Palaeogenomics of plants: synteny-based modelling of extinct ancestors.

[1]  Philip C J Donoghue,et al.  Genome duplication, extinction and vertebrate evolution. , 2005, Trends in ecology & evolution.

[2]  L. Rieseberg,et al.  Major Ecological Transitions in Wild Sunflowers Facilitated by Hybridization , 2003, Science.

[3]  Joachim Messing,et al.  Change of Gene Structure and Function by Non-Homologous End-Joining, Homologous Recombination, and Transposition of DNA , 2009, PLoS genetics.

[4]  Dawn H. Nagel,et al.  The B73 Maize Genome: Complexity, Diversity, and Dynamics , 2009, Science.

[5]  The Arabidopsis Genome Initiative Analysis of the genome sequence of the flowering plant Arabidopsis thaliana , 2000, Nature.

[6]  Dustin A. Cartwright,et al.  A High Quality Draft Consensus Sequence of the Genome of a Heterozygous Grapevine Variety , 2007, PloS one.

[7]  J. Salse,et al.  Comparative Genomics of Cereals , 2007 .

[8]  J. Salse,et al.  Structure and expression analysis of rice paleo duplications , 2008, Nucleic acids research.

[9]  T. Vision,et al.  Divergence in expression between duplicated genes in Arabidopsis. , 2007, Molecular biology and evolution.

[10]  Sebastian Proost,et al.  The flowering world: a tale of duplications. , 2009, Trends in plant science.

[11]  M. Gribskov,et al.  The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray) , 2006, Science.

[12]  Dmitri A Petrov,et al.  Do disparate mechanisms of duplication add similar genes to the genome? , 2005, Trends in genetics : TIG.

[13]  J. Messing,et al.  The 'inner circle' of the cereal genomes. , 2009, Current opinion in plant biology.

[14]  Jingchu Luo,et al.  Duplication and DNA segmental loss in the rice genome: implications for diploidization. , 2005, The New phytologist.

[15]  Stephen M. Mount,et al.  The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus) , 2008, Nature.

[16]  Steven Maere,et al.  The gain and loss of genes during 600 million years of vertebrate evolution , 2006, Genome Biology.

[17]  Joachim Messing,et al.  Maize haplotype with a helitron-amplified cytidine deaminase gene copy , 2006, BMC Genetics.

[18]  Mihaela M. Martis,et al.  The Sorghum bicolor genome and the diversification of grasses , 2009, Nature.

[19]  J. Salse,et al.  Identification and Characterization of Shared Duplications between Rice and Wheat Provide New Insight into Grass Genome Evolution[W] , 2008, The Plant Cell Online.

[20]  Georg Haberer,et al.  Transcriptional Similarities, Dissimilarities, and Conservation of cis-Elements in Duplicated Genes of Arabidopsis1[w] , 2004, Plant Physiology.

[21]  M T Clegg,et al.  Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae , 2009, Proceedings of the National Academy of Sciences.

[22]  Takuji Sasaki,et al.  The map-based sequence of the rice genome , 2005, Nature.

[23]  R. Varshney,et al.  Genomics-Assisted Crop Improvement , 2007 .

[24]  Joachim Messing,et al.  Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals , 2009, Proceedings of the National Academy of Sciences.

[25]  Saurabh Raghuvanshi,et al.  The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications , 2005, BMC Biology.

[26]  Z. Chen,et al.  Genetic and epigenetic mechanisms for gene expression and phenotypic variation in plant polyploids. , 2007, Annual review of plant biology.

[27]  Cathal Seoighe,et al.  Genome duplication led to highly selective expansion of the Arabidopsis thaliana proteome. , 2004, Trends in genetics : TIG.

[28]  Haibao Tang,et al.  Insights from the comparison of plant genome sequences. , 2010, Annual review of plant biology.

[29]  Jianxin Ma,et al.  Close split of sorghum and maize genome progenitors. , 2004, Genome research.

[30]  Jérôme Salse,et al.  Improved criteria and comparative genomics tool provide new insights into grass paleogenomics , 2009, Briefings Bioinform..

[31]  Haibao Tang,et al.  Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. , 2008, Genome research.

[32]  R. Wing,et al.  Sequence composition and genome organization of maize. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[33]  Ryan A. Rapp,et al.  Evolutionary genetics of genome merger and doubling in plants. , 2008, Annual review of genetics.

[34]  Guillaume Blanc,et al.  Functional Divergence of Duplicated Genes Formed by Polyploidy during Arabidopsis Evolution , 2004, The Plant Cell Online.

[35]  Jianzhi Zhang Evolution by gene duplication: an update , 2003 .

[36]  R. Bicknell,et al.  Understanding Apomixis: Recent Advances and Remaining Conundrums , 2004, The Plant Cell Online.

[37]  J. Poulain,et al.  The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla , 2007, Nature.

[38]  Steven Maere,et al.  Plants with double genomes might have had a better chance to survive the Cretaceous–Tertiary extinction event , 2009, Proceedings of the National Academy of Sciences.

[39]  Pamela S Soltis,et al.  Using plastid genome-scale data to resolve enigmatic relationships among basal angiosperms , 2007, Proceedings of the National Academy of Sciences.

[40]  Sai Guna Ranjan Gurazada,et al.  Genome sequencing and analysis of the model grass Brachypodium distachyon , 2010, Nature.

[41]  Miftahudin,et al.  A Chromosome Bin Map of 16,000 Expressed Sequence Tag Loci and Distribution of Genes Among the Three Genomes of Polyploid Wheat , 2004, Genetics.

[42]  Steven G. Schroeder,et al.  Physical and Genetic Structure of the Maize Genome Reflects Its Complex Evolutionary History , 2007, PLoS genetics.

[43]  A. Meyer,et al.  The evolutionary significance of ancient genome duplications , 2009, Nature Reviews Genetics.

[44]  M. Lynch,et al.  The evolutionary fate and consequences of duplicate genes. , 2000, Science.

[45]  S. Hiscock,et al.  Polyploidy: Doubling up for Evolutionary Success , 2007, Current Biology.

[46]  A. Paterson,et al.  Complexity of genome evolution by segmental rearrangement in Brassica rapa revealed by sequence-level analysis , 2009, BMC Genomics.

[47]  M. Adams,et al.  Recent Segmental Duplications in the Human Genome , 2002, Science.

[48]  S. Praud,et al.  Genomics in cereals: from genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection , 2009, Functional & Integrative Genomics.

[49]  I. Grosse,et al.  A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics , 2007, Theoretical and Applied Genetics.

[50]  E. M. Friis,et al.  Cretaceous angiosperm flowers: Innovation and evolution in plant reproduction , 2006 .

[51]  J. Messing,et al.  Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize. , 2008, Molecular plant.

[52]  T. Sakurai,et al.  Genome sequence of the palaeopolyploid soybean , 2010, Nature.