title: Impact of whole-genome and tandem duplications in the expansion and functional diversification of the F-box family in legumes (Fabaceae).
abstract: F-box proteins constitute a large gene family that regulates processes from hormone signaling to stress response. F-box proteins are the substrate recognition modules of SCF E3 ubiquitin ligases. Here we report very distinct trends in family size, duplication, synteny and transcription of F-box genes in two nitrogen-fixing legumes, Glycine max (soybean) and Medicago truncatula (alfafa). While the soybean FBX genes emerged mainly through segmental duplications (including whole-genome duplications), M. truncatula genome is dominated by locally-duplicated (tandem) F-box genes. Many of these young FBX genes evolved complex transcriptional patterns, including preferential transcription in different tissues, suggesting that they have probably been recruited to important biochemical pathways (e.g. nodulation and seed development).
authors: Laboratório de Química e Função de Proteínas e Peptídeos, Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro, Campos dos Goytacazes, Rio de Janeiro, Brazil.
authors: Daniel
authors: D
authors: Bellieny-Rabelo
authors: Antônia Elenir Amâncio
authors: AE
authors: Oliveira
authors: Thiago Motta
authors: TM
authors: Venancio
mesh_terms: D019143:Evolution, Molecular; D044783:F-Box Proteins / Q000235:genetics* / Q000378:metabolism; D020440:Gene Duplication; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant; D046913:Medicago truncatula / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D010940:Plant Proteins / Q000235:genetics* / Q000378:metabolism; D013025:Glycine max / Q000235:genetics* / Q000378:metabolism; D026801:Synteny; D020080:Tandem Repeat Sequences; D014158:Transcription, Genetic
chemical_list: D044783:F-Box Proteins; D010940:Plant Proteins
references: Nature. 2007 Sep 27;449(7161):463-7
references: 17721507
references: Front Genet. 2012 Mar 30;3:47
references: 22479268
references: BMC Plant Biol. 2010 Aug 05;10:160
references: 20687943
references: Genome Res. 2009 Sep;19(9):1639-45
references: 19541911
references: Proteins. 2009 Jun;75(4):895-910
references: 19089947
references: Mol Biosyst. 2010 Aug;6(8):1475-91
references: 20517567
references: Nucleic Acids Res. 1997 Sep 1;25(17):3389-402
references: 9254694
references: Birth Defects Res C Embryo Today. 2009 Jun;87(2):143-64
references: 19530132
references: Dev Cell. 2008 Apr;14(4):467-73
references: 18410724
references: Plant J. 2010 Jul 1;63(1):86-99
references: 20408999
references: Nature. 2011 Nov 16;480(7378):520-4
references: 22089132
references: Cell Cycle. 2004 Nov;3(11):1440-50
references: 15483401
references: Bioinformatics. 2004 Dec 12;20(18):3643-6
references: 15247098
references: Annu Rev Plant Biol. 2012;63:283-305
references: 22404476
references: Curr Opin Plant Biol. 2006 Dec;9(6):631-8
references: 17005440
references: Curr Opin Genet Dev. 2007 Dec;17(6):505-12
references: 18006297
references: Nucleic Acids Res. 2010 Jan;38(Database issue):D211-22
references: 19920124
references: Nature. 2010 Jan 14;463(7278):178-83
references: 20075913
references: Mol Biosyst. 2011 Jul;7(7):2261-77
references: 21547297
references: Science. 2002 Aug 2;297(5582):793-7
references: 12161644
references: Annu Rev Plant Biol. 2006;57:19-53
references: 16669754
references: J Struct Biol. 2008 May;162(2):205-18
references: 18276160
references: Front Biosci (Landmark Ed). 2012 Jan 01;17:1433-60
references: 22201813
references: Genome Res. 2002 Jul;12(7):1048-59
references: 12097341
references: Annu Rev Cell Dev Biol. 2006;22:159-80
references: 16753028
references: Annu Rev Plant Biol. 2009;60:561-88
references: 19575590
references: Plant J. 2008 Aug;55(3):504-13
references: 18410479
references: Nat Rev Genet. 2008 Dec;9(12):938-50
references: 19015656
references: Nucleic Acids Res. 2008 Jan;36(Database issue):D1009-14
references: 17986450
references: Genome Biol. 2009;10(3):R33
references: 19331687
references: Proc Natl Acad Sci U S A. 2009 Jan 20;106(3):835-40
references: 19126682
references: PLoS Comput Biol. 2011 Oct;7(10):e1002195
references: 22039361
references: Nat Cell Biol. 2000 Aug;2(8):E153-7
references: 10934491
references: Annu Rev Plant Biol. 2009;60:433-53
references: 19575588
references: Nature. 2003 Jul 10;424(6945):194-7
references: 12853957
references: Methods Enzymol. 2006;411:134-93
references: 16939790
references: Plant Physiol. 2012 Sep;160(1):2-14
references: 22693286
references: Genome Biol. 2006;7(7):R60
references: 16859499
references: PLoS One. 2011 Jan 28;6(1):e16219
references: 21297981
references: Annu Rev Biochem. 1998;67:425-79
references: 9759494