Publications

2023

  • Yeast: Translation Regulation and Localized Translation.
    Shiber A, Arava YS. Microorganisms. 2023 Mar 13;11(3):739
  • ThrRS-Mediated Translation Regulation of the RNA Polymerase III Subunit RPC10 Occurs through an Element with Similarity to Cognate tRNA ASL and Affects tRNA Levels
    Ofri Levi , Monalisha Mallik , Yoav S Arava (2023) Genes (Basel) 14(2):462.
  • Emerging implications for ribosomes in proximity to mitochondria. Bar Cohen, Adi Golani-Armon and Yoav S. Arava. Seminars in Cell and Developmental Biology   (2023) S1084-9521(23)00003-4..

2022

  • Co-transport of the nuclear-encoded Cox7c mRNA with mitochondria along axons occurs through a coding-region-dependent mechanism
    Bar Cohen*, Topaz Altman*, Adi Golani-Armon* , Anca Savulescu, Amjd Ibraheem, Musa M Mhlanga, Eran Perlson** and Yoav S. Arava** (2022) Journal of Cell Science, Aug 15;135(16)

2021

  • Phage biology: Stuck with dU. Marine phages with DNA containing deoxyuridine discovered. Yoav S. Arava and Oded Beja (2021) Current Biology (Dispatch) 31 (16) PR898-R900 
  • Mitochondria serve as axonal shuttle for Cox7c mRNA through mechanism that involves its mitochondrial targeting signal Bar Cohen*, Adi Golani *, Topaz Altman*, Anca F. Savulescu, Musa M. Mhlanga, Eran Perlson** and Yoav S. Arava** (2021) BioRxiv https://doi.org/10.1101/2021.05.19.444640
  • Comprehensive characterization of mRNA targets of yeast aminoacyl tRNA synthetases  Shahar Garin1, Ofri Levi1, Megan Forrest2, Anthony Antonellis2, and Yoav S. Arava1 (2021) RNA Biology, 18 (12) 2605-2616
  • RNA modifications as a common denominator between tRNA and mRNA Ofri Levi and Yoav S. Arava (2021) Current Genetics,  67, pages545–551
  • Pseudouridine-mediated translation control by methionine aminoacyl tRNA synthetase, Ofri Levi and Yoav S. Arava (2021)  Nucleic Acids Research, 49(1):432-443.

2020

  • Localization and RNA binding of mitochondrial aminoacyl tRNA synthetases,  Shahar Garin, Ofri Levi, Bar Cohen, Adi Golani and Yoav S. Arava (2020) Genes, 11(10), 1185
  • CytoCensus, mapping cell identity and division in tissues and organs using machine learning. Hailstone M, Waithe D, Samuels TJ, Yang L, Costello I, Arava Y, Robertson E, Parton RM, Davis I (2020)  Elife. 2020 May 19;9:e51085. doi: 10.7554/eLife.51085.
  • Neuronal upregulation of Prospero protein is driven by alternative mRNA polyadenylation and Syncrip-mediated mRNA stabilisation Samuels TJ, Arava Y, Järvelin AI, Robertson F, Lee JY, Yang L, Yang CP, Lee T, Ish-Horowicz D, Davis I.   Biol Open. 2020 May 4;9(5):bio049684. doi: 10.1242/bio.049684.
  • Expanding the CRISPR/Cas9 toolbox for gene engineering in S. cerevisiae. Levi O. and Arava Y. (2020)  Current Microbiology Mar;77(3):468-478. doi: 10.1007/s00284-019-01851-0. Epub 2020 Jan 4.

2019

  • Characterization of factors involved in localized translation near mitochondria by ribosome-proximity labeling. Vardi-Oknin D. and Arava Y. (2019)  Frontiers in Cell and Developmental Biology, Front. Cell Dev. Biol., 26 November 2019
  • RNA mimicry in post-transcriptional regulation by aminoacyl tRNA synthetases Levi O., Garin S. and Arava Y. (2019) WIREs RNA, e1564. https://doi.org/10.1002/wrna.1564
  • Distinct RNA-binding modules in a single PUF protein cooperate to determine RNA specificity. Chen Qiu, Robert C. Dutcher, Douglas F. Porter, Yoav Arava, Marvin Wickens and Traci M. Tanaka Hall (2019)  Nucleic Acids Research, 47(16):8770-8784.
  • mRNA association by aminoacyl tRNA synthetase occurs at a putative anticodon mimic and autoregulates translation in response to tRNA levels. Levy O. and Arava Y. (2019)  PLoS Biology, 2019 May 17;17(5):e3000274

2018

  • The extent of ribosome queuing in budding yeast. Diament A, Feldman A, Schochet E, Kupiec M, Arava Y, Tuller T.  PLoS Comput Biol. 2018 Jan 29;14(1):e1005951.

2017

  • Identification and characterization of roles for Puf1 and Puf2 proteins in the yeast response to high calcium. Haramati O, Brodov A, Yelin I, Atir-Lande A, Samra N, Arava Y.  Sci Rep. 2017 Jun 8;7(1):3037

2016

2015

  • The elongation factor eEF3 (Yef3) interacts with mRNA in a translation independent manner. Samra N, Atir-Lande A, Pnueli L, Arava Y. BMC Mol Biol. 2015 Sep 24;16(1):17
  • Localized translation near the mitochondrial outer membrane: An update. Lesnik C, Golani-Armon A, Arava Y. RNA Biol. 2015 Aug 3;12(8):801-9
  • Overexpression of eIF5 rescues the translational defect of tpk1w in a manner that necessitates a novel phosphorylation site. Bavli-Kertselli I, Melamed D, Bar-Ziv L, Volf H, Arava Y.  FEBS J. 2015 Feb;282(3):504-20. see at pubmed site

2010- 2015

  • OM14 is a mitochondrial receptor for cytosolic ribosomes that supports co-translational import into mitochondria. Lesnik C, Cohen Y, Atir-Lande A, Schuldiner M and Arava Y.  Nature Communications 2014 Dec 9;5:5711.
  • Isolation of mRNAs associated with yeast mitochondria to study mechanisms of localized translation. Lesnik C and Arava Y.  J Vis Exp. 2014 Mar 14;(85).see at pubmed sitePDF file
  • A molecular cryptosystem for images by DNA computing Shoshani S, Piran R, Arava Y, Keinan E. Angew Chem Int Ed Engl. . 2012 Mar 19;51(12):2883-7.see at pubmed site
  • The protein chaperone Ssa1 affects mRNA localization to the mitochondria. Eliyahu E*, Lesnik C* and Arava Y.  FEBS Lett. 2012 Jan 2;586(1):64-9. see at pubmed sitePDF file
  • Divergent RNA binding specificity of yeast Puf2p. Yosefzon Y, Koh YY, Chritton JJ, Lande A, Leibovich L, Barziv L, Petzold C, Yakhini Z, Mandel-Gutfreund Y, Wickens M, Arava Y.  RNA. 2011 Aug;17(8):1479-88. see at pubmed site PDF file
  • Genome-wide analysis of RNA extracted from isolated mitochondria. Eliyahu E, Melamed D, Arava Y.  Methods Mol Biol. 2011;714:287-99. see at pubmed sitePDF file
  • SpRET: highly sensitive and reliable spectral measurement of absolute FRET efficiency. Levy S, Wilms CD, Brumer E, Kahn J, Pnueli L, Arava Y, Eilers J, Gitler D.  Microsc Microanal. 2011 Apr;17(2):176-90. Epub 2011 Feb 21. see at pubmed site
  • Asc1 supports cell-wall integrity near bud sites by a Pkc1 independent mechanism. Melamed D, Bar-Ziv L, Truzman Y, Arava Y.  PLoS One 2010 jun;5(6):e11389 see at pubmed site PDF file
  • Tom20 mediates localization of mRNAs to mitochondria in a translation-dependent manner Eliyahu E, Pnueli L, Melamed D, Scherrer T, Gerber AP, Pines O, Rapaport D, Arava Y.  Mol Cell Biol. 2010 Oct 26. see at pubmed site PDF file

Pre-2010

  • Compaction of polyribosomal mRNA. Arava Y.  RNA Biol. 2009 Sep-Oct;6(4):399-401. see at pubmed site PDF file
  • Exploring translation regulation by global analysis of ribosomal association. Melamed D. Eliyahu E, Arava Y.  Methods. 2009 Jul;48(3):301-5. see at pubmed sitePDF file
  • Identification and characterization of extensive intra-molecular associations between 3’-UTRs and their ORFs. Eldad N, Yosefzon Y, Arava Y.  Nucleic Acids Res. 2008 Dec;36(21):6728-38. see at pubmed site PDF file
  • Yeast translational response to high salinity: Global analysis reveals regulation at multiple levels. Melamed D, Pnueli L, Arava Y.  RNA. 2008 Jul;14(7):1337-51. see at pubmed site PDF file
  • The 3′-UTR mediates the cellular localization of an mRNA encoding a short plasma membrane protein. Loya A, Pnueli L, Yosefzon Y, Wexler Y, Ziv-Ukelson M, Arava Y. RNA. 2008 Jul;14(7):1352-65. see at pubmed site PDF file
  • A ribosomal density-mapping procedure to explore ribosome positions along translating mRNAs. Eldad N, Arava Y.  Methods Mol Biol. 2008;419:231-42. see at pubmed site
  • Genome-wide analysis of mRNA polysomal profiles with spotted DNA microarrays. Melamed D, Arava Y.  Methods Enzymol. 2007;431:177-201. see at pubmed site PDF file
  • Detecting ribosomal association with the 5′ leader of mRNAs by Ribosome Density Mapping (RDM). Eldad N, Arava Y.  Methods Enzymol. 2007;431:163-75. see at pubmed site PDF file
  • Genome-wide polysomal analysis of a yeast strain with mutated ribosomal protein S9 Pnueli L, Arava Y. BMC Genomics. 2007 Aug 21;8:285. see at pubmed sitePDF file
  • Dissecting eukaryotic translation and its control by ribosome density mapping. Arava Y, Boas FE, Brown PO, Herschlag D. Nucleic Acids Res. 2005 Apr 28;33(8):2421-32. Print 2005. see at pubmed site PDF file
  • Genome-wide analysis of pre-mRNA splicing: intron features govern the requirement for the second-step factor, Prp17 in Saccharomyces cerevisiae and Schizosaccharomyces pombe. Sapra AK, Arava Y, Khandelia P, Vijayraghavan U.  J Biol Chem. 2004 Dec 10;279(50):52437-46.see at pubmed site PDF file
  • Isolation of polysomal RNA for microarray analysis.  Arava Y. Methods Mol Biol. 2003;224:79-87 .
  • Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae. Arava Y, Wang Y, Storey JD, Liu CL, Brown PO, Herschlag D. Proc Natl Acad Sci U S A. 2003 Apr 1;100(7):3889-94. see at pubmed site PDF file
  • GRFbeta, a novel regulator of calcium signaling, is expressed in pancreatic beta cells and brain. Arava Y, Seger R, Walker MD.  J Biol Chem. 1999 Aug 27;274(35):24449-52. see at pubmed site PDF file
  • Specific gene expression in pancreatic beta-cells: cloning and characterization of differentially expressed genes. Arava Y, Adamsky K, Ezerzer C, Ablamunits V, Walker MD.  Diabetes. 1999 Mar;48(3):552-6. see at pubmed sitePDF file
  • Differential expression of the protein kinase A regulatory subunit (RIalpha) in pancreatic endocrine cells. Arava Y, Adamsky K, Belleli A, Shaltiel S, Walker MD.  FEBS Lett. 1998 Mar 20;425(1):24-8. pdf see at pubmed site PDF file
  • An activation domain of the helix-loop-helix transcription factor E2A shows cell type preference in vivo in microinjected zebra fish embryos. Argenton F, Arava Y, Aronheim A, Walker MD.  Mol Cell Biol. 1996 Apr;16(4):1714-21.see at pubmed site PDF file