Complemented Palindromic Small RNAs First Discovered from SARS Coronavirus
Abstract
:1. Introduction
2. Materials and Methods
2.1. Datasets and Data Analysis
2.2. RNAi and Cellular Experiments
3. Results
3.1. Comparison of siRNA Duplexes Induced by Plant, Invertebrate, and Mammalian Viruses
3.2. Discovery of psRNAs and cpsRNAs
3.3. Clues to Origins of SARS-CoV-cpsR-19
3.4. Preliminary Studies on Biological Functions of SARS-CoV-cpsR-19
4. Conclusions and Discussion
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Gene Symbol | Forward Primer | Reverse Primer |
---|---|---|
GAPDH | ACATCGCTCAGACACCATG | TGTAGTTGAGGTCAATGAAGGG |
BAX | AGTAACATGGAGCTGCAGAG | AGTAGAAAAGGGCGACAACC |
BCL2 | GTGGATGACTGAGTACCTGAAC | GCCAGGAGAAATCAAACAGAGG |
CASP3 | ACTGGACTGTGGCATTGAG | GAGCCATCCTTTGAATTTCGC |
MDL1 * | CCCAATCCACATCAAAACCC | GGACGAGAAGGGATTTGACTG |
DNA Complemented Palindrome | Start | End | Length | GC% | Tm | MFE |
---|---|---|---|---|---|---|
GGTAACTATAAAGTTACC | 1783 | 1800 | 18 | 33 | 20 | −6.9 |
AATGTGAGAATCACATT | 2779 | 2795 | 17 | 29 | 18 | −4.4 |
AAGAAACTAAGTTTCTT | 3923 | 3939 | 17 | 24 | 18 | −3.5 |
ATGGTAAGCTTTACCAT | 3971 | 3987 | 17 | 35 | 18 | −4.5 |
AAATGCAAATCTGCATTT | 4234 | 4251 | 18 | 28 | 18 | −4.9 |
ATATGTCTATGACATAT | 4949 | 4965 | 17 | 24 | 18 | −4.3 |
CCTCATGTAAATCATGAGG | 5020 | 5038 | 19 | 42 | 22 | −9.0 |
ATAACAATTGTTAT | 5207 | 5220 | 14 | 14 | 12 | −0.9 |
ACTTCAACAGCTTGAAGT | 5241 | 5258 | 18 | 39 | 18 | −4.7 |
ACTTCAAATTCATTTGAAGT | 6256 | 6275 | 20 | 25 | 20 | −5.5 |
GTACTTTTACTAAAAGTAC | 6734 | 6752 | 19 | 26 | 20 | −4.6 |
ATCTACCAGTGGTAGAT | 9189 | 9205 | 17 | 41 | 20 | −6.5 |
TTACCTTCCAAGGTAA | 10,892 | 10,907 | 16 | 38 | 16 | −4.0 |
CCACTTATTAAGTGG | 14,160 | 14,174 | 15 | 40 | 18 | −4.7 |
CCCATTTAATAAATGGG | 14,882 | 14,898 | 17 | 35 | 20 | −5.7 |
CAGTGACAATGTCACTG | 16,463 | 16,479 | 17 | 47 | 22 | −7.7 |
CACCTTTGAAAAAGGTG | 16,760 | 16,776 | 17 | 41 | 20 | −5.6 |
TGTAAGAGAATTTCTTACA | 17,651 | 17,669 | 19 | 26 | 18 | −5.3 |
TGAATATGACTATGTCATATTCA | 17,783 | 17,805 | 23 | 26 | 26 | −9.7 |
CTACTTTAAGAAAGTAG | 20,081 | 20,097 | 17 | 29 | 18 | −3.6 |
AGCATTCTTGGAATGCT | 21,106 | 21,122 | 17 | 41 | 20 | −6.1 |
TTCCTCTTAAATTAAGAGGAA | 21,337 | 21,357 | 21 | 29 | 22 | −9.1 |
GCATTACTACAGAAGTAATGC | 23,599 | 23,619 | 21 | 38 | 22 | −7.9 |
AGCCCTTTATAAGGGCT | 25,480 | 25,496 | 17 | 47 | 22 | −8.7 |
TCTTTAACAAGCTTGTTAAAGA * | 25,962 | 25,983 | 22 | 27 | 20 | −7.2 |
CAACGGTACTATTACCGTTG | 26,406 | 26,425 | 20 | 45 | 24 | −9.0 |
ACCTTCATGAAGGT | 28,048 | 28,061 | 14 | 43 | 14 | −2.6 |
GCAAATTGCACAATTTGC * | 29,028 | 29,045 | 18 | 39 | 18 | −4.0 |
TAAAATTAATTTTA | 29,668 | 29,681 | 14 | 0 | NA | NA |
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Liu, C.; Chen, Z.; Hu, Y.; Ji, H.; Yu, D.; Shen, W.; Li, S.; Ruan, J.; Bu, W.; Gao, S. Complemented Palindromic Small RNAs First Discovered from SARS Coronavirus. Genes 2018, 9, 442. https://doi.org/10.3390/genes9090442
Liu C, Chen Z, Hu Y, Ji H, Yu D, Shen W, Li S, Ruan J, Bu W, Gao S. Complemented Palindromic Small RNAs First Discovered from SARS Coronavirus. Genes. 2018; 9(9):442. https://doi.org/10.3390/genes9090442
Chicago/Turabian StyleLiu, Chang, Ze Chen, Yue Hu, Haishuo Ji, Deshui Yu, Wenyuan Shen, Siyu Li, Jishou Ruan, Wenjun Bu, and Shan Gao. 2018. "Complemented Palindromic Small RNAs First Discovered from SARS Coronavirus" Genes 9, no. 9: 442. https://doi.org/10.3390/genes9090442