Chromatin Immunoprecipitation Analysis in Filamentous Fungi
作者： Stefan Boedi , Yazmid Reyes-Dominguez , Joseph Strauss
DOI: 10.1007/978-1-62703-122-6_16
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摘要: Abstract Chromatin immunoprecipitation (ChIP) is used to map the interaction between proteins and DNA at a specific genomic locus in living cell. The protein-DNA complexes are stabilized already vivo by reversible crosslinking sheared sonication or enzymatic digestion into fragments suitable for subsequent step. Antibodies recognizing chromatin-linked proteins, transcription factors, artificial tags, protein modifications then pull down DNA-protein containing target. After reversal of crosslinks purification locus-specific quantitative PCR determine amount that was associated with target given time point experimental condition. quantification can be carried out several regions multiple qPCRs genome-wide scale massive parallel sequencing (ChIP-Seq).
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Artem Barski, Keji Zhao, Genomic location analysis by ChIP-Seq. Journal of Cellular Biochemistry. ,vol. 107, pp. 11- 18 ,(2009) , 10.1002/JCB.22077
Smitha Pillai, Srikumar P. Chellappan, ChIP on chip assays: genome-wide analysis of transcription factor binding and histone modifications. Methods of Molecular Biology. ,vol. 523, pp. 341- 366 ,(2009) , 10.1007/978-1-59745-190-1_23
Yazmid Reyes-Dominguez, Jin Woo Bok, Harald Berger, E. Keats Shwab, Asjad Basheer, Andreas Gallmetzer, Claudio Scazzocchio, Nancy Keller, Joseph Strauss, Heterochromatic marks are associated with the repression of secondary metabolism clusters in Aspergillus nidulans Molecular Microbiology. ,vol. 76, pp. 1376- 1386 ,(2010) , 10.1111/J.1365-2958.2010.07051.X
Wenxiu Ma, Wing Hung Wong, The Analysis of ChIP-Seq Data Methods in Enzymology. ,vol. 497, pp. 51- 73 ,(2011) , 10.1016/B978-0-12-385075-1.00003-2
P. Ballario, P. Vittorioso, A. Magrelli, C. Talora, A. Cabibbo, G. Macino, White collar-1, a central regulator of blue light responses in Neurospora, is a zinc finger protein. The EMBO Journal. ,vol. 15, pp. 1650- 1657 ,(1996) , 10.1002/J.1460-2075.1996.TB00510.X
Asjad Basheer, Harald Berger, Yazmid Reyes-Dominguez, Markus Gorfer, Joseph Strauss, A library-based method to rapidly analyse chromatin accessibility at multiple genomic regions Nucleic Acids Research. ,vol. 37, ,(2009) , 10.1093/NAR/GKP037
H.-W. Nutzmann, Y. Reyes-Dominguez, K. Scherlach, V. Schroeckh, F. Horn, A. Gacek, J. Schumann, C. Hertweck, J. Strauss, A. A. Brakhage, Bacteria-induced natural product formation in the fungus Aspergillus nidulans requires Saga/Ada-mediated histone acetylation. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 108, pp. 14282- 14287 ,(2011) , 10.1073/PNAS.1103523108
H Linden, Giuseppe Macino, White collar 2, a partner in blue-light signal transduction, controlling expression of light-regulated genes in Neurospora crassa. The EMBO Journal. ,vol. 16, pp. 98- 109 ,(1997) , 10.1093/EMBOJ/16.1.98
Ludmila V. Roze, Anna E. Arthur, Sung-Yong Hong, Anindya Chanda, John E. Linz, The initiation and pattern of spread of histone H4 acetylation parallel the order of transcriptional activation of genes in the aflatoxin cluster Molecular Microbiology. ,vol. 66, pp. 713- 726 ,(2007) , 10.1111/J.1365-2958.2007.05952.X
M. J. Solomon, A. Varshavsky, Formaldehyde-mediated DNA-protein crosslinking: a probe for in vivo chromatin structures Proceedings of the National Academy of Sciences of the United States of America. ,vol. 82, pp. 6470- 6474 ,(1985) , 10.1073/PNAS.82.19.6470