Analysis of specific protein-DNA interactions by bacterial one-hybrid assay

Methods in Molecular Biology

Volumn 786, Issue , 2012, Pages 79-95

  Noyes, Marcus B ^a  

^a PRINCETON UNIVERSITY   (United States)

Author keywords

DNA binding domains; DNA binding specificity; Gene regulation; Hybrid systems; Selection; Transcription factors; Zinc finger nuclease

Indexed keywords

DNA; PROTEIN;

ARTICLE; BACTERIUM; GENETICS; METABOLISM; TWO HYBRID SYSTEM;

BACTERIA; DNA; PROTEINS; TWO-HYBRID SYSTEM TECHNIQUES;

BACTERIA (MICROORGANISMS);

EID: 80555139629     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-61779-292-2_5     Document Type: Article

References (13)

1. Harbison, C.T., Gordon, D.B., Lee, T.I., Rinaldi, N.J., Macisaac, K.D., Danford, T.W., et al. (2004) Transcriptional regulatory code of a eukaryotic genome. Nature 431, 99-104. (Pubitemid 39215116)
2. Schroeder, M. D., Pearce, M., Fak, J., Fan, H., Unnerstall, U., Emberly, E., et al. (2004) Transcriptional control in the segmentation gene network of Drosophila. PLoS Biology 2, 1396-1410.
3. Zhu, C., Byers, K.J.R.P., McCord, R.P., Shi, Z., Berger, M.F., Newburger, D.E., et al. (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors. Genome Research 19, 556-66.
4. Noyes, M.B., Meng, X., Wakabayashi, A., Brodsky, M.H., and Wolfe, S.A. (2008) A systematic characterization of factors that regulate Drosophila segmentation via a bacterial onehybrid system. Nucleic Acids Research 38, 2547-60. (Pubitemid 351659570)
5. Meng, X., Brodsky, M.H., and Wolfe, S.A. (2005) A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors. Nature Biotechnology 23, 988-94. (Pubitemid 41114033)
6. Joung, J.K., Ramm, E.I., and Pabo, C.O. (2000) A bacterial two-hybrid selection system for the studying protein-DNA and proteinprotein interactions. Proceedings of the National Academy of Sciences of the United States of America 97, 7382-87. (Pubitemid 30431472)
7. Dove, S.L., Joung, J.K., and Hochschild, A. (1997). Activation of prokaryotic transcription through arbitrary protein-protein contacts. Nature 386, 627-30. (Pubitemid 27175431)
8. Meng, X., and Wolfe, S.A. (2006). Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system. Nature protocols 1, 30-45.
9. Noyes, M.B., Christensen, R.G., Wakabayashi, A., Stormo G.D., Brodsky, M.H., and Wolfe, S.A. (2008). Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites. Cell 133, 1277-89. (Pubitemid 351852912)
10. Meng, X., Noyes, M.B., Zhu, L., Lawson, N.D., and Wolfe, S.A. (2008) Targeted gene inactivation in zebrafish using engineered zinc finger nucleases. Nature Biotechnology 26, 695-701. (Pubitemid 351809594)
11. Siekmann A.F., Standley, C., Fogarty, K.E., Wolfe, S.A., and Lawson, N.D. (2009) Chemokine signaling guides regional patterning of the first embryonic artery. Genes and Development 23, 2272-77.
12. Cifuentes, D., Xue, H., Taylor, D.W., Patnode, H., Mishima, Y., Cheloufi, S., et al. (2010) A novel miRNA processing pathway independent of dicer requires Argonaute2 catalytic activity. Science 328, 1694-98.
13. Meng, X., Thibodeau-Beganny, S., Jiang, T., Joung, J.K., and Wolfe, S.A. (2007) Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method. Nucleic Acids Research 35, e81.