Systematic analyses reveal RNA editing events involved in skeletal muscle development of goat ( Capra hircus )
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ORIGINAL ARTICLE
Systematic analyses reveal RNA editing events involved in skeletal muscle development of goat (Capra hircus) Liu Yang 1 & Li Li 1 & Bismark Kyei 1 & Jiazhong Guo 1 & Siyuan Zhan 1 & Wei Zhao 1 & Yumo Song 3 & Tao Zhong 1 & Linjie Wang 1 & Lingyang Xu 2 & Hongping Zhang 1 Received: 22 November 2018 / Revised: 14 April 2020 / Accepted: 22 April 2020 # Springer-Verlag GmbH Germany, part of Springer Nature 2020
Abstract RNA editing is a posttranscriptional molecular process involved with specific nucleic modification, which can enhance the diversity of gene products. Adenosine-to-inosine (A-to-I, I is read as guanosine by both splicing and translation machinery) is the main type of RNA editing in mammals, which manifested as AG (adenosine-to-guanosine) in sequence data. Here, we aimed to explore patterns of RNA editing using RNA sequencing data from skeletal muscle at four developmental stages (three fetal periods and one postnatal period) in goat. We found the occurrences of RNA editing events raised at fetal periods and declined at the postnatal period. Also, we observed distinct editing levels of AG editing across stages, and significant difference was found between postnatal period and fetal periods. AG editing patterns in newborn goats are similar to those of 45-day embryo compared with embryo at 105 days and embryo at 60 days. In this study, we found a total of 1415 significantly differential edited AG sites among four groups. Moreover, 420 sites were obviously clustered into six time-series profiles, and one profile had significant association between editing level and gene expression. Our findings provided some novel insights into understanding the molecular mechanism of muscle development in mammals. Keywords RNA editing . Skeletal muscle development . Goat
Liu Yang and Li Li contributed equally to this work. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s10142-020-00741-0) contains supplementary material, which is available to authorized users. * Lingyang Xu [email protected]
Wei Zhao [email protected]
* Hongping Zhang [email protected]
Yumo Song [email protected]
Liu Yang [email protected]
Tao Zhong [email protected]
Li Li [email protected]
Linjie Wang [email protected]
Bismark Kyei [email protected] Jiazhong Guo [email protected] Siyuan Zhan [email protected]
1
Farm Animal Genetic Resources Exploration Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
2
Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China
3
Institute of Animal Nutrition, Sichuan Agricultural University, Chengdu 611130, China
Funct Integr Genomics
Introduction RNA editing discovered in trypanosomes is a posttranscriptional molecular process involved with specific nucleic modification (Benne et al., 1986; Keegan, Gallo, & O’Connell, 2001). It occurs in various organisms and diverse cellular locations through evolutionally an
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