MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity

A greedy, graph-based algorithm for the alignment of multiple homologous gene lists

(2011) Jan Fostier et al.   BIOINFORMATICS

MicroSyn: A user friendly tool for detection of microsynteny in a gene family

(2011) Bin Cai et al.   BMC BIOINFORMATICS

Comparative analysis of Gossypium and Vitis genomes indicates genome duplication specific to the Gossypium lineage

(2011) Lifeng Lin et al.   GENOMICS

Jumbled Genomes: Missing Apicomplexan Synteny

(2011) J. D. DeBarry et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

SyMAP v3.4: a turnkey synteny system with application to plant genomes

(2011) Carol Soderlund et al.   NUCLEIC ACIDS RESEARCH

Seventy Million Years of Concerted Evolution of a Homoeologous Chromosome Pair, in Parallel, in Major Poaceae Lineages

(2011) Xiyin Wang et al.   PLANT CELL

Evolution, structure and function of mitochondrial carriers: a review with new insights

(2011) Ferdinando Palmieri et al.   PLANT JOURNAL

Modes of Gene Duplication Contribute Differently to Genetic Novelty and Redundancy, but Show Parallels across Divergent Angiosperms

(2011) Yupeng Wang et al.   PLoS One

A draft physical map of a D-genome cotton species (Gossypium raimondii)

(2010) Lifeng Lin et al.   BMC GENOMICS

Large synteny blocks revealed between Caenorhabditis elegans and Caenorhabditis briggsae genomes using OrthoCluster

(2010) Ismael A Vergara et al.   BMC GENOMICS

Comparative genomic analysis of mitogen activated protein kinase gene family in grapevine

(2010) Tae Kyung Hyun et al.   Genes & Genomics

Molecular evolution of glycinin and β-conglycinin gene families in soybean (Glycine max L. Merr.)

(2010) C Li et al.   HEREDITY

Brachytic2/ZmABCB1 functions in IAA export from intercalary meristems

(2010) Anne Sophie Knöller et al.   JOURNAL OF EXPERIMENTAL BOTANY

Tracing the Evolution of the Floral Homeotic B- and C-Function Genes through Genome Synteny

(2010) B. Causier et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

CYNTENATOR: Progressive Gene Order Alignment of 17 Vertebrate Genomes

(2010) Christian Rödelsperger et al.   PLoS One

Comparative Genomics of Flowering Time Pathways Using Brachypodium distachyon as a Model for the Temperate Grasses

(2010) Janet A. Higgins et al.   PLoS One

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Palaeogenomics of plants: synteny-based modelling of extinct ancestors

(2010) Michael Abrouk et al.   TRENDS IN PLANT SCIENCE

Bias in Plant Gene Content Following Different Sorts of Duplication: Tandem, Whole-Genome, Segmental, or by Transposition

(2009) Michael Freeling   Annual Review of Plant Biology

Detecting gene clusters under evolutionary constraint in a large number of genomes

(2009) Xu Ling et al.   BIOINFORMATICS

OrthoClusterDB: an online platform for synteny blocks

(2009) Man-Ping Ng et al.   BMC BIOINFORMATICS

Phylogenetic analysis, structural evolution and functional divergence of the 12-oxo-phytodienoate acid reductase gene family in plants

(2009) Wenyan Li et al.   BMC EVOLUTIONARY BIOLOGY

Identification of mammalian orthologs using local synteny

(2009) Jin Jun et al.   BMC GENOMICS

Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization

(2009) X. Wang et al.   GENOME RESEARCH

Sixty Million Years in Evolution of Soft Grain Trait in Grasses: Emergence of the Softness Locus in the Common Ancestor of Pooideae and Ehrhartoideae, after their Divergence from Panicoideae

(2009) M. Charles et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Sorghum bicolor genome and the diversification of grasses

(2009) Andrew H. Paterson et al.   NATURE

A Chloroplastic UDP-Glucose Pyrophosphorylase from Arabidopsis Is the Committed Enzyme for the First Step of Sulfolipid Biosynthesis

(2009) Y. Okazaki et al.   PLANT CELL

Plant sulfate assimilation genes: redundancy versus specialization

(2009) Stanislav Kopriva et al.   PLANT CELL REPORTS

Angiosperm genome comparisons reveal early polyploidy in the monocot lineage

(2009) H. Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals

(2009) J. Salse et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Distribution, diversity, evolution, and survival of Helitrons in the maize genome

(2009) L. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses

(2009) Xiyin Wang et al.   GENOME BIOLOGY

Early vertebrate whole genome duplications were predated by a period of intense genome rearrangement

(2008) A. L. Hufton et al.   GENOME RESEARCH

Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps

(2008) H. Tang et al.   GENOME RESEARCH

Many or most genes in Arabidopsis transposed after the origin of the order Brassicales

(2008) M. Freeling et al.   GENOME RESEARCH

Identification and Characterization of Shared Duplications between Rice and Wheat Provide New Insight into Grass Genome Evolution

(2008) J. Salse et al.   PLANT CELL

Comparative Genomics and Reverse Genetics Analysis Reveal Indispensable Functions of the Serine Acetyltransferase Gene Family in Arabidopsis

(2008) M. Watanabe et al.   PLANT CELL

Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids

(2008) E. Lyons et al.   PLANT PHYSIOLOGY

Synteny and Collinearity in Plant Genomes

(2008) H. Tang et al.   SCIENCE