[1] Xu Yuming, Qi Ting, Gu Wanjun, Lu Zuhong, et al. Evolutionary selection on synonymous codons in RNAG-quadruplex structural region [J]. Journal of Southeast University (English Edition), 2021, 37 (2): 177-183. [doi:10.3969/j.issn.1003-7985.2021.02.007]
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Evolutionary selection on synonymous codons in RNAG-quadruplex structural region(
)
)Journal of Southeast University (English Edition)[ISSN:1003-7985/CN:32-1325/N]
- Volumn:
- 37
- Issue:
- 2021 2
- Page:
- 177-183
- Research Field:
- Biological Science and Medical Engineering
- Publishing date:
- 2021-06-20
Info
- Title:
- Evolutionary selection on synonymous codons in RNAG-quadruplex structural region
- Author(s):
- Xu Yuming; Qi Ting; Gu Wanjun; Lu Zuhong
- School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China
State Key Laboratory of Bioelectronics, Southeast University, Nanjing 210096, China
- PACS:
- Q311
- DOI:
- 10.3969/j.issn.1003-7985.2021.02.007
- Abstract:
- To investigate how synonymous codons have been adapted to the formation of ribonucleic acid(RNA)G-quadruplex(rG4)structure, a computational searching algorithm G4Hunter was applied to detect rG4 structures in protein-coding sequences of mRNAs in five eukaryotic species. The native sequences forming rG4s were then compared with randomized sequences to evaluate selection on synonymous codons. Factors that may influence the formation of rG4 were also investigated, and the selection pressures of rG4 in different gene regions were compared to explore its potential roles in gene regulation. The results show universal selective pressure acts on synonymous codons in rG4 regions to facilitate rG4 formation in five eukaryotic organisms. While G-rich codon combinations are preferred in the rG4 structural region, C-rich codon combinations are selectively unfavorable for rG4 formation. Gene’s codon usage bias, nucleotide composition, and evolutionary rate can account for the selective variations on synonymous codons among rG4 structures within a species. Moreover, rG4 structures in the translational initiation region showed significantly higher selective pressures than those in the translational elongation region.
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Memo
- Memo:
-
Biographies: Xu Yuming(1988—), male, Ph.D. candidate; Lu Zuhong(corresponding author), male, doctor, professor, zhlu@seu.edu.cn.
Foundation items: The National Key Research and Development Program of China(No. 2018YFC1314900, 2018YFC1314902), the National Natural Science Foundation of China(No. 61571109), the Fundamental Research Funds for the Central Universities(No. 2242017K3DN04).
Citation: Xu Yuming, Qi Ting, Gu Wanjun, et al.Evolutionary selection on synonymous codons in RNA G-quadruplex structural region[J].Journal of Southeast University(English Edition), 2021, 37(2):177-183.DOI:10.3969/j.issn.1003-7985.2021.02.007.