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Kristian E. Baker, Ph.D.

Associate Professor, Center for RNA Molecular Biology (Faculty since 2008)


Education: Ph.D.: Genetics & Molecular Biology, University of British Columbia, Canada, 2002

Postdoc: Howard Hughes Medical Institute, University of Arizona 2002-2005

Secondary Appointment in: Department of Biochemistry

Email: keb22

Office Location: Wood Blgd. W113

Office Phone: 216-368-0277

Office FAX: 216-368-2010

Laboratory Location: W

Laboratory Phone: 216-368-5384

CMBTG Steering Committee Member


Lab Link

Curriculum Vitae

Research:  Mechanisms of nonsense-mediated

RNA harboring a premature termination codon is subject to rapid degradation by the nonsense-mediated mRNA decay (NMD) pathway. While the precise mechanism involved in discriminating NMD substrates from mRNA that is not targeted to NMD is unclear, the spatial relationship between the premature termination codon and additional features of the mRNA plays a critical role. My research focuses on determining how the various mRNA features contribute to NMD substrate recognition and how substrate recognition is translated into changes to the mRNA that result in repression of translation and susceptibility of the RNA to multiple pathways of degradation.


Pubmed Link to Publications

Google Scholar Link to Publications

Select Publications:

Presnyak, V., Alhusaini, N., Chen, Y.H., Martin, S., Morris, N., Kline, N., Olson, S., Weinberg, D., Baker, K.E., Graveley, B.R., and Coller, J. (2015). Codon optimality is a major determinant of mRNA stability. Cell, 160: 1111-1124

Smith, J.E., Alvarez-Dominguez, J.R., Kline, N., Huynh, N., Geisler, S., Hu, W., Coller, J., and Baker, K.E. (2014). Translation of small open reading frames within unannotated RNA transcripts in Saccharomyces cerevisiae. Cell Reports, 7:1858-1866.

Geisler, S., Lojek, L., Khalil, A., Baker, K.E., and Coller, J., (2012) A decapping pathway for long non-coding RNAs regulates inducible genes. Mol Cell, 45(3): 279-291. (Previewed by Wilkinson and colleagues)

Baker, K.,E., and Nilsen, T.W., (2011) The Centrality of RNA, Then and Now. Cell, 147: 962-963

Hu, W., Petzold, C., Coller, J., and Baker, K.E. (2010). Nonsense-mediated mRNA decapping occurs on polyribosomes in Saccharomyces cerevisiae. Nat. Struct. Mol. Biol., 17: 244-247

Hu, W., Sweet, T., Chamnongpol, S., Baker, K., and Coller, J. (2009) Co-translational mRNA decay in Saccharomyces cerevisiae. Nature, 461: 225-229

Meaux, S., van Hoof, A. and Baker, K.E. (2008) Nonsense-mediated mRNA decay in yeast does not require PAB1 or a poly(A) tail. Mol. Cell 29:134-140

Zaharik ML, Lamb SS, Baker KE, Krogan NJ, Neuhard J, Kelln RA. (2007) Mutations in yhiT enable utilization of exogenous pyrimidine intermediates in Salmonella enterica serovar Typhimurium. Microbiology 153:2472-82

Sweet, T.J., Boyer, B., Hu, W., Baker, K.E. and Coller, J. (2007) Microtubule disruption stimulates P-body formation. RNA, 13:1-10

Baker, K.E. and Coller, J. (2006) The many routes to regulating mRNA translation. Genome Biology 7:332.

Baker, K.E. and Parker, R. (2006) Conventional 3’ end formation is not required for NMD substrate recognition in Saccharomyces cerevisiae. RNA 12:1441.

Baker, K.E. and Parker, R. (2006) Features of nonsense-mediated mRNA decay in Saccharomyces cerevisiae. In “Nonsense-mediated mRNA decay”, ed. Lynne E. Maquat, Landes Biosciences, Austin, Texas, Chapter 1, pp 3-13.

Baker, K.E. and Condon, C. (2004) Under the Tucson sun: A meeting in the desert on mRNA decay. RNA 10:1680.

Baker, K.E., Coller, J. and Parker, R. (2004) The yeast Apq12 protein affects nucleocytoplasmic mRNA transport. RNA 10:1352.

Baker, K.E. and Parker, R. (2004) Nonsense-mediated mRNA decay: terminating erroneous gene expression. Curr Opin Cell Biol 16:293.

Baker, K.E. and Mackie, G.A. (2003) Ectopic RNase E sites promote bypass of 5’-end-dependent mRNA decay in Escherichia coli. Mol Microbiol 47:75.

Baker, K.E., DiTullio, K.P., Neuhard, J. and Kelln, R.A. (1996) Utilization of orotate as a pyrimidine source by Salmonella typhimurium and Echerichia coli requires the dicarboxylate transport protein encoded by dctA. J Bacteriol 178:7099.

Vial, T.C., Baker, K.E. and Kelln, R.A. (1993) Dual control by purines and pyrimidines of the expression of the pyrD gene of Salmonella typhimurium. FEMS Microbiol Lett 111:309.

Sorensen, K.I., Baker, K.E., Kelln, R.A. and Neuhard, J. (1993) Nucleotide pool-sensitive selection of the transcriptional start site in vivo at the Salmonella typhimurium pyrC and pyrD promoters. J Bacteriol 175:4137.




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