Publications

WIRES RNA Cover Image

Publications (For most updated pubs, visit Google Scholar and pubmed bibliography)

Al-Husini, N., Vaishnu, A., Aretakis, J.R., Gega, A., Bitar, O., Nunez, N., Bejdokht, J.F., Schrader, J.M. mRNA decay impacts the Caulobacter crescentus cell cycle. Manuscript in preparation.
Nandana, V., Schrader, J.M. Roles of liquid-liquid phase separation in bacterial RNA metabolism. Review, In preparation.
Muthunayake, N.S., Al-Husini, N., and Schrader, J. M. Differential centrifugation to enrich Bacterial Ribonucleoprotein bodies (BR-bodies) from Caulobacter crescentus. Accepted, STAR Protocols.
Bharmal, M.-H.M., Aretakis, J.M., Schrader, J.M. An improved Caulobacter crescentus operon annotation based on transcriptome data Accepted, MRA.
Bharmal, M.-H.M., Schrader, J.M. A combinatorial model predicts leaderless mRNA start codon selection in C. crescentus. BioRxiv, 2020.
Muthunayake, N.S., Tomares, D. T. , Childers, W. S., and Schrader, J. M. Phase-Separated Bacterial Ribonucleoprotein Bodies (BR-bodies) Organize mRNA Decay. WIREs RNA 2020.
Al-Husini, N., D. T. Tomares, Z. Pfaffenberger, N. S. Muthunayake, M. A. Samad, T. Zuo, O. Bitar, J. R. Aretakis, M.-H. M. Bharmal, A. Gega, J. S. Biteen, W. S. Childers and J. M. Schrader. BR-bodies provide selectively permeable condensates that stimulate mRNA decay and prevent release of decay intermediates. Accepted, Molecular Cell 2020. BioRxiv, 2019.
Munoz-Dorado, J., A. Moraleda-Muñoz, F. J. Marcos-Torres, F. J. Contreras-Moreno, A. B. Martin-Cuadrado, J. M. Schrader, P. I. Higgs and J. Perez. Transcriptome dynamics of the Myxococcus xanthus multicellular developmental program. eLife, 2019.
Aretakis, J.R., Gega, A., Schrader, J.M. Absolute measurements of mRNA translation in C. crescentus reveal important fitness costs of vitamin B12 scavenging. mSystems, 2019, BioRxiv, 2019.
Aretakis, J.R, Al-Husini, N., Schrader, J.M. Methodology for ribosome profiling of key stages of the Caulobacter crescentus cell cycle. Methods in Enzymology, 2018.
Al-Husini, N., Tomares, D.T., Bitar, O., Childers, W.S., Schrader, J.M. α-proteobacterial RNA degradosomes assemble liquid-liquid phase separated RNP bodies. Molecular Cell, 2018.
Uhlenbeck, O.C. and Schrader, J.M. Evolutionary tuning impacts the design of bacterial tRNAs for the incorporation of unnatural amino acids by ribosomes. Current Opinion in Chemical Biology, 2018.
Bayas, C.A., Wang, J., Lee, M.K., Schrader, J.M., Shapiro, L., Moerner, W.E. Spatial organization and dynamics of RNase E and ribosomes in Caulobacter crescentus. Proceedings of the National Academy of Sciences, 2018.
Schrader, J.M., Li, G.W., Childers, W.S., Perez, A., Weissman, J.S., Shapiro, L., McAdams, H.H. Dynamic translational regulation in Caulobacter cell cycle control. Proceedings of the National Academy of Sciences 2016.
Lasker, K.*, Schrader, J.M.*, Men, Y., Marshik, T., Dill, D.L., McAdams, H.H., Shapiro, L. CauloBrowser: a systems biology resource for Caulobacter crescentus. Nucleic Acids Research, 2016. *Equal contribution
Zhou, B.*, Schrader, J.M.*, Kalogeraki, V.S., Abeliuk, E.A., Dinh, C.B., McAdams, H.H., Shapiro, L. The global regulatory architecture of transcription during the Caulobacter cell cycle. PLOS Genetics, 2015. *Equal contribution
Schrader, J.M., Shapiro, L. Synchronization of Caulobacter crescentus for investigation of the bacterial cell cycle. JoVE, 2014.
Liu, W., Kavaliauskas, D., Schrader, J.M., Perla-Kajan, J., Mandecki, W., Uhlenbeck, O.C., Knudsen, C.R., Goldman, Y.E., Cooperman, B.S. Labeled EF-Tus for rapid kinetic studies of pre-translocation complex formation. ACS Chemical Biology, 2014.
Yikilmaz, E., Chapman, S.J., Schrader, J.M., Uhlenbeck, O.C. The interface between Escherichia coli Elongation Factor Tu and aminoacyl-tRNA. Biochemistry, 2014.
Schrader, J.M., Zhou, B., Li, G., Lasker, K., Childers, W.S., Williams, B., Long, T., Crosson, S., McAdams, H.H., Weissman, J.S., Shapiro, L. The coding and noncoding architecture of the Caulobacter crescentus genome. PLOS Genetics, 2014.
Chapman, S.J., Schrader, J.M., Uhlenbeck, O.C. Histidine 66 in E. coli elongation factor Tu selectively stabilizes aminoacyl-tRNAs. Journal of Biological Chemistry, 2011.
Schrader, J.M., Uhlenbeck, O.C. Is the sequence-specific binding of aminoacyl-tRNAs by EF-Tu universal among bacteria?. Nucleic Acids Research, 2011.
Schrader, J.M.,Chapman, S.J., Uhlenbeck, O.C. Tuning the affinity of aminoacyl-tRNA to elongation factor Tu for optimal decoding. Proceedings of the National Academy of Sciences, 2011.
Schrader, J.M., Saks, M.E., Uhlenbeck, O.C. The specific interaction between aminoacyl-tRNAs and elongation factor Tu. Chapter 15. Ribosomes: Structure, Function, and Dynamics, 2010.
Schrader, J.M.,Chapman, S.J., Uhlenbeck, O.C. Understanding the sequence specificity of tRNA binding to elongation factor Tu using tRNA mutagenesis. Journal of Molecular Biology, 2009.