| | Articles SURVEY AND SUMMARY: The phylogenetic distribution of bacterial ribonucleases Ciarán Condon and Harald Putzer PMCID: PMC140075 Characterization of the fission yeast ribosomal DNA binding factor: components share homology with Upstream Activating Factor and with SWI/SNF subunits Meilin Liu, Ailan Guo, Boris Boukhgalter, Kaitlin Van Den Heuvel, Matthew Tripp, and Louise Pape PMCID: PMC140063 Interaction of C5 protein with RNA aptamers selected by SELEX June Hyung Lee, Hana Kim, Jaehyeong Ko, and Younghoon Lee PMCID: PMC140078 Functional second genes generated by retrotransposition of the X-linked ribosomal protein genes Tamayo Uechi, Noriko Maeda, Tatsuo Tanaka, and Naoya Kenmochi PMCID: PMC140079 A hairpin near the 5′ end stabilises the DNA gyrase mRNA in Mycobacterium smegmatis Shyam Unniraman, Monalisa Chatterji, and Valakunja Nagaraja PMCID: PMC140080 Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale Odile Lecompte, Raymond Ripp, Jean-Claude Thierry, Dino Moras, and Olivier Poch PMCID: PMC140077 Helicobacter pylori interstrain restriction-modification diversity prevents genome subversion by chromosomal DNA from competing strains Rahul A. Aras, Aaron J. Small, Takafumi Ando, and Martin J. Blaser PMCID: PMC140068 α/γ Transitions in the B-DNA backbone Péter Várnai, Dragana Djuranovic, Richard Lavery, and Brigitte Hartmann PMCID: PMC140057 A directional nucleation-zipping mechanism for triple helix formation Patrizia Alberti, Paola B. Arimondo, Jean-Louis Mergny, Thérèse Garestier, Claude Hélène, and Jian-Sheng Sun PMCID: PMC140048 Characterisation of the DNA-dependent ATPase activity of human DNA topoisomerase IIβ: mutation of Ser165 in the ATPase domain reduces the ATPase activity and abolishes the in vivo complementation ability Katherine L. West, Rosalind M. Turnbull, Elaine Willmore, Jeremy H. Lakey, and Caroline A. Austin PMCID: PMC140051 In vivo selection of spectinomycin-binding RNAs Jeff M. Zimmerman and L. James Maher, III PMCID: PMC140070 Individual gvp transcript segments in Haloferax mediterranei exhibit varying half-lives, which are differentially affected by salt concentration and growth phase Andreas Jäger, Regina Samorski, Felicitas Pfeifer, and Gabriele Klug PMCID: PMC140082 Characterization of the interaction between the nucleotide exchange factor EF-Ts from nematode mitochondria and elongation factor Tu Takashi Ohtsuki, Masayuki Sakurai, Aya Sato, and Kimitsuna Watanabe PMCID: PMC140056 Identification of cellular mRNA targets for RNA-binding protein Sam68 Michiyasu Itoh, Izumi Haga, Qing-Hua Li, and Jun-ichi Fujisawa PMCID: PMC140046 The centrosomal kinase Aurora-A/STK15 interacts with a putative tumor suppressor NM23-H1 Jian Du and Gregory J. Hannon PMCID: PMC140054 Mutations in U5 snRNA loop 1 influence the splicing of different genes in vivo Raymond T. O’Keefe PMCID: PMC140076 Propynyl groups in duplex DNA: stability of base pairs incorporating 7-substituted 8-aza-7-deazapurines or 5-substituted pyrimidines Junlin He and Frank Seela PMCID: PMC140073 Synthesis, characterization and solution structure of tethered oligonucleotides containing an internal 3′-phosphoglycolate, 5′-phosphate gapped lesion Hans-Dieter Junker, Silvia T. Hoehn, Richard C. Bunt, Vasilios Marathius, Jingyang Chen, Christopher J. Turner, and JoAnne Stubbe PMCID: PMC140059 Cooperative binding of Sox10 to DNA: requirements and consequences Beate Schlierf, Andreas Ludwig, Karin Klenovsek, and Michael Wegner PMCID: PMC140074 Improving the predictive value of the competence transcription factor (ComK) binding site in Bacillus subtilis using a genomic approach Leendert W. Hamoen, Wiep Klaas Smits, Anne de Jong, Siger Holsappel, and Oscar P. Kuipers PMCID: PMC140081 Genome-wide analysis of mRNA decay in resting and activated primary human T lymphocytes Arvind Raghavan, Rachel L. Ogilvie, Cavan Reilly, Michelle L. Abelson, Shalini Raghavan, Jayprakash Vasdewani, Mitchell Krathwohl, and Paul R. Bohjanen PMCID: PMC140061 Specificity of Mnt ‘master residue’ obtained from in vivo and in vitro selections Fauzi S. Silbaq, Steven E. Ruttenberg, and Gary D. Stormo PMCID: PMC140065 Discovery of novel transcription factor binding sites by statistical overrepresentation Saurabh Sinha and Martin Tompa PMCID: PMC140044 Integrity of duplex structures without hydrogen bonding: DNA with pyrene paired at abasic sites Serge Smirnov, Tracy J. Matray, Eric T. Kool, and Carlos de los Santos PMCID: PMC140072 Studies on the minimal lengths required for DNA primers to be extended by the Tetrahymena telomerase: implications for primer positioning by the enzyme Nava Baran, Yonit Haviv, Beena Paul, and Haim Manor PMCID: PMC140050 Exploring root symbiotic programs in the model legume Medicago truncatula using EST analysis Etienne-Pascal Journet, Diederik van Tuinen, Jérome Gouzy, Hervé Crespeau, Véronique Carreau, Mary-Jo Farmer, Andreas Niebel, Thomas Schiex, Olivier Jaillon, Odile Chatagnier, Laurence Godiard, Fabienne Micheli, Daniel Kahn, Vivienne Gianinazzi-Pearson, and Pascal Gamas PMCID: PMC140066 NAR Methods Online Promoter-trapping in Saccharomyces cerevisiae by radiation-assisted fragment insertion Markus Kiechle, Palaniyandi Manivasakam, Friederike Eckardt-Schupp, Robert H. Schiestl, and Anna A. Friedl PMCID: PMC140085 Stochastic processes defining sensitivity and variability of internally calibrated quantitative NASBA-based viral load assays Jos J. A. M. Weusten, Pieter A. W. M. Wouters, Martien C. A. van Zuijlen, and Paul A. van de Wiel PMCID: PMC140086 A Y639F/H784A T7 RNA polymerase double mutant displays superior properties for synthesizing RNAs with non-canonical NTPs Robert Padilla and Rui Sousa PMCID: PMC140087 Random DNA fragmentation with endonuclease V: application to DNA shuffling Kentaro Miyazaki PMCID: PMC140088 T7 RNA polymerase as a self-replicating label for antigen quantification Bakhos A. Tannous, Eleftheria Laios, and Theodore K. Christopoulos PMCID: PMC140089 Optimization of trans-splicing ribozyme efficiency and specificity by in vivo genetic selection Brian G. Ayre, Uwe Köhler, Robert Turgeon, and Jim Haseloff PMCID: PMC140090 Novel retroviral vectors to facilitate expression screens in mammalian cells Eugene Y. Koh, Tong Chen, and George Q. Daley PMCID: PMC140091 Corrigenda Nucleic Acids Res. 2002 December 15; 30(24): 5593. PMCID: PMC140083 Corrects: Suparna Chandra Sanyal, et al. 23S rRNA assisted folding of cytoplasmic malate dehydrogenase is distinctly different from its self-folding. Nucleic Acids Res. 2002 June 1; 30(11): 2390–2397. Nucleic Acids Res. 2002 December 15; 30(24): 5593. PMCID: PMC140084 Corrects: Emiko Kinoshita-Kikuta, et al. A novel procedure for simple and efficient genotyping of single nucleotide polymorphisms by using the Zn2+–cyclen complex. Nucleic Acids Res. 2002 November 15; 30(22): e126. |
