Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

Jeffry D. Sander; Elizabeth J. Dahlborg; Mathew J. Goodwin; Lindsay Cade; Feng Zhang; Daniel Cifuentes; Shaun J. Curtin; Jessica S. Blackburn; Stacey Thibodeau-Beganny; Yiping Qi; Christopher J. Pierick; Ellen Hoffman; Morgan L. Maeder; Cyd Khayter; Deepak Reyon; Drena Dobbs; David M. Langenau; Robert M. Stupar; Antonio J. Giraldez; Daniel F. Voytas; Randall T. Peterson; Jing Ruey J. Yeh; J. Keith Joung

doi:10.1038/nmeth.1542

Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

Jeffry D. Sander
, Elizabeth J. Dahlborg
, Mathew J. Goodwin
, Lindsay Cade
, Feng Zhang
, Daniel Cifuentes
, Shaun J. Curtin
, Jessica S. Blackburn
, Stacey Thibodeau-Beganny
, Yiping Qi
, Christopher J. Pierick
, Ellen Hoffman
, Morgan L. Maeder
, Cyd Khayter
, Deepak Reyon
, Drena Dobbs
, David M. Langenau
, Robert M. Stupar
, Antonio J. Giraldez
, Daniel F. Voytas

Randall T. Peterson, Jing Ruey J. Yeh, J. Keith Joung

Research output: Contribution to journal › Article › peer-review

471 Scopus citations

Abstract

Engineered zinc-finger nucleases (ZFNs) enable targeted genome modification. Here we describe context-dependent assembly (CoDA), a platform for engineering ZFNs using only standard cloning techniques or custom DNA synthesis. Using CoDA-generated ZFNs, we rapidly altered 20 genes in Danio rerio, Arabidopsis thaliana and Glycine max. The simplicity and efficacy of CoDA will enable broad adoption of ZFN technology and make possible large-scale projects focused on multigene pathways or genome-wide alterations.

Original language	English
Pages (from-to)	67-69
Number of pages	3
Journal	Nature Methods
Volume	8
Issue number	1
DOIs	https://doi.org/10.1038/nmeth.1542
State	Published - Jan 2011

Bibliographical note

Funding Information:
This work was supported by US National Institutes of Health grants R01 GM088040 (J.K.J. and R.T.P.), R01 GM069906 (J.K.J.), R24 GM078369 (J.K.J.), R01 CA140188 (J.-R.J.Y.), R01 GM081602 (A.J.G.), RC2 MH089956 (A.J.G.), K01 AG031300 (J.-R.J.Y.), K01 AR055619 (D.M.L.) and T32 CA009216 (J.D.S. and J.S.B.); by National Science Foundation grant DBI 0923827 (D.F.V., D.D. and J.K.J.); by the Claflin Distinguished Scholar Award (J.-R.J.Y.); by the Minnesota Soybean Research and Promotion Council (S.J.C. and R.M.S.); and by Alex’s Lemonade Stand and the Leukemia Research Foundation (D.M.L.).

Funding

This work was supported by US National Institutes of Health grants R01 GM088040 (J.K.J. and R.T.P.), R01 GM069906 (J.K.J.), R24 GM078369 (J.K.J.), R01 CA140188 (J.-R.J.Y.), R01 GM081602 (A.J.G.), RC2 MH089956 (A.J.G.), K01 AG031300 (J.-R.J.Y.), K01 AR055619 (D.M.L.) and T32 CA009216 (J.D.S. and J.S.B.); by National Science Foundation grant DBI 0923827 (D.F.V., D.D. and J.K.J.); by the Claflin Distinguished Scholar Award (J.-R.J.Y.); by the Minnesota Soybean Research and Promotion Council (S.J.C. and R.M.S.); and by Alex’s Lemonade Stand and the Leukemia Research Foundation (D.M.L.).

Funders	Funder number
National Science Foundation Arctic Social Science Program	DBI 0923827
National Institutes of Health (NIH)	K01 AG031300, K01 AR055619, T32 CA009216, R01 CA140188, RC2 MH089956, R01 GM069906, R01 GM081602, R01 GM088040
National Institute of General Medical Sciences	R24GM078369
Alex's Lemonade Stand Foundation for Childhood Cancer
Leukemia Research Foundation Inc
Minnesota Soybean Research and Promotion Council

ASJC Scopus subject areas

Biotechnology
Biochemistry
Molecular Biology
Cell Biology

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10.1038/nmeth.1542

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Sander, J. D., Dahlborg, E. J., Goodwin, M. J., Cade, L., Zhang, F., Cifuentes, D., Curtin, S. J., Blackburn, J. S., Thibodeau-Beganny, S., Qi, Y., Pierick, C. J., Hoffman, E., Maeder, M. L., Khayter, C., Reyon, D., Dobbs, D., Langenau, D. M., Stupar, R. M., Giraldez, A. J., ... Joung, J. K. (2011). Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA). Nature Methods, 8(1), 67-69. https://doi.org/10.1038/nmeth.1542

@article{edd7c55860fd49ffbec39071f0ef334e,

title = "Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)",

abstract = "Engineered zinc-finger nucleases (ZFNs) enable targeted genome modification. Here we describe context-dependent assembly (CoDA), a platform for engineering ZFNs using only standard cloning techniques or custom DNA synthesis. Using CoDA-generated ZFNs, we rapidly altered 20 genes in Danio rerio, Arabidopsis thaliana and Glycine max. The simplicity and efficacy of CoDA will enable broad adoption of ZFN technology and make possible large-scale projects focused on multigene pathways or genome-wide alterations.",

author = "Sander, \{Jeffry D.\} and Dahlborg, \{Elizabeth J.\} and Goodwin, \{Mathew J.\} and Lindsay Cade and Feng Zhang and Daniel Cifuentes and Curtin, \{Shaun J.\} and Blackburn, \{Jessica S.\} and Stacey Thibodeau-Beganny and Yiping Qi and Pierick, \{Christopher J.\} and Ellen Hoffman and Maeder, \{Morgan L.\} and Cyd Khayter and Deepak Reyon and Drena Dobbs and Langenau, \{David M.\} and Stupar, \{Robert M.\} and Giraldez, \{Antonio J.\} and Voytas, \{Daniel F.\} and Peterson, \{Randall T.\} and Yeh, \{Jing Ruey J.\} and Joung, \{J. Keith\}",

note = "Funding Information: This work was supported by US National Institutes of Health grants R01 GM088040 (J.K.J. and R.T.P.), R01 GM069906 (J.K.J.), R24 GM078369 (J.K.J.), R01 CA140188 (J.-R.J.Y.), R01 GM081602 (A.J.G.), RC2 MH089956 (A.J.G.), K01 AG031300 (J.-R.J.Y.), K01 AR055619 (D.M.L.) and T32 CA009216 (J.D.S. and J.S.B.); by National Science Foundation grant DBI 0923827 (D.F.V., D.D. and J.K.J.); by the Claflin Distinguished Scholar Award (J.-R.J.Y.); by the Minnesota Soybean Research and Promotion Council (S.J.C. and R.M.S.); and by Alex{\textquoteright}s Lemonade Stand and the Leukemia Research Foundation (D.M.L.).",

year = "2011",

month = jan,

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language = "English",

volume = "8",

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Sander, JD, Dahlborg, EJ, Goodwin, MJ, Cade, L, Zhang, F, Cifuentes, D, Curtin, SJ, Blackburn, JS, Thibodeau-Beganny, S, Qi, Y, Pierick, CJ, Hoffman, E, Maeder, ML, Khayter, C, Reyon, D, Dobbs, D, Langenau, DM, Stupar, RM, Giraldez, AJ, Voytas, DF, Peterson, RT, Yeh, JRJ & Joung, JK 2011, 'Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)', Nature Methods, vol. 8, no. 1, pp. 67-69. https://doi.org/10.1038/nmeth.1542

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T1 - Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

AU - Sander, Jeffry D.

AU - Dahlborg, Elizabeth J.

AU - Goodwin, Mathew J.

AU - Cade, Lindsay

AU - Zhang, Feng

AU - Cifuentes, Daniel

AU - Curtin, Shaun J.

AU - Blackburn, Jessica S.

AU - Thibodeau-Beganny, Stacey

AU - Qi, Yiping

AU - Pierick, Christopher J.

AU - Hoffman, Ellen

AU - Maeder, Morgan L.

AU - Khayter, Cyd

AU - Reyon, Deepak

AU - Dobbs, Drena

AU - Langenau, David M.

AU - Stupar, Robert M.

AU - Giraldez, Antonio J.

AU - Voytas, Daniel F.

AU - Peterson, Randall T.

AU - Yeh, Jing Ruey J.

AU - Joung, J. Keith

N1 - Funding Information: This work was supported by US National Institutes of Health grants R01 GM088040 (J.K.J. and R.T.P.), R01 GM069906 (J.K.J.), R24 GM078369 (J.K.J.), R01 CA140188 (J.-R.J.Y.), R01 GM081602 (A.J.G.), RC2 MH089956 (A.J.G.), K01 AG031300 (J.-R.J.Y.), K01 AR055619 (D.M.L.) and T32 CA009216 (J.D.S. and J.S.B.); by National Science Foundation grant DBI 0923827 (D.F.V., D.D. and J.K.J.); by the Claflin Distinguished Scholar Award (J.-R.J.Y.); by the Minnesota Soybean Research and Promotion Council (S.J.C. and R.M.S.); and by Alex’s Lemonade Stand and the Leukemia Research Foundation (D.M.L.).

PY - 2011/1

Y1 - 2011/1

N2 - Engineered zinc-finger nucleases (ZFNs) enable targeted genome modification. Here we describe context-dependent assembly (CoDA), a platform for engineering ZFNs using only standard cloning techniques or custom DNA synthesis. Using CoDA-generated ZFNs, we rapidly altered 20 genes in Danio rerio, Arabidopsis thaliana and Glycine max. The simplicity and efficacy of CoDA will enable broad adoption of ZFN technology and make possible large-scale projects focused on multigene pathways or genome-wide alterations.

AB - Engineered zinc-finger nucleases (ZFNs) enable targeted genome modification. Here we describe context-dependent assembly (CoDA), a platform for engineering ZFNs using only standard cloning techniques or custom DNA synthesis. Using CoDA-generated ZFNs, we rapidly altered 20 genes in Danio rerio, Arabidopsis thaliana and Glycine max. The simplicity and efficacy of CoDA will enable broad adoption of ZFN technology and make possible large-scale projects focused on multigene pathways or genome-wide alterations.

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U2 - 10.1038/nmeth.1542

DO - 10.1038/nmeth.1542

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AN - SCOPUS:78650863981

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VL - 8

SP - 67

EP - 69

JO - Nature Methods

JF - Nature Methods

IS - 1

ER -

Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

Abstract

Bibliographical note

Funding

ASJC Scopus subject areas

Access to Document

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