دورية أكاديمية
Application of sorting and next generation sequencing to study 5΄-UTR influence on translation efficiency in Escherichia coli.
| العنوان: | Application of sorting and next generation sequencing to study 5΄-UTR influence on translation efficiency in Escherichia coli. |
|---|---|
| المؤلفون: | Evfratov SA; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia., Osterman IA; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Komarova ES; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia., Pogorelskaya AM; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia., Rubtsova MP; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Zatsepin TS; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Semashko TA; Research Institute for Physical-Chemical Medicine, FMBA, Moscow, 119435, Russia., Kostryukova ES; Research Institute for Physical-Chemical Medicine, FMBA, Moscow, 119435, Russia.; Moscow Institute of Physics and Technology, Dolgoprpudny, Moscow, 141700, Russia., Mironov AA; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Burnaev E; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, 127051, Russia., Krymova E; A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, 127051, Russia., Gelfand MS; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia.; A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, 127051, Russia.; National Research University Higher School of Economics, Moscow, 123458, Russia., Govorun VM; Research Institute for Physical-Chemical Medicine, FMBA, Moscow, 119435, Russia., Bogdanov AA; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Sergiev PV; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia., Dontsova OA; Department of Chemistry, Faculty of Bioinformatics and Bioengeneering, Lomonosov Moscow State University, Moscow, 119992, Russia.; Skolkovo Institute of Science and Technology, Skolkovo, Moscow, 143025, Russia.; A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119992, Russia. |
| المصدر: | Nucleic acids research [Nucleic Acids Res] 2017 Apr 07; Vol. 45 (6), pp. 3487-3502. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: 1992- : Oxford : Oxford University Press Original Publication: London, Information Retrieval ltd. |
| مواضيع طبية MeSH: | 5' Untranslated Regions* , Protein Biosynthesis* , Regulatory Sequences, Ribonucleic Acid*, Escherichia coli/*genetics, Cell Separation ; Flow Cytometry ; Genes, Reporter ; High-Throughput Nucleotide Sequencing ; Mutation ; Nucleic Acid Conformation ; Nucleotides/physiology |
| مستخلص: | Yield of protein per translated mRNA may vary by four orders of magnitude. Many studies analyzed the influence of mRNA features on the translation yield. However, a detailed understanding of how mRNA sequence determines its propensity to be translated is still missing. Here, we constructed a set of reporter plasmid libraries encoding CER fluorescent protein preceded by randomized 5΄ untranslated regions (5΄-UTR) and Red fluorescent protein (RFP) used as an internal control. Each library was transformed into Escherchia coli cells, separated by efficiency of CER mRNA translation by a cell sorter and subjected to next generation sequencing. We tested efficiency of translation of the CER gene preceded by each of 48 natural 5΄-UTR sequences and introduced random and designed mutations into natural and artificially selected 5΄-UTRs. Several distinct properties could be ascribed to a group of 5΄-UTRs most efficient in translation. In addition to known ones, several previously unrecognized features that contribute to the translation enhancement were found, such as low proportion of cytidine residues, multiple SD sequences and AG repeats. The latter could be identified as translation enhancer, albeit less efficient than SD sequence in several natural 5΄-UTRs. (© The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.) |
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| المشرفين على المادة: | 0 (5' Untranslated Regions) 0 (Nucleotides) 0 (Regulatory Sequences, Ribonucleic Acid) |
| تواريخ الأحداث: | Date Created: 20161201 Date Completed: 20170814 Latest Revision: 20201209 |
| رمز التحديث: | 20240628 |
| مُعرف محوري في PubMed: | PMC5389652 |
| DOI: | 10.1093/nar/gkw1141 |
| PMID: | 27899632 |
| قاعدة البيانات: | MEDLINE |
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