archaeal rna

Summary

Summary: Ribonucleic acid in archaea having regulatory and catalytic roles as well as involvement in protein synthesis.

Top Publications

  1. ncbi RNA-modifying machines in archaea
    Arina D Omer
    Department of Biochemistry and Molecular Biology, University of British Columbia, 2146 Health Sciences Mall, Vancouver, BC, V6T 1Z3, Canada
    Mol Microbiol 48:617-29. 2003
  2. pmc The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
    Jamie J Cannone
    Institute for Cellular and Molecular Biology, Section of Integrative Biology, University of Texas at Austin, 2500 Speedway, Austin, TX 78712 1095, USA
    BMC Bioinformatics 3:2. 2002
  3. pmc Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus
    Thean Hock Tang
    Institute of Experimental Pathology, Von Esmarch Strasse 56, 48149 Munster, Germany
    Proc Natl Acad Sci U S A 99:7536-41. 2002
  4. pmc New screening software shows that most recent large 16S rRNA gene clone libraries contain chimeras
    Kevin E Ashelford
    Cardiff School of Biosciences, Cardiff University, Main Building, Park Place, P O Box 915, Cardiff CF10 3TL, United Kingdom
    Appl Environ Microbiol 72:5734-41. 2006
  5. pmc The kink-turn: a new RNA secondary structure motif
    D J Klein
    Department of Molecular Biophysics and Biochemistry, Yale University and Howard Hughes Medical Institute, New Haven, CT 06520 8114, USA
    EMBO J 20:4214-21. 2001
  6. pmc Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea
    Timofey S Rozhdestvensky
    Institut für Experimentelle Pathologie Molekulare Neurobiologie ZMBE, Universitat Munster, D 48149 Munster, Germany
    Nucleic Acids Res 31:869-77. 2003
  7. ncbi Pyrrolysine encoded by UAG in Archaea: charging of a UAG-decoding specialized tRNA
    Gayathri Srinivasan
    Department of Microbiology, Ohio State University, Columbus, OH 43210, USA
    Science 296:1459-62. 2002
  8. ncbi The archaeal sRNA binding protein L7Ae has a 3D structure very similar to that of its eukaryal counterpart while having a broader RNA-binding specificity
    C Charron
    Laboratoire de Cristallographie et Modélisation des Matériaux Minéraux et Biologiques, UMR CNRS 7036, Groupe Biocristallographie, Universite Henri Poincare, Nancy I, BP 239, 54506 Vandoeuvre les Nancy, France
    J Mol Biol 342:757-73. 2004
  9. ncbi Archaeal habitats--from the extreme to the ordinary
    Bonnie Chaban
    Department of Microbiology and Immunology, Queen s University, Kingston, ON, Canada
    Can J Microbiol 52:73-116. 2006
  10. pmc Circular box C/D RNAs in Pyrococcus furiosus
    Natalia G Starostina
    Department of Biochemistry and Molecular Biology, University of Georgia, Davison Life Science Building, Athens, GA 30602, USA
    Proc Natl Acad Sci U S A 101:14097-101. 2004

Research Grants

  1. X-ray crystallographic studies of multi-subunit nucleic acid polymerases
    Katsuhiko Murakami; Fiscal Year: 2013
  2. INTER AND INTRAMOLECULAR COMMUNICATIONS IN TRANSCRIPTION
    Tomasz Heyduk; Fiscal Year: 2012
  3. PROKARYOTIC CHROMATIN AND TRANSCRIPTIONAL REGULATION
    ERNEST GEIDUSCHEK; Fiscal Year: 2009
  4. Archaeal Transcription Termination
    THOMAS SANTANGELO; Fiscal Year: 2007
  5. Structure and function of SRP RNA
    Christian Zwieb; Fiscal Year: 2006
  6. RNA Transport Within the Nucleus
    Thoru Pederson; Fiscal Year: 2005
  7. Telomerase Transport and Targeting
    MICHAEL TERNS; Fiscal Year: 2008
  8. Interrogation of systems level mechanisms controlling DNA repair processes
    Nitin S Baliga; Fiscal Year: 2010
  9. The range of recoding and analysis of a 50 nt bypass to probe ribosomal function
    John F Atkins; Fiscal Year: 2010
  10. RNA PROCESSING AND RIBONUCLEOPROTEIN
    Thoru Pederson; Fiscal Year: 2001

Detail Information

Publications210 found, 100 shown here

  1. ncbi RNA-modifying machines in archaea
    Arina D Omer
    Department of Biochemistry and Molecular Biology, University of British Columbia, 2146 Health Sciences Mall, Vancouver, BC, V6T 1Z3, Canada
    Mol Microbiol 48:617-29. 2003
    ..This article summarizes our current knowledge about small-non-coding RNAs in Archaea, their roles in ribosome biogenesis and their relationships to the complexes that have been identified in eukaryotic cells...
  2. pmc The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs
    Jamie J Cannone
    Institute for Cellular and Molecular Biology, Section of Integrative Biology, University of Texas at Austin, 2500 Speedway, Austin, TX 78712 1095, USA
    BMC Bioinformatics 3:2. 2002
    ..This type of information can be fundamental for and have an influence on the study of phylogenetic relationships, RNA structure, and the melding of these two fields...
  3. pmc Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus
    Thean Hock Tang
    Institute of Experimental Pathology, Von Esmarch Strasse 56, 48149 Munster, Germany
    Proc Natl Acad Sci U S A 99:7536-41. 2002
    ..Our study further supports the importance of snmRNAs in all three domains of life...
  4. pmc New screening software shows that most recent large 16S rRNA gene clone libraries contain chimeras
    Kevin E Ashelford
    Cardiff School of Biosciences, Cardiff University, Main Building, Park Place, P O Box 915, Cardiff CF10 3TL, United Kingdom
    Appl Environ Microbiol 72:5734-41. 2006
    ..Mallard is freely available from our website at http://www.cardiff.ac.uk/biosi/research/biosoft/...
  5. pmc The kink-turn: a new RNA secondary structure motif
    D J Klein
    Department of Molecular Biophysics and Biochemistry, Yale University and Howard Hughes Medical Institute, New Haven, CT 06520 8114, USA
    EMBO J 20:4214-21. 2001
    ..Five K-turns in 23S rRNA interact with nine proteins. While the observed K-turns interact with proteins of unrelated structures in different ways, they interact with L7Ae and two homologous proteins in the same way...
  6. pmc Binding of L7Ae protein to the K-turn of archaeal snoRNAs: a shared RNA binding motif for C/D and H/ACA box snoRNAs in Archaea
    Timofey S Rozhdestvensky
    Institut für Experimentelle Pathologie Molekulare Neurobiologie ZMBE, Universitat Munster, D 48149 Munster, Germany
    Nucleic Acids Res 31:869-77. 2003
    ..These findings suggest a triple role for L7Ae protein in Archaea, e.g. in ribosomes as well as H/ACA and C/D box sRNP biogenesis and function by binding to the K-turn motif...
  7. ncbi Pyrrolysine encoded by UAG in Archaea: charging of a UAG-decoding specialized tRNA
    Gayathri Srinivasan
    Department of Microbiology, Ohio State University, Columbus, OH 43210, USA
    Science 296:1459-62. 2002
    ..Charging a tRNA(CUA) with lysine is a likely first step in translating UAG amber codons as pyrrolysine in certain methanogens. Our results indicate that pyrrolysine is the 22nd genetically encoded natural amino acid...
  8. ncbi The archaeal sRNA binding protein L7Ae has a 3D structure very similar to that of its eukaryal counterpart while having a broader RNA-binding specificity
    C Charron
    Laboratoire de Cristallographie et Modélisation des Matériaux Minéraux et Biologiques, UMR CNRS 7036, Groupe Biocristallographie, Universite Henri Poincare, Nancy I, BP 239, 54506 Vandoeuvre les Nancy, France
    J Mol Biol 342:757-73. 2004
    ..The Glu43-Lys46 ion pair of protein L7Ae belongs to a complex network of ion pairs that may participate to protein thermostability...
  9. ncbi Archaeal habitats--from the extreme to the ordinary
    Bonnie Chaban
    Department of Microbiology and Immunology, Queen s University, Kingston, ON, Canada
    Can J Microbiol 52:73-116. 2006
    ....
  10. pmc Circular box C/D RNAs in Pyrococcus furiosus
    Natalia G Starostina
    Department of Biochemistry and Molecular Biology, University of Georgia, Davison Life Science Building, Athens, GA 30602, USA
    Proc Natl Acad Sci U S A 101:14097-101. 2004
    ..Moreover, the unexpected discovery of circular box C/D RNAs points to the existence of a previously unrecognized biogenesis pathway for box C/D RNAs in archaea...
  11. ncbi Complete genome sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain7
    Y Kawarabayasi
    National Institute of Technology and Evaluation, Shibuya, Tokyo, Japan
    DNA Res 8:123-40. 2001
    ..The result suggests that this strain is closer to eukaryotes among the archaea strains so far sequenced. The data presented in this paper are also available on the internet homepage (http://www.bio.nite.go.jp/E-home/genome_list-e.html/)...
  12. ncbi RNA-guided nucleotide modification of ribosomal and other RNAs
    Wayne A Decatur
    Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst 01003, USA
    J Biol Chem 278:695-8. 2003
  13. ncbi Haloquadratum walsbyi gen. nov., sp. nov., the square haloarchaeon of Walsby, isolated from saltern crystallizers in Australia and Spain
    David G Burns
    Department of Microbiology and Immunology, University of Melbourne, Victoria 3010, Australia
    Int J Syst Evol Microbiol 57:387-92. 2007
    ..nov., sp. nov. The type strain of Haloquadratum walsbyi is C23T (=JCM 12705T=DSM 16854T)...
  14. ncbi Homologs of small nucleolar RNAs in Archaea
    A D Omer
    Department of Biochemistry and Molecular Biology, University of British Columbia, 2146 Health Sciences Mall, Vancouver, BC V6T 1Z3, Canada
    Science 288:517-22. 2000
    ..snoRNA-based rRNA processing was therefore probably present in the last common ancestor of Archaea and Eukarya, predating the evolution of a morphologically distinct nucleolus...
  15. pmc RNA polyadenylation and degradation in different Archaea; roles of the exosome and RNase R
    Victoria Portnoy
    Department of Biology, Technion Israel Institute of Technology, Haifa 32000, Israel
    Nucleic Acids Res 34:5923-31. 2006
    ..This ribonuclease is not able to degrade structured RNA better than PNPase. RNase R, which appears to be the only exoribonucleases in Haloferax volcanii, was found to be essential for viability...
  16. ncbi The expanding snoRNA world
    Jean Pierre Bachellerie
    Laboratoire de Biologie Moleculaire Eucaryote du CNRS, Universite Paul Sabatier, 118, route de Narbonne, 31062 Toulouse Cedex 4, France
    Biochimie 84:775-90. 2002
    ..Recent characterization of homologs of eukaryotic modification guide snoRNAs in Archaea reveals the ancient origin of these non-coding RNA families and offers new perspectives as to their range of function...
  17. ncbi Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales
    Junichi Sugahara
    Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan
    Mol Biol Evol 25:2709-16. 2008
    ..The sequences and secondary structures of the tRNA genes and their bulge-helix-bulge motifs were registered in SPLITSdb (http://splits.iab.keio.ac.jp/splitsdb/), a novel and comprehensive database for archaeal tRNA genes...
  18. pmc Induced fit of RNA on binding the L7Ae protein to the kink-turn motif
    Ben Turner
    Cancer Research UK Nucleic Acid Structure Research Group, MSI WTB complex, The University of Dundee, Dundee DD1 5EH, UK
    RNA 11:1192-200. 2005
    ..Thus this RNA may act as a relatively flexible hinge during RNA folding, until fixed into its ultimate kinked structure by the binding of L7 or related protein...
  19. pmc RNomics in Archaea reveals a further link between splicing of archaeal introns and rRNA processing
    Thean Hock Tang
    Institut für Experimentelle Pathologie Molekulare Neurobiologie ZMBE, Universitat Munster, D 48149 Munster, Germany
    Nucleic Acids Res 30:921-30. 2002
    ..This supports the notion that it might have an important but still unknown role in pre-rRNA biogenesis or might even target RNA molecules other than rRNA...
  20. pmc Efficient RNA 2'-O-methylation requires juxtaposed and symmetrically assembled archaeal box C/D and C'/D' RNPs
    Elizabeth J Tran
    Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC 27695 7622, USA
    EMBO J 22:3930-40. 2003
    ..Thus, evolution of the box C/D nucleotide modification complex has resulted in structurally distinct archaeal and eukaryotic RNP particles...
  21. pmc The European database on small subunit ribosomal RNA
    Jan Wuyts
    Departement Biochemie, Universiteit Antwerpen UIA, Universiteitsplein 1, B 2610 Antwerpen, Belgium
    Nucleic Acids Res 30:183-5. 2002
    ..Additional information such as literature references, taxonomy, secondary structure models and nucleotide variability maps, is also available...
  22. ncbi The structural basis of ribosome activity in peptide bond synthesis
    P Nissen
    Department of Molecular Biophysics and Biochemistry and Department of Chemistry, Yale University, and Howard Hughes Medical Institute, New Haven, CT 06520 8114, USA
    Science 289:920-30. 2000
    ..The polypeptide exit tunnel is largely formed by RNA but has significant contributions from proteins L4, L22, and L39e, and its exit is encircled by proteins L19, L22, L23, L24, L29, and L31e...
  23. ncbi Genetic and functional properties of uncultivated thermophilic crenarchaeotes from a subsurface gold mine as revealed by analysis of genome fragments
    Takuro Nunoura
    Subground Animalcule Retrieval SUGAR Program, Extremebiosphere Research Center, Japan Agency for Marine Earth Science and Technology JAMSTEC, 2 15 Natsushima cho, Jokosuka, Japan
    Environ Microbiol 7:1967-84. 2005
    ..The reconstructed phylogenetic tree based on the 23S rRNA gene sequence reinforced the intermediate phylogenetic affiliation of HWCG III bridging the hyperthermophilic and non-thermophilic uncultivated Crenarchaeota...
  24. ncbi The evolutionary history of the structure of 5S ribosomal RNA
    Feng Jie Sun
    Department of Crop Sciences, University of Illinois at Urbana Champaign, 332 National Soybean Research Center, 1101 West Peabody Drive, Urbana, IL 61801, USA
    J Mol Evol 69:430-43. 2009
    ..The molecule therefore represents a late evolutionary addition to the ribosomal ensemble that occurred prior to the early diversification of Archaea...
  25. pmc RNA tertiary interactions in the large ribosomal subunit: the A-minor motif
    P Nissen
    Department of Molecular Biophysics and Biochemistry, Yale University and Howard Hughes Medical Institute, New Haven, CT 06520-8114, USA
    Proc Natl Acad Sci U S A 98:4899-903. 2001
    ..It may prove to be the universally most important long-range interaction in large RNA structures...
  26. ncbi Archaeal RNA polymerase is sensitive to intrinsic termination directed by transcribed and remote sequences
    Thomas J Santangelo
    Department of Microbiology, The Ohio State University, Columbus, OH 43210, USA
    J Mol Biol 355:196-210. 2006
    ....
  27. ncbi The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit
    D J Klein
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    J Mol Biol 340:141-77. 2004
    ..marismortui and D.radiodurans revealed striking examples of molecular mimicry. These comparisons illustrate that identical RNA structures can be stabilized by unrelated proteins...
  28. ncbi Functional requirement for symmetric assembly of archaeal box C/D small ribonucleoprotein particles
    Rumana Rashid
    Department of Chemistry and Biochemistry, Institute of Molecular Biophysics, Florida State University, Tallahassee, FL 32306, USA
    J Mol Biol 333:295-306. 2003
    ..These findings underscore the importance of functional assembly in methyl transfer reactions...
  29. ncbi Predicting U-turns in ribosomal RNA with comparative sequence analysis
    R R Gutell
    Institute for Cellular and Molecular Biology, University of Texas at Austin, 2500 Speedway, Austin, TX, 78712 1095, USA
    J Mol Biol 300:791-803. 2000
    ..In 13 cases, the bases on the 3' side of the turn, or on the immediate 5' side, are involved in tertiary covariations, making these sites strong candidates for tertiary interactions...
  30. ncbi The complete atomic structure of the large ribosomal subunit at 2.4 A resolution
    N Ban
    Department of Molecular Biophysics and Biochemistry and Howard Hughes Medical Institute, New Haven, CT 06520 8114, USA
    Science 289:905-20. 2000
    ..Most of the proteins stabilize the structure by interacting with several RNA domains, often using idiosyncratically folded extensions that reach into the subunit's interior...
  31. ncbi Rrp4 and Csl4 are needed for efficient degradation but not for polyadenylation of synthetic and natural RNA by the archaeal exosome
    Elena Evguenieva-Hackenberg
    Institut für Mikrobiologie and Molekularbiologie der Justus Liebig Universität Giessen, Heinrich Buff Ring 26 32, 35392 Giessen, Germany
    Biochemistry 47:13158-68. 2008
    ..In summary, the data suggest that subunit composition and Mg(2+) are involved in the regulation of exosome activity...
  32. ncbi Structure of the SRP19 RNA complex and implications for signal recognition particle assembly
    Tobias Hainzl
    Umea Centre for Molecular Pathogenesis, Umea University, SE 901 87 Umea, Sweden
    Nature 417:767-71. 2002
    ..The structure explains the role of SRP19 and provides a molecular framework for SRP54 binding and SRP assembly in Eukarya and Archaea...
  33. ncbi Identification of novel non-coding RNAs as potential antisense regulators in the archaeon Sulfolobus solfataricus
    Thean Hock Tang
    Institute for Research in Molecular Medicine, University Sains Malaysia Health Campus, 16150 Kubang Kerian, Kelatan, Malaysia
    Mol Microbiol 55:469-81. 2005
    ..In conclusion, this is the first report of stably expressed antisense RNAs in an archaeal species and it raises the prospect that antisense-based mechanisms are also used widely in Archaea to regulate gene expression...
  34. pmc Posttranscriptional modifications in the A-loop of 23S rRNAs from selected archaea and eubacteria
    M A Hansen
    Department of Molecular Biology, University of Copenhagen, Denmark
    RNA 8:202-13. 2002
    ..Eight of the methylated nucleotides and one psi have not been reported previously. The distribution of modified nucleotides and their locations on the surface of the ribosomal peptidyl transferase cleft suggests functional importance...
  35. ncbi The crystal structure of the Methanocaldococcus jannaschii multifunctional L7Ae RNA-binding protein reveals an induced-fit interaction with the box C/D RNAs
    Jimmy Suryadi
    Department of Chemistry, Wake Forest University, Winston Salem, North Carolina 27109, USA
    Biochemistry 44:9657-72. 2005
    ..Circular dichroism experiments show that box C/D and C'/D' RNA motifs undergo conformational changes when magnesium or the L7Ae protein is added, corroborating the induced-fit model for L7Ae-box C/D RNA interactions...
  36. ncbi Reverse methanogenesis: testing the hypothesis with environmental genomics
    Steven J Hallam
    Monterey Bay Aquarium Research Institute, Moss Landing, CA 95064, USA
    Science 305:1457-62. 2004
    ..These genome-based observations support previous hypotheses and provide an informed foundation for metabolic modeling of anaerobic methane oxidation...
  37. pmc Conserved spacing between the box C/D and C'/D' RNPs of the archaeal box C/D sRNP complex is required for efficient 2'-O-methylation of target RNAs
    Elizabeth Tran
    Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, NC 27695, USA
    RNA 11:285-93. 2005
    ..Collectively, these results demonstrate the importance of box C/D and C'/D' RNP positioning for preservation of critical inter-RNP interactions required for efficient box C/D sRNP-guided nucleotide methylation...
  38. pmc Number, position, and significance of the pseudouridines in the large subunit ribosomal RNA of Haloarcula marismortui and Deinococcus radiodurans
    Mark Del Campo
    Lambowitz Laboratory, Institute for Cellular and Molecular Biology, University of Texas at Austin, 1 University Station A4800, Austin, TX 78712, USA
    RNA 11:210-9. 2005
    ..All the pseudoridines are near, but not exactly at, nucleotides directly involved in various aspects of ribosome function. In addition, two D. radiodurans Psi synthases responsible for the four Psi were identified...
  39. pmc Combined use of cultivation-dependent and cultivation-independent methods indicates that members of most haloarchaeal groups in an Australian crystallizer pond are cultivable
    D G Burns
    Department of Microbiology and Immunology, University of Melbourne, Parkville, Victoria 3010, Australia
    Appl Environ Microbiol 70:5258-65. 2004
    ..This inability to culture members of the SHOW group remains an outstanding problem in studying the ecology of hypersaline environments...
  40. pmc A nomenclature for all signal recognition particle RNAs
    Christian Zwieb
    Department of Molecular Biology, The University of Texas Health Science Center at Tyler, 11937 US Highway 271, Tyler, TX 75708 3154, USA
    RNA 11:7-13. 2005
    ..In order to assist in the continuation of these studies, we propose an SRP RNA nomenclature applicable to the three divisions of life...
  41. pmc Noncoding RNA genes identified in AT-rich hyperthermophiles
    Robert J Klein
    Howard Hughes Medical Institute and Department of Genetics, Washington University School of Medicine, Saint Louis, MO 63110, USA
    Proc Natl Acad Sci U S A 99:7542-7. 2002
    ..furiosus. Nine of the 30 new candidate genes predicted by these screens have been verified to produce discrete, apparently noncoding transcripts with sizes ranging from 97 to 277 nucleotides...
  42. ncbi Dehydrogenases from all three domains of life cleave RNA
    Elena Evguenieva-Hackenberg
    Institut für Mikrobiologie und Molekularbiologie der Justus Liebig Universität Giessen, Heinrich Buff Ring 26 32, 35392 Giessen, Germany
    J Biol Chem 277:46145-50. 2002
    ..Thus, RNA cleavage has to be taken into account in the ongoing discussion of the possible biological function of RNA binding by dehydrogenases...
  43. ncbi A guided tour: small RNA function in Archaea
    P P Dennis
    Department of Biochemistry and Molecular Biology, University of British Columbia, 2146 Health Sciences Mall, Vancouver, BC V6T 1Z3, Canada
    Mol Microbiol 40:509-19. 2001
    ....
  44. ncbi RNA-guided nucleotide modification of ribosomal and non-ribosomal RNAs in Archaea
    Sonia M Ziesche
    Department of Biochemistry and Molecular Biology University of British Columbia 2146 Health Sciences Mall Vancouver, BC, V6T 1Z3, Canada
    Mol Microbiol 54:980-93. 2004
    ..Maximal activity of double guide sRNAs required that both methylation sites be present in cis on the target RNA...
  45. pmc The coiled-coil domain of the Nop56/58 core protein is dispensable for sRNP assembly but is critical for archaeal box C/D sRNP-guided nucleotide methylation
    Xinxin Zhang
    Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, 27695, USA
    RNA 12:1092-103. 2006
    ....
  46. ncbi Probing the catalytic triad of an archaeal RNA splicing endonuclease
    Kate Calvin
    Department of Chemistry and Biochemistry, Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida 32306, USA
    Biochemistry 47:13659-65. 2008
    ..These data support important functional roles already proposed for the catalytic triad and suggest an intriguing hypothesis in which the splicing endonuclease is an intermediate in the transition from the RNA to the RNP world...
  47. pmc Post-transcriptional modification in archaeal tRNAs: identities and phylogenetic relations of nucleotides from mesophilic and hyperthermophilic Methanococcales
    J A McCloskey
    Departments of Biochemistry and Medicinal Chemistry, University of Utah, Salt Lake City, UT 84112 5820, USA
    Nucleic Acids Res 29:4699-706. 2001
    Post-transcriptional modifications in archaeal RNA are known to be phylogenetically distinct but relatively little is known of tRNA from the Methanococci, a lineage of methanogenic marine euryarchaea that grow over an unusually broad ..
  48. pmc RNA channelling by the archaeal exosome
    Esben Lorentzen
    European Molecular Biology Laboratory EMBL, Meyerhofstrasse 1, D 69117, Heidelberg, Germany
    EMBO Rep 8:470-6. 2007
    ..Multiple substrate-binding sites and the entrapment of the substrate in the central channel provide a rationale for the processive degradation of extended RNAs and the stalling of structured RNAs...
  49. pmc RNA polyadenylation in Archaea: not observed in Haloferax while the exosome polynucleotidylates RNA in Sulfolobus
    Victoria Portnoy
    Department of Biology, Technion Israel Institute of Technology, Haifa 32000, Israel
    EMBO Rep 6:1188-93. 2005
    ..Together, our results identify the first organism without RNA polyadenylation and show a polyadenylation activity of the archaea exosome...
  50. ncbi Kinship in the SRP RNA family
    Magnus Alm Rosenblad
    Department of Cell and Molecular Biology, University of Gothenburg, Goteborg, Sweden
    RNA Biol 6:508-16. 2009
    ..Updates of the Rfam SRP RNA sequence collection are expected to benefit from the suggested groupings...
  51. pmc Crystal structure of a PIWI protein suggests mechanisms for siRNA recognition and slicer activity
    James S Parker
    Section of Structural Biology, The Institute of Cancer Research, Chester Beatty Laboratories, London, UK
    EMBO J 23:4727-37. 2004
    ....
  52. pmc Identification of BHB splicing motifs in intron-containing tRNAs from 18 archaea: evolutionary implications
    Christian Marck
    Service de Biochimie et de Génétique Moléculaire, CEA Saclay, 91191 Gif sur Yvette, France
    RNA 9:1516-31. 2003
    ....
  53. ncbi The expanding world of small RNAs in the hyperthermophilic archaeon Sulfolobus solfataricus
    Maria A Zago
    Department of Biochemistry and Molecular Biology, University of British Columbia, 2146 Health Sciences Mall, Vancouver, BC V6T 1Z3, Canada
    Mol Microbiol 55:1812-28. 2005
    ..solfataricus contains a plethora of small RNAs. Most of these are bound directly by the L7Ae protein; the others may well be part of larger, transiently stable RNP complexes that contain the L7Ae protein as core component...
  54. pmc Box C/D RNA guides for the ribose methylation of archaeal tRNAs. The tRNATrp intron guides the formation of two ribose-methylated nucleosides in the mature tRNATrp
    M L Bortolin
    , UMR5099 du CNRS, , 118 route de Narbonne, 31062 Toulouse, France
    Nucleic Acids Res 29:4518-29. 2001
    ....
  55. pmc In silico screening of archaeal tRNA-encoding genes having multiple introns with bulge-helix-bulge splicing motifs
    Junichi Sugahara
    Institute for Advanced Biosciences, Keio University, Tsuruoka 997 0017, Japan
    RNA 13:671-81. 2007
    ..Moreover, the candidates completely complemented all the codons of two archaeal species of uncultured methanogenic archaeon, RC-I and Thermofilum pendens Hrk 5, with novel candidates that were not detectable by tRNAscan-SE alone...
  56. ncbi The complete set of tRNA species in Nanoarchaeum equitans
    Lennart Randau
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    FEBS Lett 579:2945-7. 2005
    ..Sci. USA 100, 12984-12988]. Along with a previously unidentified joined tRNA(Gln) (UUG), Nanoarchaeum equitans exhibits 44 tRNAs and is enabled to read all 61 sense codons. Features unique to this set of tRNA molecules are discussed...
  57. pmc Deletion of switch 3 results in an archaeal RNA polymerase that is defective in transcript elongation
    Thomas J Santangelo
    Department of Microbiology, Ohio State University, Columbus, OH 43210, USA
    J Biol Chem 285:23908-15. 2010
    ..The close structural homology of archaeal and eukaryotic RNAPs would predict that eukaryotic Switch 3 loops likely conform to the archaeal rather than bacterial functional paradigm...
  58. ncbi Life without RNase P
    Lennart Randau
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Nature 453:120-3. 2008
    ..These findings demonstrate how nature can cope with the loss of the universal and supposedly ancient RNase P through genomic rearrangement at tRNA genes under the pressure of genome condensation...
  59. ncbi Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5'- and 3'-halves
    Lennart Randau
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, Connecticut 06520 8114, USA
    Nature 433:537-41. 2005
    ..As the joining mechanism possibly involves tRNA trans-splicing, the presence of an intron might have been required for early tRNA synthesis...
  60. ncbi Sequence and structural conservation in RNA ribose zippers
    Makio Tamura
    Lawrence Berkeley National Laboratory, Structural Biology Department, Physical Biosciences Division, 1 Cyclotron Road, 132 Melvin Calvin Lab, Bldg 3, Berkeley, CA 94720, USA
    J Mol Biol 320:455-74. 2002
    ..The sequence and structure conservation of ribose zippers can be directly used in tertiary structure prediction and may have applications in molecular modeling and design...
  61. ncbi Differential roles of archaeal box H/ACA proteins in guide RNA-dependent and independent pseudouridine formation
    Priyatansh Gurha
    Department of Biochemistry and Molecular Biology, Southern Illinois University, Carbondale, Illinois 62901 4413, USA
    RNA Biol 4:101-9. 2007
    ..Conserved A58 in tRNA normally forms a tertiary reverse Hoogstein base pair with an equally conserved U54. This base pair is recognized by TruB. Apparently aCbf5 does not require this base pair to recognize U55 for conversion to Psi55...
  62. ncbi Insights into the genomes of archaea mediating the anaerobic oxidation of methane
    Anke Meyerdierks
    Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, 28359 Bremen, Germany
    Environ Microbiol 7:1937-51. 2005
    ....
  63. ncbi The Pyrococcus exosome complex: structural and functional characterization
    Celso Raul Romero Ramos
    Department of Biochemistry, Chemistry Institute, University of Sao Paulo, 05508 900 Sao Paulo, SP, Brazil
    J Biol Chem 281:6751-9. 2006
    ..The results shown here also indicate the participation of the exosome in RNA metabolism in Archaea, as was established in Eukarya...
  64. ncbi Structural basis for tRNA-dependent amidotransferase function
    Emmanuelle Schmitt
    Laboratoire de Biochimie, Unité Mixte de Recherche 7654, CNRS Ecole Polytechnique, F 91128 Palaiseau cedex, France
    Structure 13:1421-33. 2005
    ..Comparison of GatD and L-asparaginase structures shows how the motion of a beta hairpin region containing a crucial catalytic threonine may control the overall reaction cycle of GatDE...
  65. pmc Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA
    Filip Razga
    Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolska 135, 61265 Brno, Czech Republic
    Nucleic Acids Res 35:4007-17. 2007
    ..In summary, we demonstrate how rRNA building blocks with contrasting intrinsic flexibilities can form larger architectures with highly specific patterns of preferred low-energy motions and geometries...
  66. ncbi Unique archaeal assemblages in the Arctic Ocean unveiled by massively parallel tag sequencing
    Pierre E Galand
    Limnology Unit, Department of Continental Ecology, Centre d Estudis Avançats de Blanes CSIC, Blanes, Spain
    ISME J 3:860-9. 2009
    ..Our results unveiled for the first time an archaeal community dominated by group III Euryarchaeota and show biogeographical traits for marine Arctic Archaea...
  67. ncbi Peeling the onion: ribosomes are ancient molecular fossils
    Chiaolong Hsiao
    School of Chemistry and Biochemistry, Parker H Petit Institute of Bioengineering and Bioscience, Georgia Institute of Technology, Atlanta, GA, USA
    Mol Biol Evol 26:2415-25. 2009
    ..Large-scale conformational differences in the 23S rRNAs are evident from superimposition and prevent structural alignment of some portions of the rRNAs, including the L1 stalk...
  68. ncbi Small nucleolar RNAs: versatile trans-acting molecules of ancient evolutionary origin
    Michael P Terns
    Department of Biochemistry and Molecular Biology, University of Georgia, Athens 30602, USA
    Gene Expr 10:17-39. 2002
    ..The unique properties of snoRNAs are now being harnessed for basic research and therapeutic applications...
  69. pmc Solution structure of an archaeal RNase P binary protein complex: formation of the 30-kDa complex between Pyrococcus furiosus RPP21 and RPP29 is accompanied by coupled protein folding and highlights critical features for protein-protein and protein-RNA in
    Yiren Xu
    Ohio State Biochemistry Program, Center for RNA Biology, The Ohio State University, Columbus, OH 43210, USA
    J Mol Biol 393:1043-55. 2009
    ..These findings provide valuable new insights into mechanisms of RNP assembly and serve as important steps towards a three-dimensional model of this ancient RNP enzyme...
  70. ncbi Placement of protein and RNA structures into a 5 A-resolution map of the 50S ribosomal subunit
    N Ban
    Department of Molecular Biophysics and Biochemistry, Yale University, Howard Hughes Medical Institute, New Haven, Connecticut 06520 8114, USA
    Nature 400:841-7. 1999
    ....
  71. pmc Stability of mRNA in the hyperthermophilic archaeon Sulfolobus solfataricus
    Elisabetta Bini
    George Beadle Center for Genetics, University of Nebraska Lincoln, 68588 0666, USA
    RNA 8:1129-36. 2002
    ..These are the first mRNA half-lives reported for a hyperthermophile or member of the crenarchaea. The unexpected stability of several transcripts has important implications for gene expression and mRNA degradation in this organism...
  72. pmc A comparative analysis of the triloops in all high-resolution RNA structures reveals sequence structure relationships
    Véronique Lisi
    Institute for Research in Immunology and Cancer, Department of Computer Science and Operations Research, Universite de Montreal, Quebec, Canada
    RNA 13:1537-45. 2007
    ..We also report the observations in the X-ray crystallographic structures of important conformational variations, which we believe might be the result of RNA dynamic...
  73. ncbi Archaeal diversity and a gene for ammonia oxidation are coupled to oceanic circulation
    Pierre E Galand
    Département de Biologie et Québec Océan, Universite Laval, Quebec G1K 7P4, Canada
    Environ Microbiol 11:971-80. 2009
    ..This relocation could have the potential to establish a substantially different geography of microbial-driven biogeochemical processes and associated oceanic production...
  74. pmc Gain and loss of an intron in a protein-coding gene in Archaea: the case of an archaeal RNA pseudouridine synthase gene
    Shin ichi Yokobori
    Department of Molecular Biology, School of Life Science, Tokyo University of Pharmacy and Life Science, Horinouchi, Hachioji, Tokyo 192 0392, Japan
    BMC Evol Biol 9:198. 2009
    ..However, the exact timing of the intron insertion was not determined and verification of the putative secondary loss of the intron in some lineages was not performed...
  75. pmc Dynamic guide-target interactions contribute to sequential 2'-O-methylation by a unique archaeal dual guide box C/D sRNP
    Sanjay K Singh
    Department of Biochemistry and Molecular Biology, Southern Illinois University, Carbondale, Illinois 62901 4413, USA
    RNA 14:1411-23. 2008
    ..Observations of initial D-guide-target pairing and the functional requirement for L7Ae at the box C/D motif are consistent with our previous report of the sequential 2'-O-methylations of the target RNA...
  76. ncbi Structural basis of 3' end RNA recognition and exoribonucleolytic cleavage by an exosome RNase PH core
    Esben Lorentzen
    European Molecular Biology Laboratory, Meyerhofstrasse 1, D 69117 Heidelberg, Germany
    Mol Cell 20:473-81. 2005
    ..The structures show both the bound substrate and the cleaved product of the reaction, suggesting a catalytic mechanism for the 3'-5' phosphorolytic activity of the exosome...
  77. pmc Coevolution of tRNA intron motifs and tRNA endonuclease architecture in Archaea
    Giuseppe D Tocchini-Valentini
    Istituto di Biologia Cellulare, Consiglio Nazionale delle Ricerche, Campus A, Buzzati Traverso, Via Ramarini 32, Monterotondo Scalo, 00016 Rome, Italy
    Proc Natl Acad Sci U S A 102:15418-22. 2005
    ..These variant structures can be cleaved only by the homodimer or heterotetramer forms of the endonucleases. Thus, the structures of the endonucleases and their substrates appear to have evolved together...
  78. ncbi Archaeal guide RNAs function in rRNA modification in the eukaryotic nucleus
    Wayne A Speckmann
    Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA
    Curr Biol 12:199-203. 2002
    ..Our studies have revealed the remarkable ability of archaeal Box C/D RNAs to assemble into functional RNA-protein complexes in the eukaryotic nucleus...
  79. ncbi Crystal structure and evolution of a transfer RNA splicing enzyme
    H Li
    Division of Biology, Mail Code 147 75, California Institute of Technology, Pasadena, CA 91125, USA
    Science 280:279-84. 1998
    ..These results suggest an evolutionary pathway for splice site recognition...
  80. ncbi MvaL1 autoregulates the synthesis of the three ribosomal proteins encoded on the MvaL1 operon of the archaeon Methanococcus vannielii by inhibiting its own translation before or at the formation of the first peptide bond
    C Mayer
    Institut für Medizinische Chemie und Biochemie, Universitat Innsbruck, Austria
    Mol Microbiol 27:455-68. 1998
    ..coil. However, we show that MvaL10 does not have a regulatory function...
  81. pmc Structure, function, and evolution of the tRNA endonucleases of Archaea: an example of subfunctionalization
    Giuseppe D Tocchini-Valentini
    Istituto di Biologia Cellulare, Consiglio Nazionale delle Ricerche, Campus A Buzzati Traverso, Via Ramarini 32, I 00016 Monterotondo Scalo, Rome, Italy
    Proc Natl Acad Sci U S A 102:8933-8. 2005
    ..The last-named enzyme, arising most likely by gene duplication and subsequent "subfunctionalization," requires the products of both genes to be active...
  82. pmc RNA-guided RNA modification: functional organization of the archaeal H/ACA RNP
    Daniel L Baker
    Department of Biochemistry and Molecular Biology, University of Georgia, Athens, Georgia 30602, USA
    Genes Dev 19:1238-48. 2005
    ..Cbf5 is the protein that specifically recognizes and binds H/ACA guide RNAs. In addition, Cbf5 recruits the two other essential proteins, Gar1 and Nop10, to the pseudouridylation guide complex...
  83. ncbi The archaeon Haloarcula marismortui has few modifications in the central parts of its 23S ribosomal RNA
    Finn Kirpekar
    Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, DK 5230 Odense M, Denmark
    J Mol Biol 348:563-73. 2005
    ..Our results show that all the modified positions are at regions with RNA-RNA contacts and all except one are at the surface of the subunit and in functionally important regions...
  84. ncbi SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level
    Junichi Sugahara
    Institute for Advanced Biosciences, Keio University, Tsuruoka, 997 0017, Japan
    In Silico Biol 6:411-8. 2006
    ..7%), and known split tRNAs (100%). Our program will be very useful for identifying novel tRNA genes after completion of genome projects. The SPLITS source code is freely downloadable at http://splits.iab.keio.ac.jp/...
  85. ncbi Two different and highly organized mechanisms of translation initiation in the archaeon Sulfolobus solfataricus
    N Tolstrup
    Novo Nordisk A S, Enzyme Research, Bioinformatics and DNA Sequencing, Bagsvaerd, Denmark
    Extremophiles 4:175-9. 2000
    ..The box A signal is located about 27 nt upstream of the start codon, which implies that little or no upstream sequence is available for translation initiation for this group of genes. This finding is discussed...
  86. ncbi Archaeal ribosomal protein L1: the structure provides new insights into RNA binding of the L1 protein family
    N Nevskaya
    Institute of Protein Research, Russian Academy of Sciences, Pushchino, 142292, Moscow Region, Russia
    Structure 8:363-71. 2000
    ..The crystal structure of bacterial L1 from Thermus thermophilus (TthL1) has previously been determined...
  87. ncbi Domain structure, GTP-hydrolyzing activity and 7S RNA binding of Acidianus ambivalens ffh-homologous protein suggest an SRP-like complex in archaea
    R Moll
    Institute of Biochemistry, Medical University of Lubeck, Germany
    Eur J Biochem 259:441-8. 1999
    ....
  88. ncbi Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1
    Y Kawarabayasi
    National Institute of Technology and Evaluation, Shibuya, Tokyo, Japan
    DNA Res 6:83-101, 145-52. 1999
    ..All the assigned ORFs and RNA coding regions occupied 89.12% of the whole genome. The data presented in this paper are available on the internet homepage (http://www.mild.nite.go.jp)...
  89. pmc Global analysis of mRNA stability in the archaeon Sulfolobus
    Anders F Andersson
    Department of Gene Technology, School of Biotechnology, KTH Royal Institute of Technology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Genome Biol 7:R99. 2006
    ..Here, we present a microarray-based analysis of mRNA half-lives in the hyperthermophilic crenarchaea Sulfolobus solfataricus and Sulfolobus acidocaldarius, constituting the first genome-wide study of RNA decay in archaea...
  90. pmc The Ribonuclease P Database
    J W Brown
    Department of Microbiology, North Carolina State University, Raleigh, NC 27695, USA
    Nucleic Acids Res 27:314. 1999
    ..mbio.ncsu.edu/RNaseP/home .html..
  91. ncbi Archaeal pre-mRNA splicing: a connection to hetero-oligomeric splicing endonuclease
    Shigeo Yoshinari
    Department of Biomedical Chemistry, Graduate School of Medicine, The University of Tokyo, Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    Biochem Biophys Res Commun 346:1024-32. 2006
    ..tokodaii. These observations are consistent with previous reports indicating that subunit composition of the splicing endonuclease contributes to substrate specificity...
  92. pmc Deciphering RNA structural diversity and systematic phylogeny from microbial metagenomes
    Yanglong Zhu
    Department of Biochemistry and Molecular Biology, and Center for Genetics and Molecular Medicine, School of Medicine, University of Louisville, Louisville, KY 40202, USA
    Nucleic Acids Res 35:2283-94. 2007
    ..e. some archaeal P RNAs have only one nucleotide in the J2/3 joint. We also discuss the phylogenetic analysis based on covariance model of P RNA that offers a few advantages over the one based on 16S rRNA...
  93. pmc Mapping posttranscriptional modifications in 5S ribosomal RNA by MALDI mass spectrometry
    F Kirpekar
    Department of Molecular Biology, Odense University, Denmark
    RNA 6:296-306. 2000
    ..Discrepancies with two of the published 5S rRNA sequences were identified and are reported here...
  94. ncbi Nanoarchaeum equitans is a living fossil
    Massimo Di Giulio
    J Theor Biol 242:257-60. 2006
  95. ncbi Identity elements of archaeal tRNA
    Bibekanand Mallick
    Computational Biology Group, Theory Department, Indian Association for the Cultivation of Science, Calcutta, India
    DNA Res 12:235-46. 2005
    ..Keeping this in view we isolate the discriminating features of all archaeal tRNA. These are our identity elements. Further, we investigate tRNA-characteristics that delineate the different orders of Archaea...
  96. ncbi RNA-dependent cysteine biosynthesis in archaea
    Anselm Sauerwald
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    Science 307:1969-72. 2005
    ....
  97. pmc In vivo analysis of an essential archaeal signal recognition particle in its native host
    R Wesley Rose
    Department of Biology, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
    J Bacteriol 184:3260-7. 2002
    ....
  98. ncbi Expression, reconstitution, and structure of an archaeal RNA degrading exosome
    Esben Lorentzen
    Birkbeck College London, Institute of Structural Molecular Biology, London, United Kingdom
    Methods Enzymol 447:417-35. 2008
    ..Furthermore, we describe several crystal structures in which RNA substrates were diffused into crystals and how anomalous scattering from 5-iodo-uridine-modified RNA was used to locate low-occupancy RNA binding sites...
  99. ncbi The archaeal signal recognition particle: steps toward membrane binding
    Ralf G Moll
    Department of Biochemistry, University of Lubeck, Ratzeburger Allee 160, 23538 Lubeck, Germany
    J Bioenerg Biomembr 36:47-53. 2004
    ..Investigations of the archaeal SRP pathway could therefore identify novel aspects of this process not previously reported or unique to archaea when compared with the respective eukaryal and bacterial systems...
  100. pmc Recognition of the 5' leader of pre-tRNA substrates by the active site of ribonuclease P
    Nathan H Zahler
    Center for RNA Molecular Biology, Case Western Reserve University School of Medicine, Cleveland, Ohio 44106 4973, USA
    RNA 9:734-45. 2003
    ..These results provide the first direct evidence for RNase P RNA interactions with the substrate cleavage site, and show that RNA and protein cooperate in leader sequence recognition...
  101. ncbi Sequential 2'-O-methylation of archaeal pre-tRNATrp nucleotides is guided by the intron-encoded but trans-acting box C/D ribonucleoprotein of pre-tRNA
    Sanjay K Singh
    Department of Biochemistry and Molecular Biology, Southern Illinois University, Carbondale, Illinois 62901 4413, USA
    J Biol Chem 279:47661-71. 2004
    ..volcanii pre-tRNA(Trp) intron in vivo. A trans mechanism would also eliminate the obligatory refolding of the pre-tRNA that would be required to carry out two cis-methylation reactions before pre-tRNA splicing...

Research Grants11

  1. X-ray crystallographic studies of multi-subunit nucleic acid polymerases
    Katsuhiko Murakami; Fiscal Year: 2013
    The goal of this proposal is to determine the X-ray crystal structures of archaeal RNA polymerase and its complexes with auxiliary protein factors and nucleic acid...
  2. INTER AND INTRAMOLECULAR COMMUNICATIONS IN TRANSCRIPTION
    Tomasz Heyduk; Fiscal Year: 2012
    ..Furthermore, we will also begin to investigate the mechanism of transcription initiation by archaeal RNA polymerase (aim 4)...
  3. PROKARYOTIC CHROMATIN AND TRANSCRIPTIONAL REGULATION
    ERNEST GEIDUSCHEK; Fiscal Year: 2009
    ..universal aspects of transcription mechanism is based on the mosaic character of their informational systems: archaeal RNA polymerases and core transcription factors are organized along eukaryotic lines, and many archaea possess ..
  4. Archaeal Transcription Termination
    THOMAS SANTANGELO; Fiscal Year: 2007
    ..I will also determine how an archaeal RNA polymerase transcribes through an archaeal nucleosome template and determine the fate of the nucleosome.
  5. Structure and function of SRP RNA
    Christian Zwieb; Fiscal Year: 2006
    ..These studies will focus on the specific features of two critical interactions and define their dynamic relationship to SRP function. [unreadable] [unreadable]..
  6. RNA Transport Within the Nucleus
    Thoru Pederson; Fiscal Year: 2005
    ..Another aspect of the project will address the intranuclear traffic of these RNAs in relation to proteins known to be involved in nuclear import or RNA export, i.e. the Ran-GTPase and TAP. ..
  7. Telomerase Transport and Targeting
    MICHAEL TERNS; Fiscal Year: 2008
    ..abstract_text> ..
  8. Interrogation of systems level mechanisms controlling DNA repair processes
    Nitin S Baliga; Fiscal Year: 2010
    ..e. a predictive model for regulatory mechanisms for repair. This basic model will serve as a template for designing systems approaches to model higher complexities of eukaryotic repair processes. ..
  9. The range of recoding and analysis of a 50 nt bypass to probe ribosomal function
    John F Atkins; Fiscal Year: 2010
    ..A related goal is to create new receding signals in trans to counteract frameshift mutations and premature stop codons implicated in human diseases. ..
  10. RNA PROCESSING AND RIBONUCLEOPROTEIN
    Thoru Pederson; Fiscal Year: 2001
    ..The same studies should provide information on sequences required for nuclear export. These two inter-related projects test the hypothesis that the nucleolus is a more pluri-functional organelle than previously thought. ..
  11. 'RECODING: DYNAMIC REPROGRAMMING OF GENETIC READOUT'
    John Atkins; Fiscal Year: 2004
    ..To keep monitoring newly reported sequences for potential new cases and to respond to suggestions of others who have encountered new cases. ..