Comprehensive computational analysis of leucine-rich repeat (LRR) proteins encoded in the genome of the diatom Phaeodactylum tricornutum

Marine Genomics
Birgit SchulzePeter G Kroth

Abstract

We have screened the genome of the marine diatom Phaeodactylum tricornutum for gene models encoding proteins exhibiting leucine-rich repeat (LRR) structures. In order to reveal the functionality of these proteins, their amino acid sequences were scanned for known domains and for homologies to other proteins. Additionally, proteins were categorized into different LRR-families according to the variable sequence part of their LRR. This approach enabled us to group proteins with potentially similar functionality and to classify also LRR proteins where no characterized homologues in other organisms exist. Most interestingly, we were able to indentify several transmembrane LRR-proteins, which are likely to function as receptor-like molecules. However, none of them carry additional domains that are typical for mammalian or plant-like receptors. Thus, the respective signal recognition pathways seem to be substantially different in diatoms. Moreover, P. tricornutum encodes a family of secreted LRR proteins likely to function as adhesion or binding proteins as part of the extracellular matrix. Additionally, intracellular LRR-only proteins were divided into proteins similar to RasGTPase activators, regulators of nuclear transport, and mit...Continue Reading

References

Feb 28, 1995·Proceedings of the National Academy of Sciences of the United States of America·F R BischoffH Ponstingl
Jul 15, 1996·European Journal of Biochemistry·N KrögerM Sumper
Oct 23, 1996·Biochimica Et Biophysica Acta·G E Baida, N P Kuzmin
Feb 28, 1998·Current Biology : CB·C P Ponting, L Aravind
Aug 1, 2000·Mutation Research·S Prakash, L Prakash
Aug 31, 2000·Annual Review of Biochemistry·A M StockP N Goudreau
Dec 26, 2001·Current Opinion in Structural Biology·B Kobe, A V Kajava
Mar 15, 2002·Trends in Biochemical Sciences·Jan DekkerAlexandra W C Einerhand
Jun 14, 2002·The Plant Journal : for Cell and Molecular Biology·Aniko PayPeter Nick
Sep 28, 2002·Trends in Genetics : TIG·Marie-Josée SantoniJean-Paul Borg
Oct 9, 2002·Genome Research·Lewis Y GeerStephen H Bryant
Aug 9, 2003·Proceedings of the National Academy of Sciences of the United States of America·A Di MatteoF Cervone
Aug 30, 2003·Trends in Cell Biology·Juliet C Coates
Dec 5, 2003·Biochimica Et Biophysica Acta·Leonard Bosgraaf, Peter J M Van Haastert
Apr 30, 2004·Protein Engineering, Design & Selection : PEDS·Jannick Dyrløv BendtsenSøren Brunak
Jun 3, 2004·Genome Research·Gavin E CrooksSteven E Brenner
Jun 30, 2004·Journal of Molecular Biology·Jannick Dyrløv BendtsenSøren Brunak
Jun 14, 2005·Proceedings of the National Academy of Sciences of the United States of America·David ChevalierKay Schneitz
Jun 15, 2005·Annual Review of Biochemistry· InoharaGabriel Nuñez
Jan 21, 2006·PLoS Pathogens·Christopher Dardick, Pamela Ronald
Jul 18, 2006·Nucleic Acids Research·Andreas BiegertAndrei N Lupas
Aug 2, 2006·Trends in Cell Biology·Jérôme BoudeauDario R Alessi
Apr 15, 2008·Cellular and Molecular Life Sciences : CMLS·J BellaS C Lovell
Nov 18, 2008·Developmental and Comparative Immunology·Thomas C G BoschJens-M Schröder
Jul 10, 2010·Proceedings of the National Academy of Sciences of the United States of America·Aylwin C Y NgRamnik J Xavier
Sep 10, 2010·The ISME Journal·Astrid GärdesMatthias S Ullrich
Nov 26, 2010·Science·Pamela C Ronald, Bruce Beutler
Nov 27, 2010·Nucleic Acids Research·Aron Marchler-BauerStephen H Bryant
Jan 13, 2011·BMC Evolutionary Biology·Mariana SerpeloniFederico G Hoffmann
Jan 18, 2011·Current Protein & Peptide Science·Liu DanNing Guo
Jan 20, 2011·Environmental Microbiology·Christian G BrucknerPeter G Kroth
Mar 5, 2011·Annual Review of Plant Biology·Zhihua Hua, Richard D Vierstra
Mar 17, 2011·Nature Reviews. Microbiology·Michael A McGuckinTimothy H Florin
Dec 22, 2011·BMC Evolutionary Biology·Anne DiévartChristophe Périn
Feb 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Bart VanelslanderWim Vyverman
Oct 30, 2013·Protein and Peptide Letters·Hiroki MiyashitaNorio Matsushima
Apr 3, 2014·Biofouling·Nicole PoulsenMatthias T Buhmann

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Mar 20, 2016·Journal of Phycology·Matthias T BuhmannPeter G Kroth

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