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Protein Biosynthesis

  • 1.
    Bartman C, Weilandt D, Shen Y, Lee W, Han Y, TeSlaa T, Jankowski C, Samarah L, Park N, da Silva-Diz V, Aleksandrova M, Gultekin Y, Marishta A, Wang L, Yang L, Roichman A, Bhatt V, Lan T, Hu Z, Xing X, Lu W, Davidson S, Wühr M, Heiden M, Herranz D, Guo J, Kang Y, Rabinowitz J. Slow TCA flux and ATP production in primary solid tumours but not metastases. Nature. 2023;614(7947):349–357. PMID: 36725930
    Reference Link
  • 1.
    Zhang D, Li S, King C, Wingreen N, Gitai Z, Li Z. Global and gene-specific translational regulation in Escherichia coli across different conditions. PLoS Comput Biol. 2022;18(10):e1010641. PMCID: PMC9624429
    Reference Link
  • 1.
    Peng Y, Gavis E. The Drosophila hnRNP F/H homolog Glorund recruits dFMRP to inhibit nanos translation elongation. Nucleic Acids Res. 2022;50(12):7067–7083. PMCID: PMC9262583
    Reference Link
  • 1.
    Miangolarra M, Li S, Joanny J-F, Wingreen N, Castellana M. Steric interactions and out-of-equilibrium processes control the internal organization of bacteria. Proc Natl Acad Sci U S A. 2021;118(43). PMCID: PMC8639350
    Reference Link
  • 1.
    Lemma A, Brynildsen M. Toxin Induction or Inhibition of Transcription or Translation Posttreatment Increases Persistence to Fluoroquinolones. mBio. 2021;12(4):e0198321. PMCID: PMC8406316
    Reference Link
  • 1.
    Bagert J, Muir T. Molecular Epigenetics: Chemical Biology Tools Come of Age. Annu Rev Biochem. 2021;90:287–320. PMCID: PMC8284505
    Reference Link
  • 1.
    Cao L, Do T, Link J. Mechanisms of action of ribosomally synthesized and posttranslationally modified peptides (RiPPs). J Ind Microbiol Biotechnol. 2021;48(3-4). PMCID: PMC8183687
    Reference Link
  • 1.
    Li S, Nofal M, Parsons L, Rabinowitz J, Gitai Z. Monitoring mammalian mitochondrial translation with MitoRiboSeq. Nat Protoc. 2021;16(6):2802–2825. PMCID: PMC8610098
    Reference Link
  • 1.
    Cho S, Lee G, Pickering B, Jang C, Park J, He L, Mathur L, Kim S-S, Jung S, Tang H-W, Monette S, Rabinowitz J, Perrimon N, Jaffrey S, Blenis J. mTORC1 promotes cell growth via mA-dependent mRNA degradation. Mol Cell. 2021;81(10):2064–2075.e8. PMCID: PMC8356906
    Reference Link
  • 1.
    Cao W, Kabelitz S, Gupta M, Yeung E, Lin S, Rammelt C, Ihling C, Pekovic F, Low T, Siddiqui N, Cheng M, Angers S, Smibert C, Wühr M, Wahle E, Lipshitz H. Precise Temporal Regulation of Post-transcriptional Repressors Is Required for an Orderly Drosophila Maternal-to-Zygotic Transition. Cell Rep. 2020;31(12):107783. PMCID: PMC7372737
    Reference Link
  • 1.
    Hashimoto Y, Sheng X, Murray-Nerger L, Cristea I. Temporal dynamics of protein complex formation and dissociation during human cytomegalovirus infection. Nat Commun. 2020;11(1):806. PMCID: PMC7010728
    Reference Link
  • 1.
    Arey R, Kaletsky R, Murphy C. Nervous system-wide profiling of presynaptic mRNAs reveals regulators of associative memory. Sci Rep. 2019;9(1):20314. PMCID: PMC6937282
    Reference Link
  • 1.
    Seo K, Kleiner R. YTHDF2 Recognition of N-Methyladenosine (mA)-Modified RNA Is Associated with Transcript Destabilization. ACS Chem Biol. 2020;15(1):132–139. PMCID: PMC7025767
    Reference Link
  • 1.
    Rath S, Prangley E, Donovan J, Demarest K, Wingreen N, Meir Y, Korennykh A. Concerted 2-5A-Mediated mRNA Decay and Transcription Reprogram Protein Synthesis in the dsRNA Response. Mol Cell. 2019;75(6):1218–1228.e6. PMCID: PMC6754276
    Reference Link
  • 1.
    Chitrakar A, Rath S, Donovan J, Demarest K, Li Y, Sridhar R, Weiss S, Kotenko S, Wingreen N, Korennykh A. Real-time 2-5A kinetics suggest that interferons β and λ evade global arrest of translation by RNase L. Proc Natl Acad Sci U S A. 2019;116(6):2103–2111. PMCID: PMC6369740
    Reference Link
  • 1.
    Tye B, Commins N, Ryazanova L, Wühr M, Springer M, Pincus D, Churchman S. Proteotoxicity from aberrant ribosome biogenesis compromises cell fitness. Elife. 2019;8. PMCID: PMC6453566
    Reference Link
  • 1.
    Li S, Li Z, Park J, King C, Rabinowitz J, Wingreen N, Gitai Z. Escherichia coli translation strategies differ across carbon, nitrogen and phosphorus limitation conditions. Nat Microbiol. 2018;3(8):939–947. PMCID: PMC6278830
    Reference Link
  • 1.
    Davis K, Schramma K, Hansen W, Bacik J, Khare S, Seyedsayamdost M, Ando N. Structures of the peptide-modifying radical SAM enzyme SuiB elucidate the basis of substrate recognition. Proc Natl Acad Sci U S A. 2017;114(39):10420–10425. PMCID: PMC5625900
    Reference Link
  • 1.
    Aebersold R, Agar J, Amster J, Baker M, Bertozzi C, Boja E, Costello C, Cravatt B, Fenselau C, Garcia B, Ge Y, Gunawardena J, Hendrickson R, Hergenrother P, Huber C, Ivanov A, Jensen O, Jewett M, Kelleher N, Kiessling L, Krogan N, Larsen M, Loo J, Loo R, Lundberg E, MacCoss M, Mallick P, Mootha V, Mrksich M, Muir T, Patrie S, Pesavento J, Pitteri S, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff S, Smith L, Snyder M, Thomas P, Uhlén M, Van Eyk J, Vidal M, Walt D, White F, Williams E, Wohlschlager T, Wysocki V, Yates N, Young N, Zhang B. How many human proteoforms are there?. Nat Chem Biol. 2018;14(3):206–214. PMCID: PMC5837046
    Reference Link
  • 1.
    Pavlova N, Hui S, Ghergurovich J, Fan J, Intlekofer A, White R, Rabinowitz J, Thompson C, Zhang J. As Extracellular Glutamine Levels Decline, Asparagine Becomes an Essential Amino Acid. Cell Metab. 2018;27(2):428–438.e5. PMCID: PMC5803449
    Reference Link
  • 1.
    Morscher R, Ducker G, Li S, Mayer J, Gitai Z, Sperl W, Rabinowitz J. Mitochondrial translation requires folate-dependent tRNA methylation. Nature. 2018;554(7690):128–132. PMCID: PMC6020024
    Reference Link
  • 1.
    Tamayo J, Teramoto T, Chatterjee S, Hall T, Gavis E. The Drosophila hnRNP F/H Homolog Glorund Uses Two Distinct RNA-Binding Modes to Diversify Target Recognition. Cell Rep. 2017;19(1):150–161. PMCID: PMC5392723
    Reference Link
  • 1.
    Ziehr B, Lenarcic E, Vincent H, Cecil C, Garcia B, Shenk T, Moorman N. Human cytomegalovirus TRS1 protein associates with the 7-methylguanosine mRNA cap and facilitates translation. Proteomics. 2015;15(12):1983–94. PMCID: PMC4492309
    Reference Link
  • 1.
    Orman M, Brynildsen M. Inhibition of stationary phase respiration impairs persister formation in E. coli. Nat Commun. 2015;6:7983. PMCID: PMC4530465
    Reference Link
  • 1.
    Amato S, Brynildsen M. Persister Heterogeneity Arising from a Single Metabolic Stress. Curr Biol. 2015;25(16):2090–8. PMID: 26255847
    Reference Link
  • 1.
    Castellana M, Li S, Wingreen N. Spatial organization of bacterial transcription and translation. Proc Natl Acad Sci U S A. 2016;113(33):9286–91. PMCID: PMC4995950
    Reference Link
  • 1.
    Orman M, Brynildsen M. Persister formation in Escherichia coli can be inhibited by treatment with nitric oxide. Free Radic Biol Med. 2016;93:145–54. PMCID: PMC4898466
    Reference Link
  • 1.
    Medema M, Kottmann R, Yilmaz P, Cummings M, Biggins J, Blin K, de Bruijn I, Chooi Y, Claesen J, Coates C, Cruz-Morales P, Duddela S, Düsterhus S, Edwards D, Fewer D, Garg N, Geiger C, Gomez-Escribano J, Greule A, Hadjithomas M, Haines A, Helfrich E, Hillwig M, Ishida K, Jones A, Jones C, Jungmann K, Kegler C, Kim H, Kötter P, Krug D, Masschelein J, Melnik A, Mantovani S, Monroe E, Moore M, Moss N, Nützmann H-W, Pan G, Pati A, Petras D, Reen J, Rosconi F, Rui Z, Tian Z, Tobias N, Tsunematsu Y, Wiemann P, Wyckoff E, Yan X, Yim G, Yu F, Xie Y, Aigle B, Apel A, Balibar C, Balskus E, Barona-Gómez F, Bechthold A, Bode H, Borriss R, Brady S, Brakhage A, Caffrey P, Cheng Y-Q, Clardy J, Cox R, De Mot R, Donadio S, Donia M, van der Donk W, Dorrestein P, Doyle S, Driessen A, Ehling-Schulz M, Entian K-D, Fischbach M, Gerwick L, Gerwick W, Gross H, Gust B, Hertweck C, Höfte M, Jensen S, Ju J, Katz L, Kaysser L, Klassen J, Keller N, Kormanec J, Kuipers O, Kuzuyama T, Kyrpides N, Kwon H-J, Lautru S, Lavigne R, Lee C, Linquan B, Liu X, Liu W, Luzhetskyy A, Mahmud T, Mast Y, Méndez C, Metsä-Ketelä M, Micklefield J, Mitchell D, Moore B, Moreira L, Müller R, Neilan B, Nett M, Nielsen J, O’Gara F, Oikawa H, Osbourn A, Osburne M, Ostash B, Payne S, Pernodet J-L, Petricek M, Piel J, Ploux O, Raaijmakers J, Salas J, Schmitt E, Scott B, Seipke R, Shen B, Sherman D, Sivonen K, Smanski M, Sosio M, Stegmann E, Süssmuth R, Tahlan K, Thomas C, Tang Y, Truman A, Viaud M, Walton J, Walsh C, Weber T, van Wezel G, Wilkinson B, Willey J, Wohlleben W, Wright G, Ziemert N, Zhang C, Zotchev S, Breitling R, Takano E, Glöckner F. Minimum Information about a Biosynthetic Gene cluster. Nat Chem Biol. 2015;11(9):625–31. PMCID: PMC5714517
    Reference Link
  • 1.
    Li W, Klovstad M, Schüpbach T. Repression of Gurken translation by a meiotic checkpoint in Drosophila oogenesis is suppressed by a reduction in the dose of eIF1A. Development. 2014;141(20):3910–21. PMCID: PMC4197705
    Reference Link
  • 1.
    Hwang J, Purdy J, Wu K, Rabinowitz J, Shenk T. Estrogen-related receptor α is required for efficient human cytomegalovirus replication. Proc Natl Acad Sci U S A. 2014;111(52):E5706–15. PMCID: PMC4284536
    Reference Link
  • 1.
    Peshkin L, Wühr M, Pearl E, Haas W, Freeman R, Gerhart J, Klein A, Horb M, Gygi S, Kirschner M. On the Relationship of Protein and mRNA Dynamics in Vertebrate Embryonic Development. Dev Cell. 2015;35(3):383–94. PMCID: PMC4776761
    Reference Link
  • 1.
    Tu K, Long T, Svenningsen S, Wingreen N, Bassler B. Negative feedback loops involving small regulatory RNAs precisely control the Vibrio harveyi quorum-sensing response. Mol Cell. 2010;37(4):567–79. PMCID: PMC2844700
    Reference Link
  • 1.
    Olesnicky E, Killian D, Garcia E, Morton M, Rathjen A, Sola I, Gavis E. Extensive use of RNA-binding proteins in Drosophila sensory neuron dendrite morphogenesis. G3 (Bethesda). 2014;4(2):297–306. PMCID: PMC3931563
    Reference Link

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