Reduced changes in protein compared to mRNA levels across non-proliferating tissues

• Published in: BMC genomics 2017-04, Vol.18 (1), p.305-305, Article 305
• Main Authors: Perl, Kobi, Ushakov, Kathy, Pozniak, Yair, Yizhar-Barnea, Ofer, Bhonker, Yoni, Shivatzki, Shaked, Geiger, Tamar, Avraham, Karen B, Shamir, Ron
• Format: Article
• Language: English
• Subjects: Animal tissues; Animals; Auditory system; Buffers; Cancer; Cell Proliferation; Cochlea; Datasets; Ear; Ear, Inner - metabolism; Gene expression; Gene Expression Regulation, Neoplastic; Genes; Genomics; Humans; Inner ear; Levels; Mammals; Mass spectrometry; Mice; Monkeys & apes; Neoplasms - genetics; Organ Specificity - genetics; Primates - genetics; Proteins; Proteome - genetics; Proteomes; Proteomics; RNA, Messenger - biosynthesis; RNA, Messenger - genetics; RNA-seq; Scientific imaging; Tissue analysis; Transcription; Transcriptome - genetics; Translation; Tumor cell lines
• ISSN: 1471-2164; 1471-2164
• DOI: 10.1186/s12864-017-3683-9

The quantitative relations between RNA and protein are fundamental to biology and are still not fully understood. Across taxa, it was demonstrated that the protein-to-mRNA ratio in steady state varies in a direction that lessens the change in protein levels as a result of changes in the transcript abundance. Evidence for this behavior in tissues is sparse. We tested this phenomenon in new data that we produced for the mouse auditory system, and in previously published tissue datasets. A joint analysis of the transcriptome and proteome was performed across four datasets: inner-ear mouse tissues, mouse organ tissues, lymphoblastoid primate samples and human cancer cell lines. We show that the protein levels are more conserved than the mRNA levels in all datasets, and that changes in transcription are associated with translational changes that exert opposite effects on the final protein level, in all tissues except cancer. Finally, we observe that some functions are enriched in the inner ear on the mRNA level but not in protein. We suggest that partial buffering between transcription and translation ensures that proteins can be made rapidly in response to a stimulus. Accounting for the buffering can improve the prediction of protein levels from mRNA levels.