Comparative genomics and evolution of proteins involved in RNA metabolism

Nucleic Acids Research
Vivek AnantharamanL Aravind

Abstract

RNA metabolism, broadly defined as the compendium of all processes that involve RNA, including transcription, processing and modification of transcripts, translation, RNA degradation and its regulation, is the central and most evolutionarily conserved part of cell physiology. A comprehensive, genome-wide census of all enzymatic and non-enzymatic protein domains involved in RNA metabolism was conducted by using sequence profile analysis and structural comparisons. Proteins related to RNA metabolism comprise from 3 to 11% of the complete protein repertoire in bacteria, archaea and eukaryotes, with the greatest fraction seen in parasitic bacteria with small genomes. Approximately one-half of protein domains involved in RNA metabolism are present in most, if not all, species from all three primary kingdoms and are traceable to the last universal common ancestor (LUCA). The principal features of LUCA's RNA metabolism system were reconstructed by parsimony-based evolutionary analysis of all relevant groups of orthologous proteins. This reconstruction shows that LUCA possessed not only the basal translation system, but also the principal forms of RNA modification, such as methylation, pseudouridylation and thiouridylation, as well as ...Continue Reading

References

May 1, 1992·Proceedings of the National Academy of Sciences of the United States of America·B C PerssonG R Björk
Dec 17, 1992·Nature·A G Murzin
Dec 1, 1992·Trends in Biochemical Sciences·E V Koonin
Aug 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·S J DelaneyG L Miklos
Dec 1, 1991·Current Opinion in Genetics & Development·M L Sogin
May 1, 1991·Trends in Genetics : TIG·T Cavalier-Smith
Jun 1, 1990·Proceedings of the National Academy of Sciences of the United States of America·C R WoeseM L Wheelis
Jul 3, 1990·Biochemistry·Q XuJ Abelson
May 23, 1985·Nature·T Cavalier-Smith
Jun 25, 1994·Nucleic Acids Research·P A LimbachJ A McCloskey
Jul 28, 1995·The Journal of Biological Chemistry·J A KowalakJ A McCloskey
Nov 1, 1994·Nature Structural Biology·P J ArtymiukP Willet
Feb 1, 1994·Protein Science : a Publication of the Protein Society·E V Koonin
Nov 25, 1993·Nucleic Acids Research·E V Koonin, K E Rudd
Dec 15, 1993·Gene·W Gilbert, M Glynias
Jul 20, 1993·Journal of Molecular Biology·B Rost, C Sander
Feb 1, 1993·Proceedings of the National Academy of Sciences of the United States of America·C L SquiresC L Squires
Mar 11, 1993·Nucleic Acids Research·H SiomiG Dreyfuss
Apr 16, 1993·Science·P O WainrightS K Stickel
Jan 9, 1996·Proceedings of the National Academy of Sciences of the United States of America·P G JonesM Inouye
Jan 9, 1996·Biochemistry·C H House, S L Miller
Nov 1, 1995·Biochemistry and Cell Biology = Biochimie Et Biologie Cellulaire·J OfengandB G Lane
Jan 1, 1996·Protein Science : a Publication of the Protein Society·E V Koonin, K E Rudd
Aug 15, 1996·Nucleic Acids Research·C L O'DayJ Abelson
Dec 10, 1996·Proceedings of the National Academy of Sciences of the United States of America·S J de SouzaW Gilbert
Nov 1, 1996·Trends in Biochemical Sciences·N C KyrpidesC A Ouzounis

❮ Previous
Next ❯

Citations

Nov 29, 2007·Cellular and Molecular Life Sciences : CMLS·R E HalbeisenA P Gerber
May 13, 2006·Current Genetics·Heriberto Cerutti, J Armando Casas-Mollano
Jul 24, 2010·Journal of Molecular Modeling·Srđan D StojanovićSnežana D Zarić
Aug 4, 2007·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·William G Kelly, Rodolfo Aramayo
Oct 29, 2005·Origins of Life and Evolution of the Biosphere : the Journal of the International Society for the Study of the Origin of Life·Luis DelayeAntonio Lazcano
Jul 26, 2011·Theory in Biosciences = Theorie in Den Biowissenschaften·Miguel Angel Freire
Nov 1, 1990·Trends in Biochemical Sciences·M SarasteA Wittinghofer
Sep 17, 2005·Biochimie·Béatrice Clouet-d'OrvalAnnie Mougin
Apr 6, 2005·FEMS Microbiology Reviews·L AravindLakshminarayan M Iyer
Oct 22, 2003·Journal of Molecular Biology·Detlef D LeipeL Aravind
Oct 11, 2003·Trends in Genetics : TIG·Enno Hartmann, Roland K Hartmann
Jan 28, 2003·Journal of Molecular Biology·Edvards LiepinshGottfried Otting
Apr 18, 2003·Journal of Theoretical Biology·Jason P DworkinStanley L Miller
Apr 10, 2003·Trends in Genetics : TIG·Joseph E WedekindHarold C Smith
Apr 23, 2003·Biosensors & Bioelectronics·Jason R EpsteinDavid R Walt
Feb 13, 2003·Current Opinion in Structural Biology·Adrian R Ferré-D'Amaré
Dec 28, 1999·Trends in Cell Biology·W F Doolittle
Jan 28, 2003·Current Opinion in Chemical Biology·Vivek AnantharamanEugene V Koonin
Aug 17, 2002·Current Opinion in Plant Biology·Nina V Fedoroff
Nov 15, 2002·Nature·Eugene V KooninGeorgy P Karev
Feb 16, 2013·Nature Protocols·Alfredo CastelloMatthias W Hentze
Jun 6, 2013·Nature Reviews. Molecular Cell Biology·Karla L H FeijsBernhard Lüscher
Jul 11, 2009·Bioscience Reports·Sharon H M LingHaiwei Song
Feb 7, 2008·Proceedings of the National Academy of Sciences of the United States of America·Brian P AntonRichard J Roberts
Sep 26, 2008·Proceedings of the National Academy of Sciences of the United States of America·Michal RabaniEran Segal
Dec 18, 2008·Proceedings of the National Academy of Sciences of the United States of America·Fei LiuEckhard Jankowsky
Nov 18, 2009·Proceedings of the National Academy of Sciences of the United States of America·Nitish MittalSarath Chandra Janga
May 22, 2010·Proceedings of the National Academy of Sciences of the United States of America·Jingjing LiZhaolei Zhang
May 6, 2009·The Journal of Biological Chemistry·Coilin BolandVincent P Kelly
Apr 9, 2010·The Journal of Biological Chemistry·Béatrice Clouet-d'OrvalAgamemnon J Carpousis
Jun 19, 2007·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Kosuke FujishimaAkio Kanai
Aug 9, 2008·Molecular Biology and Evolution·Douglas G Scofield, Michael Lynch
Aug 15, 2002·Nucleic Acids Research·Isabelle CallebautJean-Pierre de Villartay
Aug 31, 2002·Nucleic Acids Research·Chris P Ponting

❮ Previous
Next ❯

Related Concepts

Related Feeds

Bacterial Protein Structures

Bacterial protein structures can expedite the development of novel antibiotics. Here is the latest research on bacterial proteins and the resolution of their structures.

Bacterial Protein Structures (ASM)

Bacterial protein structures can expedite the development of novel antibiotics. Here is the latest research on bacterial proteins and the resolution of their structures.

Archaeogenetics

Recent advances in genomic sequencing has led to the discovery of new strains of Archaea and shed light on their evolutionary history. Discover the latest research on Archaeogenetics here.

CRISPR Ribonucleases Deactivation

CRISPR-Cas system enables the editing of genes to create or correct mutations. This feed focuses on mechanisms that underlie deactivation of CRISPR ribonucleases. Here is the latest research.

Central Nervous System Bacterial Infections

Central nervous system bacterial infections are medical emergencies and include bacterial meningitis and spinal epidural abscess. Treatment with antibiotics can reduce morbidity and mortality. Discover the latest research on central nervous system bacterial infections here.

Alternative splicing

Alternative splicing a regulated gene expression process that allows a single genetic sequence to code for multiple proteins. Here is that latest research.

Antibody Repertoire Diversity

Antibody repertoire diversity and its role during natural infection is a prerequisite for molecular and structural elucidation of functionally protective immunity. Discover the latest insights into antibody diversity here.