Task 1: Post-transcriptional control

1.         Arragain, S., Bimai, O., Legrand, P., Caillat, S., Ravanat, J.L., Touati, N., Binet, L., Atta, M., Fontecave, M. and Golinelli-Pimpaneau, B. (2017) Nonredox thiolation in tRNA occurring via sulfur activation by a [4Fe-4S] cluster. Proc Natl Acad Sci U S A, 114, 7355-7360. http://www.ncbi.nlm.nih.gov/pubmed/28655838

2.         Banroques, J. and Tanner, N.K. (2015) Bioinformatics and biochemical methods to study the structural and functional elements of DEAD-box RNA helicases. Methods Mol Biol, 1259, 165-181. http://www.ncbi.nlm.nih.gov/pubmed/25579586

3.         Barroso da Silva, F.L., Derreumaux, P. and Pasquali, S. (2017) Fast coarse-grained model for RNA titration. J Chem Phys, 146, 035101. http://www.ncbi.nlm.nih.gov/pubmed/28109220

4.         Barroso da Silva, F.L., Derreumaux, P. and Pasquali, S. (2018) Protein-RNA complexation driven by the charge regulation mechanism. Biochem Biophys Res Commun, 498, 264-273. http://www.ncbi.nlm.nih.gov/pubmed/28709871

5.         Baumgardt, K., Gilet, L., Figaro, S. and Condon, C. (2018) The essential nature of YqfG, a YbeY homologue required for 3' maturation of Bacillus subtilis 16S ribosomal RNA is suppressed by deletion of RNase R. Nucleic Acids Res. http://www.ncbi.nlm.nih.gov/pubmed/29873764

6.         Bizebard, T. and Dreyfus, M. (2015) A FRET-based, continuous assay for the helicase activity of DEAD-box proteins. Methods Mol Biol, 1259, 199-209. http://www.ncbi.nlm.nih.gov/pubmed/25579588

7.         Blaby, I.K., Blaby-Haas, C.E., Perez-Perez, M.E., Schmollinger, S., Fitz-Gibbon, S., Lemaire, S.D. and Merchant, S.S. (2015) Genome-wide analysis on Chlamydomonas reinhardtii reveals the impact of hydrogen peroxide on protein stress responses and overlap with other stress transcriptomes. Plant J, 84, 974-988. http://www.ncbi.nlm.nih.gov/pubmed/26473430

8.         Bou-Nader, C., Barraud, P., Pecqueur, L., Sacquin-Mora, S., Pérez, J., Velours, C., Fontecave, M., Tisné, C. and Hamdane, D. (2018) Molecular basis for transfer RNA substrate recognition by human dihydrouridine synthase. Nucleic Acids Res, In press.

9.         Bou-Nader, C., Bregeon, D., Pecqueur, L., Fontecave, M. and Hamdane, D. (2018) Electrostatic Potential in the tRNA Binding Evolution of Dihydrouridine Synthases. Biochemistry. https://www.ncbi.nlm.nih.gov/pubmed/30149704

10.       Bou-Nader, C., Cornu, D., Guerineau, V., Fogeron, T., Fontecave, M. and Hamdane, D. (2017) Enzyme Activation with a Synthetic Catalytic Co-enzyme Intermediate: Nucleotide Methylation by Flavoenzymes. Angew Chem Int Ed Engl, 56, 12523-12527. http://www.ncbi.nlm.nih.gov/pubmed/28796306

11.       Bou-Nader, C., Pecqueur, L., Bregeon, D., Kamah, A., Guerineau, V., Golinelli-Pimpaneau, B., Guimaraes, B.G., Fontecave, M. and Hamdane, D. (2015) An extended dsRBD is required for post-transcriptional modification in human tRNAs. Nucleic Acids Res, 43, 9446-9456. http://www.ncbi.nlm.nih.gov/pubmed/26429968

12.       Boudry, P., Gracia, C., Monot, M., Caillet, J., Saujet, L., Hajnsdorf, E., Dupuy, B., Martin-Verstraete, I. and Soutourina, O. (2014) Pleiotropic role of the RNA chaperone protein Hfq in the human pathogen Clostridium difficile. J Bacteriol, 196, 3234-3248. http://www.ncbi.nlm.nih.gov/pubmed/24982306

13.       Boulouis, A., Drapier, D., Razafimanantsoa, H., Wostrikoff, K., Tourasse, N.J., Pascal, K., Girard-Bascou, J., Vallon, O., Wollman, F.A. and Choquet, Y. (2015) Spontaneous dominant mutations in chlamydomonas highlight ongoing evolution by gene diversification. Plant Cell, 27, 984-1001. http://www.ncbi.nlm.nih.gov/pubmed/25804537

14.       Bourgeron, T., Xu, Z., Doumic, M. and Teixeira, M.T. (2015) The asymmetry of telomere replication contributes to replicative senescence heterogeneity. Sci Rep, 5, 15326. http://www.ncbi.nlm.nih.gov/pubmed/26468778

15.       Braun, F., Durand, S. and Condon, C. (2017) Initiating ribosomes and a 5'/3'-UTR interaction control ribonuclease action to tightly couple B. subtilis hbs mRNA stability with translation. Nucleic Acids Res, 45, 11386-11400. http://www.ncbi.nlm.nih.gov/pubmed/28977557

16.       Brechemier-Baey, D., Dominguez-Ramirez, L., Oberto, J. and Plumbridge, J. (2015) Operator recognition by the ROK transcription factor family members, NagC and Mlc. Nucleic Acids Res, 43, 361-372. http://www.ncbi.nlm.nih.gov/pubmed/25452338

17.       Brosse, A. and Guillier, M. (2018) Bacterial small RNAs in mixed regulatory networks. Microbiol. Spectrum In Press.

18.       Brosse, A., Korobeinikova, A., Gottesman, S. and Guillier, M. (2016) Unexpected properties of sRNA promoters allow feedback control via regulation of a two-component system. Nucleic Acids Res, 44, 9650-9666. http://www.ncbi.nlm.nih.gov/pubmed/27439713

19.       Caillet, J., Gracia, C., Fontaine, F. and Hajnsdorf, E. (2014) Clostridium difficile Hfq can replace Escherichia coli Hfq for most of its function. RNA, 20, 1567-1578. http://www.ncbi.nlm.nih.gov/pubmed/25147238

20.       Cavaiuolo, M., Kuras, R., Wollman, F.A., Choquet, Y. and Vallon, O. (2017) Small RNA profiling in Chlamydomonas: insights into chloroplast RNA metabolism. Nucleic Acids Res, 45, 10783-10799. http://www.ncbi.nlm.nih.gov/pubmed/28985404

21.       Condon, C. (2015) Airpnp: Auto- and Integrated Regulation of Polynucleotide Phosphorylase. J Bacteriol, 197, 3748-3750. http://www.ncbi.nlm.nih.gov/pubmed/26438817

22.       Condon, C., Piton, J. and Braun, F. (2018) Distribution of the ribosome associated endonuclease Rae1 and the potential role of conserved amino acids in codon recognition. RNA Biol, 1-13. http://www.ncbi.nlm.nih.gov/pubmed/29557713

23.       Cragnolini, T., Chakraborty, D., Sponer, J., Derreumaux, P., Pasquali, S. and Wales, D.J. (2017) Multifunctional energy landscape for a DNA G-quadruplex: An evolved molecular switch. J Chem Phys, 147, 152715. http://www.ncbi.nlm.nih.gov/pubmed/29055346

24.       Cragnolini, T., Derreumaux, P. and Pasquali, S. (2013) Coarse-grained simulations of RNA and DNA duplexes. J Phys Chem B, 117, 8047-8060. http://www.ncbi.nlm.nih.gov/pubmed/23730911

25.       Cragnolini, T., Derreumaux, P. and Pasquali, S. (2015) Ab initio RNA folding. J Phys Condens Matter, 27, 233102. http://www.ncbi.nlm.nih.gov/pubmed/25993396

26.       Cragnolini, T., Laurin, Y., Derreumaux, P. and Pasquali, S. (2015) Coarse-Grained HiRE-RNA Model for ab Initio RNA Folding beyond Simple Molecules, Including Noncanonical and Multiple Base Pairings. J Chem Theory Comput, 11, 3510-3522. http://www.ncbi.nlm.nih.gov/pubmed/26575783

27.       Crozet, P., Navarro, F.J., Willmund, F., Mehrshahi, P., Bakowski, K., Lauersen, K.J., Perez-Perez, M.E., Auroy, P., Gorchs Rovira, A., Sauret-Gueto, S. et al. (2018) Birth of a photosynthetic chassis: a MoClo toolkit enabling synthetic biology in the microalga Chlamydomonas reinhardtii. ACS Synth Biol. https://www.ncbi.nlm.nih.gov/pubmed/30165733

28.       Dahmane, N., Gadelle, D., Delmas, S., Criscuolo, A., Eberhard, S., Desnoues, N., Collin, S., Zhang, H., Pommier, Y., Forterre, P. et al. (2016) topIb, a phylogenetic hallmark gene of Thaumarchaeota encodes a functional eukaryote-like topoisomerase IB. Nucleic Acids Res, 44, 2795-2805. http://www.ncbi.nlm.nih.gov/pubmed/26908651

29.       Danilowicz, C., Hermans, L., Coljee, V., Prevost, C. and Prentiss, M. (2017) ATP hydrolysis provides functions that promote rejection of pairings between different copies of long repeated sequences. Nucleic Acids Res, 45, 8448-8462. http://www.ncbi.nlm.nih.gov/pubmed/28854739

30.       Danilowicz, C., Yang, D., Kelley, C., Prevost, C. and Prentiss, M. (2015) The poor homology stringency in the heteroduplex allows strand exchange to incorporate desirable mismatches without sacrificing recognition in vivo. Nucleic Acids Res, 43, 6473-6485. http://www.ncbi.nlm.nih.gov/pubmed/26089391

31.       Delan-Forino, C., Deforges, J., Benard, L., Sargueil, B., Maurel, M.C. and Torchet, C. (2014) Structural analyses of Avocado sunblotch viroid reveal differences in the folding of plus and minus RNA strands. Viruses, 6, 489-506. http://www.ncbi.nlm.nih.gov/pubmed/24481250

32.       DiChiara, J.M., Liu, B., Figaro, S., Condon, C. and Bechhofer, D.H. (2016) Mapping of internal monophosphate 5' ends of Bacillus subtilis messenger RNAs and ribosomal RNAs in wild-type and ribonuclease-mutant strains. Nucleic Acids Res, 44, 3373-3389. http://www.ncbi.nlm.nih.gov/pubmed/26883633

33.       Durand, S., Braun, F., Lioliou, E., Romilly, C., Helfer, A.C., Kuhn, L., Quittot, N., Nicolas, P., Romby, P. and Condon, C. (2015) A Nitric Oxide Regulated Small RNA Controls Expression of Genes Involved in Redox Homeostasis in Bacillus subtilis. PLoS Genet, 11, e1004957. http://www.ncbi.nlm.nih.gov/pubmed/25643072

34.       Durand, S. and Condon, C. (2018) RNases and Helicases in Gram-Positive Bacteria. Microbiol Spectr, 6. http://www.ncbi.nlm.nih.gov/pubmed/29651979

35.       Durand, S., Tomasini, A., Braun, F., Condon, C. and Romby, P. (2015) sRNA and mRNA turnover in Gram-positive bacteria. FEMS Microbiol Rev. http://www.ncbi.nlm.nih.gov/pubmed/25934118

36.       El Mishri, E.S., Boutant, E., Mouhand, A., Larue, V., Thomas, A., Richert, L., Vivet-Boudout, V., Mély, Y., Tisné, C., Muriaux, D. et al. (2018) The NC domain and the p6 PTAP motif of HIV-1 Gag both contribute to the interaction of Gag with the cellular TSG101-UEV domain. Biochem Biophys Acta, In press.

37.       Elbahnsi, A., Retureau, R., Baaden, M., Hartmann, B. and Oguey, C. (2018) Holding the Nucleosome Together: A Quantitative Description of the DNA-Histone Interface in Solution. J Chem Theory Comput, 14, 1045-1058. http://www.ncbi.nlm.nih.gov/pubmed/29262675

38.       Eugene, S., Bourgeron, T. and Xu, Z. (2017) Effects of initial telomere length distribution on senescence onset and heterogeneity. J Theor Biol, 413, 58-65. http://www.ncbi.nlm.nih.gov/pubmed/27864096

39.       Fallet, E., Jolivet, P., Soudet, J., Lisby, M., Gilson, E. and Teixeira, M.T. (2014) Length-dependent processing of telomeres in the absence of telomerase. Nucleic Acids Res. http://www.ncbi.nlm.nih.gov/pubmed/24393774

40.       Figaro, S., Durand, S., Gilet, L., Cayet, N., Sachse, M. and Condon, C. (2013) Bacillus subtilis mutants with knockouts of the genes encoding ribonucleases RNase Y and RNase J1 are viable, with major defects in cell morphology, sporulation, and competence. J Bacteriol, 195, 2340-2348. http://www.ncbi.nlm.nih.gov/pubmed/23504012

41.       Fontaine, F., Gasiorowski, E., Gracia, C., Ballouche, M., Caillet, J., Marchais, A. and Hajnsdorf, E. (2016) The small RNA SraG participates in PNPase homeostasis. RNA, 22, 1560-1573. http://www.ncbi.nlm.nih.gov/pubmed/27495318

42.       Gaugue, I., Oberto, J. and Plumbridge, J. (2014) Regulation of amino sugar utilization in Bacillus subtilis by the GntR family regulators, NagR and GamR. Mol Microbiol, 92, 100-115. http://www.ncbi.nlm.nih.gov/pubmed/24673833

43.       Gilet, L., DiChiara, J.M., Figaro, S., Bechhofer, D.H. and Condon, C. (2015) Small stable RNA maturation and turnover in Bacillus subtilis. Mol Microbiol, 95, 270-282. http://www.ncbi.nlm.nih.gov/pubmed/25402410

44.       Graf, M., Bonetti, D., Lockhart, A., Serhal, K., Kellner, V., Maicher, A., Jolivet, P., Teixeira, M.T. and Luke, B. (2017) Telomere Length Determines TERRA and R-Loop Regulation through the Cell Cycle. Cell, 170, 72-85 e14. http://www.ncbi.nlm.nih.gov/pubmed/28666126

45.       Gütle, D.D., Roret, T., Muller, S.J., Couturier, J., Lemaire, S.D., Hecker, A., Dhalleine, T., Buchanan, B.B., Reski, R., Einsle, O. et al. (2016) Chloroplast FBPase and SBPase are thioredoxin-linked enzymes with similar architecture but different evolutionary histories. Proc Natl Acad Sci U S A, 113, 6779-6784. http://www.ncbi.nlm.nih.gov/pubmed/27226308

46.       Hamdane, D., Bou-Nader, C., Cornu, D., Hui-Bon-Hoa, G. and Fontecave, M. (2015) Flavin-Protein Complexes: Aromatic Stacking Assisted by a Hydrogen Bond. Biochemistry, 54, 4354-4364. http://www.ncbi.nlm.nih.gov/pubmed/26120776

47.       Hamdane, D., Bruch, E., Un, S., Field, M. and Fontecave, M. (2013) Activation of a unique flavin-dependent tRNA-methylating agent. Biochemistry, 52, 8949-8956. http://www.ncbi.nlm.nih.gov/pubmed/24228791

48.       Hamdane, D., Grosjean, H. and Fontecave, M. (2016) Flavin-Dependent Methylation of RNAs: Complex Chemistry for a Simple Modification. J Mol Biol, 428, 4867-4881. http://www.ncbi.nlm.nih.gov/pubmed/27825927

49.       Hamdane, D., Guelorget, A., Guerineau, V. and Golinelli-Pimpaneau, B. (2014) Dynamics of RNA modification by a multi-site-specific tRNA methyltransferase. Nucleic Acids Res, 42, 11697-11706. http://www.ncbi.nlm.nih.gov/pubmed/25217588

50.       Hamdane, D., Velours, C., Cornu, D., Nicaise, M., Lombard, M. and Fontecave, M. (2016) A chemical chaperone induces inhomogeneous conformational changes in flexible proteins. Phys Chem Chem Phys, 18, 20410-20421. http://www.ncbi.nlm.nih.gov/pubmed/27401114

51.       Hamouche, L., Laalami, S., Daerr, A., Song, S., Holland, I.B., Seror, S.J., Hamze, K. and Putzer, H. (2017) Bacillus subtilis Swarmer Cells Lead the Swarm, Multiply, and Generate a Trail of Quiescent Descendants. MBio, 8. http://www.ncbi.nlm.nih.gov/pubmed/28174308

52.       Harigua-Souiai, E., Abdelkrim, Y.Z., Bassoumi-Jamoussi, I., Zakraoui, O., Bouvier, G., Essafi-Benkhadir, K., Banroques, J., Desdouits, N., Munier-Lehmann, H., Barhoumi, M. et al. (2018) Identification of novel leishmanicidal molecules by virtual and biochemical screenings targeting Leishmania eukaryotic translation initiation factor 4A. PLoS Negl Trop Dis, 12, e0006160. http://www.ncbi.nlm.nih.gov/pubmed/29346371

53.       Hotto, A.M., Castandet, B., Gilet, L., Higdon, A., Condon, C. and Stern, D.B. (2015) Arabidopsis Chloroplast Mini-Ribonuclease III Participates in rRNA Maturation and Intron Recycling. Plant Cell, 27, 724-740. http://www.ncbi.nlm.nih.gov/pubmed/25724636

54.       Indrisiunaite, G., Pavlov, M.Y., Heurgue-Hamard, V. and Ehrenberg, M. (2015) On the pH dependence of class-1 RF-dependent termination of mRNA translation. J Mol Biol, 427, 1848-1860. http://www.ncbi.nlm.nih.gov/pubmed/25619162

55.       Jagodnik, J., Brosse, A., Le Lam, T.N., Chiaruttini, C. and Guillier, M. (2017) Mechanistic study of base-pairing small regulatory RNAs in bacteria. Methods, 117, 67-76. http://www.ncbi.nlm.nih.gov/pubmed/27693881

56.       Jagodnik, J., Chiaruttini, C. and Guillier, M. (2017) Stem-Loop Structures within mRNA Coding Sequences Activate Translation Initiation and Mediate Control by Small Regulatory RNAs. Mol Cell, 68, 158-170 e153. http://www.ncbi.nlm.nih.gov/pubmed/28918899

57.       Jagodnik, J., Thieffrey, D. and Guillier, M. (2017) In de Bruijn, F. J. (ed.), Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria. John Wiley & Sons, Inc., Hoboken, NJ, USA.

58.       Jalal, A., Schwarz, C., Schmitz-Linneweber, C., Vallon, O., Nickelsen, J. and Bohne, A.V. (2015) A small multifunctional pentatricopeptide repeat protein in the chloroplast of Chlamydomonas reinhardtii. Mol Plant, 8, 412-426. http://www.ncbi.nlm.nih.gov/pubmed/25702521

59.       Jamalli, A., Hebert, A., Zig, L. and Putzer, H. (2014) Control of expression of the RNases J1 and J2 in Bacillus subtilis. J Bacteriol, 196, 318-324. http://www.ncbi.nlm.nih.gov/pubmed/24187087

60.       Kim, R., Kanamaru, S., Mikawa, T., Prévost, C., Ishii, K., Ito, K., Uchiyama, S., Oda, M., Iwasaki, H., Kim, S.K. et al. (2018) RecA requires two molecules of Mg2+ ions for its optimal strand exchange activity in vitro. Nucleic Acids Research, 46, 2548-2559. http://dx.doi.org/10.1093/nar/gky048

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5861410/pdf/gky048.pdf

61.       Laalami, S., Zig, L. and Putzer, H. (2014) Initiation of mRNA decay in bacteria. Cell Mol Life Sci, 71, 1799-1828. http://www.ncbi.nlm.nih.gov/pubmed/24064983

62.       Leroy, M., Piton, J., Gilet, L., Pellegrini, O., Proux, C., Coppee, J.Y., Figaro, S. and Condon, C. (2017) Rae1/YacP, a new endoribonuclease involved in ribosome-dependent mRNA decay in Bacillus subtilis. EMBO J, 36, 1167-1181. http://www.ncbi.nlm.nih.gov/pubmed/28363943

63.       Letoquart, J., Huvelle, E., Wacheul, L., Bourgeois, G., Zorbas, C., Graille, M., Heurgue-Hamard, V. and Lafontaine, D.L. (2014) Structural and functional studies of Bud23-Trm112 reveal 18S rRNA N7-G1575 methylation occurs on late 40S precursor ribosomes. Proc Natl Acad Sci U S A, 111, E5518-5526. http://www.ncbi.nlm.nih.gov/pubmed/25489090

64.       Liponska, A., Jamalli, A., Kuras, R., Suay, L., Garbe, E., Wollman, F.A., Laalami, S. and Putzer, H. (2018) Tracking the elusive 5' exonuclease activity of Chlamydomonas reinhardtii RNase J. Plant Mol Biol, 96, 641-653. http://www.ncbi.nlm.nih.gov/pubmed/29600502

65.       Ma, M., Li de la Sierra-Gallay, I., Lazar, N., Pellegrini, O., Durand, D., Marchfelder, A., Condon, C. and van Tilbeurgh, H. (2017) The crystal structure of Trz1, the long form RNase Z from yeast. Nucleic Acids Res, 45, 6209-6216. http://www.ncbi.nlm.nih.gov/pubmed/28379452

66.       Ma, M., Li de la Sierra-Gallay, I., Lazar, N., Pellegrini, O., Lepault, J., Condon, C., Durand, D. and van Tilbeurgh, H. (2017) Trz1, the long form RNase Z from yeast, forms a stable heterohexamer with endonuclease Nuc1 and mutarotase. Biochem J, 474, 3599-3613. http://www.ncbi.nlm.nih.gov/pubmed/28899942

67.       Maes, A., Gracia, C., Innocenti, N., Zhang, K., Aurell, E. and Hajnsdorf, E. (2017) Landscape of RNA polyadenylation in E. coli. Nucleic Acids Res, 45, 2746-2756. http://www.ncbi.nlm.nih.gov/pubmed/28426097

68.       Maes, A., Martinez, X., Druart, K., Laurent, B., Guegan, S., Marchand, C.H., Lemaire, S.D. and Baaden, M. (2018) MinOmics, an Integrative and Immersive Tool for Multi-Omics Analysis. J Integr Bioinform, 15. http://www.ncbi.nlm.nih.gov/pubmed/29927748

69.       Maikova, A., Peltier, J., Boudry, P., Hajnsdorf, E., Kint, N., Monot, M., Poquet, I., Martin-Verstraete, I., Dupuy, B. and Soutourina, O. (2018) Discovery of new type I toxin-antitoxin systems adjacent to CRISPR arrays in Clostridium difficile. Nucleic Acids Res. http://www.ncbi.nlm.nih.gov/pubmed/29529286

70.       Mazur, A.K. (2016) Homologous Pairing between Long DNA Double Helices. Phys Rev Lett, 116, 158101. http://www.ncbi.nlm.nih.gov/pubmed/27127987

71.       Mazur, A.K. (2017) Weak nanoscale chaos and anomalous relaxation in DNA. Phys Rev E, 95, 062417. http://www.ncbi.nlm.nih.gov/pubmed/28709320

72.       Mazur, A.K. and Shepelyansky, D.L. (2015) Algebraic Statistics of Poincare Recurrences in a DNA Molecule. Phys Rev Lett, 115, 188104. http://www.ncbi.nlm.nih.gov/pubmed/26565502

73.       Mazzanti, L., Doutreligne, S., Gageat, C., Derreumaux, P., Taly, A., Baaden, M. and Pasquali, S. (2017) What Can Human-Guided Simulations Bring to RNA Folding? Biophys J, 113, 302-312. http://www.ncbi.nlm.nih.gov/pubmed/28648754

74.       Morisse, S., Michelet, L., Bedhomme, M., Marchand, C.H., Calvaresi, M., Trost, P., Fermani, S., Zaffagnini, M. and Lemaire, S.D. (2014) Thioredoxin-dependent redox regulation of chloroplastic phosphoglycerate kinase from Chlamydomonas reinhardtii. J Biol Chem, 289, 30012-30024. http://www.ncbi.nlm.nih.gov/pubmed/25202015

75.       Morisse, S., Zaffagnini, M., Gao, X.H., Lemaire, S.D. and Marchand, C.H. (2014) Insight into protein S-nitrosylation in Chlamydomonas reinhardtii. Antioxid Redox Signal, 21, 1271-1284. http://www.ncbi.nlm.nih.gov/pubmed/24328795

76.       Mouhand, A., Belfetmi, A., Catala, M., Larue, V., Zargarian, L., Brachet, F., Gorelick, R.J., Van Heijenoort, C., Mirambeau, G., Barraud, P. et al. (2018) Modulation of the HIV nucleocapsid dynamics finely tunes its RNA-binding properties during virion genesis. Nucleic Acids Res. http://www.ncbi.nlm.nih.gov/pubmed/29986076

77.       Perez-Perez, M.E., Mauries, A., Maes, A., Tourasse, N.J., Hamon, M., Lemaire, S.D. and Marchand, C.H. (2017) The Deep Thioredoxome in Chlamydomonas reinhardtii: New Insights into Redox Regulation. Mol Plant, 10, 1107-1125. http://www.ncbi.nlm.nih.gov/pubmed/28739495

78.       Plumbridge, J. (2015) Regulation of the Utilization of Amino Sugars by Escherichia coli and Bacillus subtilis: Same Genes, Different Control. J Mol Microbiol Biotechnol, 25, 154-167. http://www.ncbi.nlm.nih.gov/pubmed/26159076

79.       Plumbridge, J., Bossi, L., Oberto, J., Wade, J.T. and Figueroa-Bossi, N. (2014) Interplay of transcriptional and small RNA-dependent control mechanisms regulates chitosugar uptake in Escherichia coli and Salmonella. Mol Microbiol, 92, 648-658. http://www.ncbi.nlm.nih.gov/pubmed/24593230

80.       Raj-Kumar, P.K., Vallon, O. and Liang, C. (2017) In silico analysis of the sequence features responsible for alternatively spliced introns in the model green alga Chlamydomonas reinhardtii. Plant Mol Biol, 94, 253-265. http://www.ncbi.nlm.nih.gov/pubmed/28364390

81.       Ruiz-Larrabeiti, O., Plagaro, A.H., Gracia, C., Sevillano, E., Gallego, L., Hajnsdorf, E. and Kaberdin, V.R. (2016) A new custom microarray for sRNA profiling in Escherichia coli. FEMS Microbiol Lett, 363. http://www.ncbi.nlm.nih.gov/pubmed/27190161

82.       Salinas-Giege, T., Cavaiuolo, M., Cognat, V., Ubrig, E., Remacle, C., Duchene, A.M., Vallon, O. and Marechal-Drouard, L. (2017) Polycytidylation of mitochondrial mRNAs in Chlamydomonas reinhardtii. Nucleic Acids Res, 45, 12963-12973. http://www.ncbi.nlm.nih.gov/pubmed/29244187

83.       Senissar, M., Le Saux, A., Belgareh-Touze, N., Adam, C., Banroques, J. and Tanner, N.K. (2014) The DEAD-box helicase Ded1 from yeast is an mRNP cap-associated protein that shuttles between the cytoplasm and nucleus. Nucleic Acids Res, 42, 10005-10022. http://www.ncbi.nlm.nih.gov/pubmed/25013175

84.       Sinturel, F., Navickas, A., Wery, M., Descrimes, M., Morillon, A., Torchet, C. and Benard, L. (2015) Cytoplasmic Control of Sense-Antisense mRNA Pairs. Cell Rep, 12, 1853-1864. http://www.ncbi.nlm.nih.gov/pubmed/26344770

85.       Soudet, J., Jolivet, P. and Teixeira, M.T. (2014) Elucidation of the DNA End-Replication Problem in Saccharomyces cerevisiae. Mol Cell, 53, 954-964. http://www.ncbi.nlm.nih.gov/pubmed/24656131

86.       Stadlbauer, P., Mazzanti, L., Cragnolini, T., Wales, D.J., Derreumaux, P., Pasquali, S. and Sponer, J. (2016) Coarse-Grained Simulations Complemented by Atomistic Molecular Dynamics Provide New Insights into Folding and Unfolding of Human Telomeric G-Quadruplexes. J Chem Theory Comput, 12, 6077-6097. http://www.ncbi.nlm.nih.gov/pubmed/27767303

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