Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling

Science

Volumn 324, Issue 5924, 2009, Pages 218-223

  Ingolia, Nicholas T ^a   Ghaemmaghami, Sina ^b   Newman, John R S ^b   Weissman, Jonathan S ^b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; GUANINE; MESSENGER RNA; NUCLEOTIDE; URACIL;

ADAPTATION; ENVIRONMENTAL STRESS; EXPERIMENTAL STUDY; GENE EXPRESSION; GENOME; NUTRIENT AVAILABILITY; PEPTIDE; PROTEIN; RNA; STARVATION; YEAST;

AMINO ACID SEQUENCE; ARTICLE; CODON; DNA FINGERPRINTING; DNA FOOTPRINTING; ENVIRONMENTAL STRESS; GENE SEQUENCE; GENOME ANALYSIS; IN VIVO STUDY; NONHUMAN; POLYSOME; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN SYNTHESIS; QUANTITATIVE ANALYSIS; RIBOSOME; RIBOSOME PROFILING; RNA FINGERPRINTING; RNA TRANSLATION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; STARVATION; YEAST;

5' UNTRANSLATED REGIONS; CODON; GENE LIBRARY; GENOME, FUNGAL; INTRONS; PEPTIDE CHAIN ELONGATION, TRANSLATIONAL; PEPTIDE CHAIN INITIATION, TRANSLATIONAL; PROTEIN BIOSYNTHESIS; RIBOSOMES; RNA, FUNGAL; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE ANALYSIS, DNA;

SACCHAROMYCETALES;

EID: 62549134121     PISSN: 00368075     EISSN: 10959203     Source Type: Journal    
DOI: 10.1126/science.1168978     Document Type: Article

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38. We thank C. Chu, J. deRisi, and K. Fischer for help with sequencing; D. Bartel, H. Guo, D. Herschlag, J. Hollien, S. Luo, and G. Schroth for helpful discussions of RNA methods; P. Walter and T. Aragon for the use of a density gradient fractionator; the 2008 Woods Hole Physiology course students for data analysis; and members of the Weissman lab, L. Lareau, and T. Ingolia for critical commentary on the manuscript. Sequencing data have been deposited in the National Center for Biotechnology Information's Gene Expression Omnibus (www.ncbi.nlm. nih.gov/geo/) under accession number GSE13750. This investigation was supported by a NIH P01 grant (AG10770) and a Ruth L. Kirschstein National Research Service Award (GM080853) (to N.T.I.) and by the Howard Hughes Medical Institute (to J.S.W.). N.T.I. and J.S.W. are the inventors on a patent application, assigned to the Regents of the University of California, on the ribosome profiling and sequencing library generation techniques described in this work. S.G. and J.R.S.N. developed a microarray-based approach that served as a proof of principle for the present studies; N.T.I. and J.S.W. designed the experiments; N.T.I. performed the experiments and analyzed the data; and N.T.I. and J.S.W. interpreted the results and wrote the manuscript.