), in human cancer. In addition, the post-transcriptional RNA internal modifications, especially N(6)-methyladenosine (m(6)A), greatly enrich the variety of RNAs metabolism. However, the m(6)A modification on circRNAs has yet to be addressed. RESULTS: Here, we report an epitranscriptome-wide mapping of m(6)A-modified circRNAs (m(6)A-circRNA) in oral squamous cell carcinoma (OSCC). Utilizing the data of m(6)A methylated RNA immunoprecipitation sequencing (MeRIP-seq) and m(6)A-circRNAs microarray, we found that m(6)A-circRNAs exhibited particular modification styles in OSCC, which was independent of m(6)A-mRNA. Besides, m(6)A modification on circRNAs frequently occurred on the long exons in the front part of the coding sequence (CDS), which was distinct from m(6)A-mRNA that in 3’-UTR or stop codon. CONCLUSION: In conclusion, our work preliminarily demonstrates the traits of m(6)A-circRNAs, which may bring enlighten for the roles of m(6)A-circRNAs in OSCC. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08806-z.
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spelling pubmed-94002282022-08-25 High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma Zhao, Wei Liu, Jingwen Wu, Jie Ma, Xiaozhou Wang, Xi Zhang, Leyu Han, Zhe Yang, Jianming Cui, Yameng Hu, Xin Deng, Jiayin BMC Genomics Research BACKGROUND: Emerging transcriptome-wide high-throughput screenings reveal the landscape and functions of RNAs, such as circular RNAs (circRNAs), in human cancer. In addition, the post-transcriptional RNA internal modifications, especially N(6)-methyladenosine (m(6)A), greatly enrich the variety of RNAs metabolism. However, the m(6)A modification on circRNAs has yet to be addressed. RESULTS: Here, we report an epitranscriptome-wide mapping of m(6)A-modified circRNAs (m(6)A-circRNA) in oral squamous cell carcinoma (OSCC). Utilizing the data of m(6)A methylated RNA immunoprecipitation sequencing (MeRIP-seq) and m(6)A-circRNAs microarray, we found that m(6)A-circRNAs exhibited particular modification styles in OSCC, which was independent of m(6)A-mRNA. Besides, m(6)A modification on circRNAs frequently occurred on the long exons in the front part of the coding sequence (CDS), which was distinct from m(6)A-mRNA that in 3’-UTR or stop codon. CONCLUSION: In conclusion, our work preliminarily demonstrates the traits of m(6)A-circRNAs, which may bring enlighten for the roles of m(6)A-circRNAs in OSCC. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08806-z. BioMed Central 2022-08-23 /pmc/articles/PMC9400228/ /pubmed/35999496 http://dx.doi.org/10.1186/s12864-022-08806-z Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Zhao, Wei
Liu, Jingwen
Wu, Jie
Ma, Xiaozhou
Wang, Xi
Zhang, Leyu
Han, Zhe
Yang, Jianming
Cui, Yameng
Hu, Xin
Deng, Jiayin
High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title_full High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title_fullStr High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title_full_unstemmed High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title_short High-throughput microarray reveals the epitranscriptome-wide landscape of m(6)A-modified circRNA in oral squamous cell carcinoma
title_sort high-throughput microarray reveals the epitranscriptome-wide landscape of m(6)a-modified circrna in oral squamous cell carcinoma
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9400228/
https://www.ncbi.nlm.nih.gov/pubmed/35999496
http://dx.doi.org/10.1186/s12864-022-08806-z
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