References
Cong, L., Ran, F.A., Cox, D., Lin, S., Barretto, R., Habib, N., Hsu, P.D., Wu, X., Jiang, W., Marraffini, L.A., et al. (2013). Multiplex genome engineering using CRISPR/Cas systems. Science 339, 819–823.
Dörries, H.H., Remus, I., Grönewald, A., Grönewald, C., and Berghof-Jäger, K. (2010). Development of a qualitative, multiplex real-time PCR kit for screening of genetically modified organisms (GMOs). Anal Bioanal Chem 396, 2043–2054.
Huang, S., Weigel, D., Beachy, R.N., and Li, J. (2016). A proposed regulatory framework for genome-edited crops. Nat Genet 48, 109–111.
Huang, W., Li, L., Myers, J.R., and Marth, G.T. (2012). ART: a nextgeneration sequencing read simulator. Bioinformatics 28, 593–594.
Kent, W.J. (2002). BLAT—The BLAST-like alignment tool. Genome Res 12, 656–664.
Li, G., Liu, Y.G., and Chen, Y. (2019). Genome-editing technologies: the gap between application and policy. Sci China Life Sci 62, 1534–1538.
Li, H., and Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754–1760.
Puchta, H. (2018). Broadening the applicability of CRISPR/Cas9 in plants. Sci China Life Sci 61, 126–127.
Skryabin, B.V., Kummerfeld, D.M., Gubar, L., Seeger, B., Kaiser, H., Stegemann, A., Roth, J., Meuth, S.G., Pavenstädt, H., Sherwood, J., et al. (2020). Pervasive head-to-tail insertions of DNA templates mask desired CRISPR-Cas9–mediated genome editing events. Sci Adv 6, eaax2941.
Wang, C., Liu, Q., Shen, Y., Hua, Y., Wang, J., Lin, J., Wu, M., Sun, T., Cheng, Z., Mercier, R., et al. (2019). Clonal seeds from hybrid rice by simultaneous genome engineering of meiosis and fertilization genes. Nat Biotechnol 37, 283–286.
Young, A.E., Mansour, T.A., McNabb, B.R., Owen, J.R., Trott, J.F., Brown, C.T., and Van Eenennaam, A.L. (2020). Genomic and phenotypic analyses of six offspring of a genome-edited hornless bull. Nat Biotechnol 38, 225–232.
Acknowledgements
We thank Caixia Gao and Huawei Zhang for providing the Arabidopsis materials. This work was supported by the National Transgenic Science and Technology Program (2019ZX08010-003), the National Key Research and Development Program of China (2017YFD0102002), the Agricultural Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences, and the National Natural Science Foundation of China (31901523).
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Supplemental Table 1
The presently available reference genomes used in FED
Supplemental Table 2
Integration-sites results of simulation data
Supplemental Table 3
Integration-sites results of genome-edited rice
Supplemental Table 4
The primer of Sanger sequencing
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Liu, Q., Jiao, X., Meng, X. et al. FED: a web tool for foreign element detection of genome-edited organism. Sci. China Life Sci. 64, 167–170 (2021). https://doi.org/10.1007/s11427-020-1731-9
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DOI: https://doi.org/10.1007/s11427-020-1731-9