The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Divergence of Transcription Factor Binding Sites Across Related Yeast Species
Abstract
Characterization of interspecies differences in gene regulation is crucial for understanding the molecular basis of both phenotypic diversity and evolution. By means of chromatin immunoprecipitation and DNA microarray analysis, the divergence in the binding sites of the pseudohyphal regulators Ste12 and Tec1 was determined in the yeasts Saccharomyces cerevisiae , S. mikatae , and S. bayanus under pseudohyphal conditions. We have shown that most of these sites have diverged across these species, far exceeding the interspecies variation in orthologous genes. A group of Ste12 targets was shown to be bound only in S. mikatae and S. bayanus under pseudohyphal conditions. Many of these genes are targets of Ste12 during mating in S. cerevisiae , indicating that specialization between the two pathways has occurred in this species. Transcription factor binding sites have therefore diverged substantially faster than ortholog content. Thus, gene regulation resulting from transcription factor binding is likely to be a major cause of divergence between related species.
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Boyle, E. I., Weng, S., Gollub, J., Jin, H., Botstein, D., Cherry, J. M., & Sherlock, G. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth456 · Cited by 2,067
Assessing computational tools for the discovery of transcription factor binding sites
Tompa, M., Li, N., Bailey, T. L., Church, G. M., De Moor, B., Eskin, E., Favorov, A. V., Frith, M. C., Fu, Y., Kent, W. J., et al. (2005) · Nature Biotechnology · doi:10.1038/nbt1053 · Cited by 1,268
Identification and Characterization of TUP1-Regulated Genes in Candida albicans
Braun, B. R., Head, W. S., Wang, M. X., & Johnson, A. D. (2000) · Genetics · doi:10.1093/genetics/156.1.31 · Cited by 306
Cited by
An integrated encyclopedia of DNA elements in the human genome
The ENCODE Project Consortium (2012) · Nature · doi:10.1038/nature11247 · Cited by 18,072
A comparative encyclopedia of DNA elements in the mouse genome
Yue, F., Cheng, Y., Breschi, A., Vierstra, J., Wu, W., Ryba, T., Sandstrom, R., Ma, Z., Davis, C., Pope, B. D., et al. (2014) · Nature · doi:10.1038/nature13992 · Cited by 1,781
Self-citationCis-regulatory elements: Molecular mechanisms and evolutionary processes underlying divergence
Wittkopp, P. J., & Kalay, G. (2012) · Nature Reviews Genetics · doi:10.1038/nrg3095 · Cited by 1,231
Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation
López-Maury, L., Marguerat, S., & Bähler, J. (2008) · Nature Reviews Genetics · doi:10.1038/nrg2398 · Cited by 1,061
Comparative Hi-C Reveals that CTCF Underlies Evolution of Chromosomal Domain Architecture
Vietri Rudan, M., Barrington, C., Henderson, S., Ernst, C., Odom, D. T., Tanay, A., & Hadjur, S. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.02.004 · Cited by 680
“Studies that have tracked the evolution of different transcription factor (TF) binding patterns have shown that sequence evolution alone is incapable of fully explaining the evolutionary dynamics of TF binding landscapes (Dermitzakis and Clark, 2001; Birney et al., 2007; Borneman et al., 2007; Schmidt et al., 2010).”
Metadata
- Authors
- Borneman, A. R., Gianoulis, T. A., Zhang, Z. D., Yu, H., Rozowsky, J., Seringhaus, M. R., Wang, L. Y., Gerstein, M., & Snyder, M.
- Venue
- Science
- Published
- 2007-08-10
- Volume
- 317
- Issue
- 5839
- Pages
- 815-819
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2020749481
- Cited by
- 335
- References
- 3
- FWCI
- 15.33
- Type
- journal article
- Language
- en
- Open access
- closed
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- Borneman, A. R., Gianoulis, T. A., Zhang, Z. D., Yu, H., Rozowsky, J., Seringhaus, M. R., Wang, L. Y., Gerstein, M., & Snyder, M. (2007). Divergence of Transcription Factor Binding Sites Across Related Yeast Species. Science. https://doi.org/10.1126/science.1140748
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