The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Computational Estimation and Experimental Verification of Off-Target Silencing during Posttranscriptional Gene Silencing in Plants
Open accessAbstract
Successful application of posttranscriptional gene silencing (PTGS) for gene function study in both plants and animals depends on high target specificity and silencing efficiency. By computational analysis with genome and/or transcriptome sequences of 25 plant species, we predicted that about 50% to 70% of gene transcripts in plants have potential off-targets when used for PTGS that could obscure experimental results. We have developed a publicly available Web-based computational tool called siRNA Scan to identify potential off-targets during PTGS. Some of the potential off-targets obtained from this tool were tested by measuring the amount of off-target transcripts using quantitative reverse transcription-PCR. Up to 50% of the predicted off-target genes tested in plants were actually silenced when tested experimentally. Our results suggest that a high risk of off-target gene silencing exists during PTGS in plants. Our siRNA Scan tool is useful to design better constructs for PTGS by minimizing off-target gene silencing in both plants and animals.
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Cites
Expression profiling reveals off-target gene regulation by RNAi
Jackson, A. L., Bartz, S. R., Schelter, J., Kobayashi, S. V., Burchard, J., Mao, M., Li, B., Cavet, G., & Linsley, P. S. (2003) · Nature Biotechnology · doi:10.1038/nbt831 · Cited by 2,370
Rational siRNA design for RNA interference
Reynolds, A., Leake, D., Boese, Q., Scaringe, S., Marshall, W. S., & Khvorova, A. (2004) · Nature Biotechnology · doi:10.1038/nbt936 · Cited by 2,094
3′ UTR seed matches, but not overall identity, are associated with RNAi off-targets
Birmingham, A., Anderson, E. M., Reynolds, A., Ilsley-Tyree, D., Leake, D., Fedorov, Y., Baskerville, S., Maksimova, E., Robinson, K., Karpilow, J., et al. (2006) · Nature Methods · doi:10.1038/nmeth854 · Cited by 920
Tolerance for mutations and chemical modifications in a siRNA
Amarzguioui, M. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg147 · Cited by 534
Cited by
Gene silencing in plants using artificial microRNAs and other small RNAs
Ossowski, S., Schwab, R., & Weigel, D. (2008) · The Plant Journal · doi:10.1111/j.1365-313x.2007.03328.x · Cited by 685
Tobacco rattle virus–based virus-induced gene silencing in Nicotiana benthamiana
Senthil-Kumar, M., & Mysore, K. S. (2014) · Nature Protocols · doi:10.1038/nprot.2014.092 · Cited by 381
Self-citationMolnar, A., Bassett, A., Thuenemann, E., Schwach, F., Karkare, S., Ossowski, S., Weigel, D., & Baulcombe, D. (2009) · The Plant Journal · doi:10.1111/j.1365-313x.2008.03767.x · Cited by 345
New dimensions for VIGS in plant functional genomics
Senthil-Kumar, M., & Mysore, K. S. (2011) · Trends in Plant Science · doi:10.1016/j.tplants.2011.08.006 · Cited by 314
Self-citationRevisiting CRISPR/Cas-mediated crop improvement: special focus on nutrition
Kaul, T., Sony, S. K., Verma, R., Motelb, K. F. A., Prakash, A. T., Eswaran, M., Bharti, J., Nehra, M., & Kaul, R. (2020) · Journal of Biosciences · doi:10.1007/s12038-020-00094-7 · Cited by 33
Metadata
- Authors
- Xu, P., Zhang, Y., Kang, L., Roossinck, M. J., & Mysore, K. S.
- Venue
- Plant Physiology
- Publisher
- Oxford University Press (OUP)
- Published
- 2006-08-18
- Volume
- 142
- Issue
- 2
- Pages
- 429-440
- ISSN
- 0032-0889 (ISSN-L)
- 1532-2548
- OpenAlex
- W2170290204
- Cited by
- 216
- References
- 4
- FWCI
- 11.62
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Xu, P., Zhang, Y., Kang, L., Roossinck, M. J., & Mysore, K. S. (2006). Computational Estimation and Experimental Verification of Off-Target Silencing during Posttranscriptional Gene Silencing in Plants. Plant Physiology. https://doi.org/10.1104/pp.106.083295
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