The evolutionary and functional diversity of classical and lesser-known cytoplasmic and organellar translational GTPases across the tree of life

BMC Genomics
Gemma C Atkinson

Abstract

The ribosome translates mRNA to protein with the aid of a number of accessory protein factors. Translational GTPases (trGTPases) are an integral part of the 'core set' of essential translational factors, and are some of the most conserved proteins across life. This study takes advantage of the wealth of available genomic data, along with novel functional information that has come to light for a number of trGTPases to address the full evolutionary and functional diversity of this superfamily across all domains of life. Through sensitive sequence searching combined with phylogenetic analysis, 57 distinct subfamilies of trGTPases are identified: 14 bacterial, 7 archaeal and 35 eukaryotic (of which 21 are known or predicted to be organellar). The results uncover the functional evolution of trGTPases from before the last common ancestor of life on earth to the current day. While some trGTPases are universal, others are limited to certain taxa, suggesting lineage-specific translational control mechanisms that exist on a base of core factors. These lineage-specific features may give organisms the ability to tune their translation machinery to respond to their environment. Only a fraction of the diversity of the trGTPase superfamily ha...Continue Reading

References

Jul 26, 1996·Journal of Molecular Biology·F Abdulkarim, D Hughes
Mar 24, 1998·Nature·W Martin, M Müller
Jan 27, 1999·Bioinformatics·S R Eddy
Feb 5, 2000·Nature·T V PestovaC U Hellen
Jun 2, 2000·Biochemical and Biophysical Research Communications·H KudoY Nishimura
Jul 13, 2000·Journal of Molecular Biology·O EmanuelssonG von Heijne
Mar 28, 2002·Journal of Molecular Biology·Detlef D LeipeL Aravind
Jul 30, 2002·Nature Structural Biology·Takashi OhtsukiKimitsuna Watanabe
Apr 15, 2003·Nature Structural Biology·Rene JørgensenGregers Rom Andersen
Apr 15, 2004·Genes & Development·Michael Ibba, Dieter Söll
Sep 1, 2004·The Journal of Biological Chemistry·Tetsuo KobayashiToshiaki Katada
Oct 20, 2004·Proceedings of the National Academy of Sciences of the United States of America·Patrick J Keeling, Yuji Inagaki
Jan 22, 2005·Nucleic Acids Research·Kazutaka KatohTakashi Miyata
Mar 10, 2005·Microbiology and Molecular Biology Reviews : MMBR·Brian Søgaard LaursenHans Uffe Sperling-Petersen
Mar 19, 2005·Molecular Microbiology·Sushma ChaubeySaman Habib
Apr 20, 2005·Genes to Cells : Devoted to Molecular & Cellular Mechanisms·Aya SatoChieko Wada
Aug 10, 2005·Genome Biology·Héctor RomeroGustavo Salinas
Aug 23, 2005·Nucleic Acids Research·Takuma SuematsuTakashi Ohtsuki
Aug 27, 2005·Molecular Biology and Evolution·Anuphap Prachumwat, Wen-Hsiung Li
Jan 3, 2006·Molecular Cell·Joseph D MougousCarolyn R Bertozzi

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Citations

Nov 22, 2013·PloS One·Stephanie O PalmerJames M Bullard
Mar 15, 2016·Biopolymers·Cristina Maracci, Marina V Rodnina
Jun 5, 2016·Cellular and Molecular Life Sciences : CMLS·Zhe Lyu, William B Whitman
Feb 2, 2018·Nucleic Acids Research·Pavel KudrinVasili Hauryliuk
Feb 18, 2018·The Journal of Biological Chemistry·Denis SusorovElena Alkalaeva
Aug 16, 2018·Genes & Development·Alexandra ZinovievTatyana V Pestova
Mar 1, 2019·Scientific Reports·Villu KasariVasili Hauryliuk
Oct 11, 2019·Biological Chemistry·Marina V RodninaWolfgang Wintermeyer
Jul 13, 2019·Nucleic Acids Research·Villu KasariVasili Hauryliuk
Jun 27, 2020·Nature Reviews. Microbiology·Daniel N WilsonAlex J O'Neill
Apr 6, 2019·BMC Genomics·Joseph L SevignyW Kelley Thomas
Dec 8, 2020·Biochemistry. Biokhimii︠a︡·A PaleskavaA L Konevega
Nov 14, 2020·ELife·Markus TerreySusan L Ackerman
Oct 19, 2017·Biochemistry·Jonathan LaiZaida Luthey-Schulten

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Methods Mentioned

BETA
GTPases
GTPase

Software Mentioned

Consensus Finder
BlastP
RAxML
TargetP
HMMer
MySQL
aSelBL
PFam
MAFFT

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