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Method: Targeted chromosomal deletions and inversions in zebrafish
- Ankit Gupta,
- Victoria L. Hall,
- Fatma O. Kok,
- Masahiro Shin,
- Joseph C. McNulty,
- Nathan D. Lawson,
- and Scot A. Wolfe
Genome Res. June 2013 23: 1008-1017; Published in Advance March 11, 2013, doi:10.1101/gr.154070.112
...: e45035. Maresca M, Lin VG, Guo N, Yang Y. 2013. Obligate Ligation-Gated Recombination (ObLiGaRe): Custom designed nucleases mediated targeted integration through non-homologous end joining. Genome Res 23: 539–546. Meng X, Noyes MB, Zhu LJ, Lawson ND, Wolfe SA. 2008. Targeted gene inactivation...
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Method: A HIT-trapping strategy for rapid generation of reversible and conditional alleles using a universal donor
- Hengxing Lu,
- Jun Liu,
- Tao Feng,
- Zihang Guo,
- Yunjun Yin,
- Fei Gao,
- Gengsheng Cao,
- Xuguang Du,
- and Sen Wu
Genome Res. May 2021 31: 900-909; Published in Advance April 1, 2021, doi:10.1101/gr.271312.120
.... Nat Commun 6: 10237. doi:10.1038/ncomms10237 ↵Maresca M, Lin VG, Guo N, Yang Y. 2013. Obligate ligation-gated recombination (ObLiGaRe): custom-designed nuclease-mediated targeted integration through nonhomologous end joining. Genome Res 23: 539–546. doi:10.1101/gr.145441.112 ↵Mehravar M, Shirazi A...
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Method: Efficient gene targeting by homology-directed repair in rat zygotes using TALE nucleases
- Séverine Remy,
- Laurent Tesson,
- Séverine Menoret,
- Claire Usal,
- Anne De Cian,
- Virginie Thepenier,
- Reynald Thinard,
- Daniel Baron,
- Marine Charpentier,
- Jean-Baptiste Renaud,
- Roland Buelow,
- Gregory J. Cost,
- Carine Giovannangeli,
- Alexandre Fraichard,
- Jean-Paul Concordet,
- and Ignacio Anegon
Genome Res. August 2014 24: 1371-1383; Published in Advance July 2, 2014, doi:10.1101/gr.171538.113
...(indels) that result from imprecise repair of nuclease-induced DNA double-strand breaks by the nonhomologous end joining (NHEJ)mechanism. In addition, the presence of donor DNA allows either the insertion of exogenous genetic information or the replacement of an endogenous sequence by the one of interest...
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Method: Highly efficient CRISPR/Cas9-mediated knock-in in zebrafish by homology-independent DNA repair
- Thomas O. Auer,
- Karine Duroure,
- Anne De Cian,
- Jean-Paul Concordet,
- and Filippo Del Bene
Genome Res. January 2014 24: 142-153; Published in Advance October 31, 2013, doi:10.1101/gr.161638.113
..., as was shown nearly 20 years ago using the homing endonuclease ISceI, efficiently stimulate homologous recombination (HR) with a gene targeting vector in cultured cells and plants (Jasin 1996). Several types of artificial nucleases can now be designed to make the initial DSB that induces modification...
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Research: Massive reshaping of genome–nuclear lamina interactions during oncogene-induced senescence
- Christelle Lenain,
- Carolyn A. de Graaf,
- Ludo Pagie,
- Nils L. Visser,
- Marcel de Haas,
- Sandra S. de Vries,
- Daniel Peric-Hupkes,
- Bas van Steensel,
- and Daniel S. Peeper
Genome Res. October 2017 27: 1634-1644; Published in Advance September 15, 2017, doi:10.1101/gr.225763.117
...-LMNB1 by screening for Dam methylation levels as determined by DpnIIqPCR assays (Kind et al. 2013). Based on this, we selected clone #5F5. Next, we established a LBR knockout subclone of #5F5 using CRISPR/Cas9 technology in combination with the ObLiGaRe system for selection (Maresca et al. 2013...

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