Evolution by Gene Duplication, 1970. ,
The evolutionary fate and consequences of duplicate genes, Science, vol.290, pp.1151-1155, 2000. ,
Genetic content and evolution of adenoviruses, J. Gen. Virol, vol.84, pp.2895-2908, 2003. ,
Evolution after gene duplication: models, mechanisms, sequences, systems, and organisms, J. Exp. Zool. B Mol. Dev. Evol, vol.308, pp.58-73, 2007. ,
The evolution of gene duplications: classifying and distinguishing between models, Nat. Rev. Genet, vol.11, pp.97-108, 2010. ,
The evolution of functionally novel proteins after gene duplication, Proc. Biol. Sci, vol.256, pp.119-124, 1994. ,
Preservation of duplicate genes by complementary, degenerative mutations, Genetics, vol.151, pp.1531-1545, 1999. ,
On the possibility of constructive neutral evolution, J. Mol. Evol, vol.49, pp.169-181, 1999. ,
Escape from adaptive conflict after duplication in an anthocyanin pathway gene, Nature, vol.454, pp.762-765, 2008. ,
Gene duplication and the adaptive evolution of a classic genetic switch, Nature, vol.449, pp.677-681, 2007. ,
Evolution of an antifreeze protein by neofunctionalization under escape from adaptive conflict, Proc. Natl Acad. Sci. USA, vol.107, pp.21593-21598, 2010. ,
Protein moonlighting: a new factor in biology and medicine, Biochem. Soc. Trans, vol.42, pp.1671-1678, 2014. ,
An evolutionary perspective on protein moonlighting, Biochem. Soc. Trans, vol.42, pp.1684-1691, 2014. ,
Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia, Nature, vol.444, pp.171-178, 2006. ,
URL : https://hal.archives-ouvertes.fr/hal-00090904
Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution, Genetics, vol.169, pp.1157-1164, 2005. ,
Evolution of the telomere-associated protein POT1a in Arabidopsis thaliana is characterized by positive selection to reinforce protein-protein interaction, Mol. Biol. Evo, vol.32, pp.1329-1341, 2015. ,
The Origins of Genome Architecture, 2007. ,
Evolution of a novel phenolic pathway for pollen development, Science, vol.325, pp.1688-1692, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-00424407
CYP98A3 from Arabidopsis thaliana is a 3'-hydroxylase of phenolic esters, a missing link in the phenylpropanoid pathway, J. Biol. Chem, vol.276, pp.36566-36574, 2001. ,
URL : https://hal.archives-ouvertes.fr/hal-01738074
The Arabidopsis REF8 gene encodes the 3-hydroxylase of phenylpropanoid metabolism, Plant J, vol.30, pp.33-45, 2002. ,
The origin and evolution of lignin biosynthesis, New Phytol, vol.187, pp.273-285, 2010. ,
ABORTED MICROSPORES acts as a master regulator of pollen wall formation in Arabidopsis, Plant Cell, vol.26, pp.1544-1556, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-00999418
Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana, Proc. Natl Acad. Sci. USA, vol.107, pp.18724-18728, 2010. ,
The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers, Plant Cell, vol.25, pp.2813-2830, 2013. ,
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus), Nature, vol.452, pp.991-996, 2008. ,
Adaptive protein evolution at the Adh locus in Drosophila, Nature, vol.351, pp.652-654, 1991. ,
Comprehensive developmental profiles of gene activity in regions and subregions of the Arabidopsis seed, Proc. Natl Acad. Sci. USA, vol.110, pp.435-444, 2013. ,
Cinnamate-4-hydroxylase expression in Arabidopsis. Regulation in response to development and the environment, Plant Physiol, vol.113, pp.729-738, 1997. ,
The transparent testa 4 mutation prevents flavonoid synthesis and alters auxin transport and the response of Arabidopsis roots to gravity and light, Plant Cell, vol.16, pp.1191-1205, 2004. ,
Flavonoids: new roles for old molecules, J. Integr. Plant Biol, vol.52, pp.98-111, 2010. ,
Tannin analysis of food products, Crit. Rev. Food Sci. Nutr, vol.24, pp.401-449, 1986. ,
Genetics and biochemistry of seed flavonoids, Annu. Rev. Plant Biol, vol.57, pp.405-430, 2006. ,
Flavonoids as important molecules of plant interactions with the environment, Molecules, vol.19, pp.16240-16265, 2014. ,
Flavonoids and the regulation of seed size in Arabidopsis, Biochem. Soc. Trans, vol.42, pp.364-369, 2014. ,
An archived activation tagged population of Arabidopsis thaliana to facilitate forward genetics approaches, BMC Plant Biol, vol.9, p.101, 2009. ,
Over-expression of F5H in COMT-deficient Arabidopsis leads to enrichment of an unusual lignin and disruption of pollen wall formation, Plant J, vol.64, pp.898-911, 2010. ,
Floral dip: a simplified method for Agrobacteriummediated transformation of Arabidopsis thaliana, Plant J, vol.16, pp.735-743, 1998. ,
High-efficiency thermal asymmetric interlaced PCR for amplification of unknown flanking sequences, Biotechniques, vol.43, pp.649-656, 2007. ,
Brassicaceae phylogeny and trichome evolution, Am. J. Bot, vol.93, pp.607-619, 2006. ,
How to usefully compare homologous plant genes and chromosomes as DNA sequences, Plant J, vol.53, pp.661-673, 2008. ,
Advancing uracil-excision based cloning towards an ideal technique for cloning PCR fragments, Nucleic Acids Res, vol.34, p.122, 2006. ,
Geraniol hydroxylase and hydroxygeraniol oxidase activities of the CYP76 family of cytochrome P450 enzymes and potential for engineering the early steps of the (seco)iridoid pathway, Metab. Eng, vol.20, pp.221-232, 2013. ,
Cloning, yeast expression, and characterization of the coupling of two distantly related Arabidopsis thaliana NADPH-cytochrome P450 reductases with P450 CYP73A5, J. Biol. Chem, vol.272, pp.19176-19186, 1997. ,
Flavonoid diversity and biosynthesis in seed of Arabidopsis thaliana, Planta, vol.224, pp.96-107, 2006. ,
Toward genome-wide metabolotyping and elucidation of metabolic system: metabolic profiling of large-scale bioresources, J. Plant Res, vol.123, pp.291-298, 2010. ,
AtMetExpress development: a phytochemical atlas of Arabidopsis development, Plant Physiol, vol.152, pp.566-578, 2010. ,
An improved clearing method for GUS assay in Arabidopsis endosperm and seeds, Plant. Mol. Biol. Rep, vol.20, pp.107-114, 2002. ,
Arabidopsis microarray database and analysis toolbox, Plant Physiol, vol.136, pp.2621-2632, 2004. ,
MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Res, vol.32, pp.1792-1797, 2004. ,
New algorithms and methods to estimate maximumlikelihood phylogenies: assessing the performance of PhyML 3.0, Syst. Biol, vol.59, pp.307-321, 2010. ,
URL : https://hal.archives-ouvertes.fr/lirmm-00511784
SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building, Mol. Biol. Evol, vol.27, pp.221-224, 2010. ,
URL : https://hal.archives-ouvertes.fr/lirmm-00511794
PAML 4: phylogenetic analysis by maximum likelihood, Mol. Biol. Evol, vol.24, pp.1586-1591, 2007. ,
Modeling the site-specific variation of selection patterns along lineages, Proc. Natl Acad. Sci. USA, vol.101, pp.12957-12962, 2004. ,
URL : https://hal.archives-ouvertes.fr/lirmm-00171208
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis, Mol. Biol. Evol, vol.17, pp.540-552, 2000. ,
Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments, Syst. Biol, vol.56, pp.564-577, 2007. ,
Comparative protein modelling by satisfaction of spatial restraints, J. Mol. Biol, vol.234, pp.779-815, 1993. ,
Comparative protein structure modeling using MODELLER, Curr. Protoc. Bioinformatics, vol.47, 2014. ,
MUSTANG: a multiple structural alignment algorithm, Proteins, vol.64, pp.559-574, 2006. ,
MAFFT multiple sequence alignment software version 7: improvements in performance and usability, Mol. Biol. Evol, vol.30, pp.772-780, 2013. ,
QMEAN: A comprehensive scoring function for model quality assessment, Proteins, vol.71, pp.261-277, 2008. ,
QMEAN server for protein model quality estimation, Nucleic Acids Res, vol.37, pp.510-514, 2009. ,
UCSF Chimera--a visualization system for exploratory research and analysis, J. Comput. Chem, vol.25, pp.1605-1612, 2004. ,
New AMBER force field parameters of heme iron for cytochrome P450s determined by quantum chemical calculations of simplified models, J. Comput. Chem, vol.26, pp.818-826, 2005. ,
Quantum mechanically derived AMBER-compatible heme parameters for various states of the cytochrome P450 catalytic cycle, J. Comput. Chem, vol.33, pp.119-133, 2012. ,
AutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility, J. Comput. Chem, vol.30, pp.2785-2791, 2009. ,
A new Lamarckian genetic algorithm for flexible ligand-receptor docking, J. Comput. Chem, vol.31, pp.1911-1918, 2010. ,