Published in Genome Res on September 28, 2010
The genome of Theobroma cacao. Nat Genet (2010) 3.47
Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell (2011) 3.03
Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential. Nat Biotechnol (2012) 2.82
The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions. Nat Genet (2012) 2.33
Deciphering the diploid ancestral genome of the Mesohexaploid Brassica rapa. Plant Cell (2013) 1.90
Understanding Brassicaceae evolution through ancestral genome reconstruction. Genome Biol (2015) 1.44
RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.). Genome Biol (2011) 1.07
A flexible ancestral genome reconstruction method based on gapped adjacencies. BMC Bioinformatics (2012) 1.03
Systematic analysis of sequences and expression patterns of drought-responsive members of the HD-Zip gene family in maize. PLoS One (2011) 1.01
A TILLING Platform for Functional Genomics in Brachypodium distachyon. PLoS One (2013) 1.00
Reticulate evolution of the rye genome. Plant Cell (2013) 1.00
MLGO: phylogeny reconstruction and ancestral inference from gene-order data. BMC Bioinformatics (2014) 0.93
A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat. Genome Biol (2013) 0.93
Ancient eudicot hexaploidy meets ancestral eurosid gene order. BMC Genomics (2013) 0.92
Grass microRNA gene paleohistory unveils new insights into gene dosage balance in subgenome partitioning after whole-genome duplication. Plant Cell (2012) 0.92
Decoding plant and animal genome plasticity from differential paleo-evolutionary patterns and processes. Genome Biol Evol (2012) 0.92
Shared subgenome dominance following polyploidization explains grass genome evolutionary plasticity from a seven protochromosome ancestor with 16K protogenes. Genome Biol Evol (2014) 0.91
The ZmASR1 protein influences branched-chain amino acid biosynthesis and maintains kernel yield in maize under water-limited conditions. Plant Physiol (2011) 0.91
Paleo-evolutionary plasticity of plant disease resistance genes. BMC Genomics (2014) 0.89
Deciphering the genomic structure, function and evolution of carotenogenesis related phytoene synthases in grasses. BMC Genomics (2012) 0.89
Syntenic relationships between the U and M genomes of Aegilops, wheat and the model species Brachypodium and rice as revealed by COS markers. PLoS One (2013) 0.88
Phylogenomics of the benzoxazinoid biosynthetic pathway of Poaceae: gene duplications and origin of the Bx cluster. BMC Evol Biol (2012) 0.88
The more the merrier: recent hybridization and polyploidy in cardamine. Plant Cell (2013) 0.87
Homoeologous relationship of rye chromosome arms as detected with wheat PLUG markers. Chromosoma (2013) 0.86
Karyotype and gene order evolution from reconstructed extinct ancestors highlight contrasts in genome plasticity of modern rosid crops. Genome Biol Evol (2015) 0.85
Exploitation of interspecific diversity for monocot crop improvement. Heredity (Edinb) (2013) 0.84
Mapping ancestral genomes with massive gene loss: a matrix sandwich problem. Bioinformatics (2011) 0.83
Insight into the karyotype evolution of brachypodium species using comparative chromosome barcoding. PLoS One (2014) 0.83
Genome-Wide Identification, Characterization and Expression Analysis of the Chalcone Synthase Family in Maize. Int J Mol Sci (2016) 0.82
Comparative mapping in the Poaceae family reveals translocations in the complex polyploid genome of sugarcane. BMC Plant Biol (2014) 0.81
Reconstructing the genome of the most recent common ancestor of flowering plants. Nat Genet (2017) 0.80
A radiation hybrid map of chromosome 1D reveals synteny conservation at a wheat speciation locus. Funct Integr Genomics (2013) 0.80
Evidence of intense chromosomal shuffling during conifer evolution. Genome Biol Evol (2015) 0.79
Discovery of MicroRNA169 gene copies in genomes of flowering plants through positional information. Genome Biol Evol (2013) 0.79
Speeding up chromosome evolution in Phaseolus: multiple rearrangements associated with a one-step descending dysploidy. Chromosoma (2015) 0.78
Comprehensive analysis of expressed sequence tags from cultivated and wild radish (Raphanus spp.). BMC Genomics (2013) 0.77
High Quality Maize Centromere 10 Sequence Reveals Evidence of Frequent Recombination Events. Front Plant Sci (2016) 0.77
An update of the goat genome assembly using dense radiation hybrid maps allows detailed analysis of evolutionary rearrangements in Bovidae. BMC Genomics (2014) 0.76
Construction of high-resolution genetic maps of Zoysia matrella (L.) Merrill and applications to comparative genomic analysis and QTL mapping of resistance to fall armyworm. BMC Genomics (2016) 0.75
Evolutionary history of Methyltransferase 1 genes in hexaploid wheat. BMC Genomics (2014) 0.75
Towards a FISH-based karyotype of Rosa L. (Rosaceae). Comp Cytogenet (2016) 0.75
Comparative Genomics Analysis of Rice and Pineapple Contributes to Understand the Chromosome Number Reduction and Genomic Changes in Grasses. Front Genet (2016) 0.75
The map-based sequence of the rice genome. Nature (2005) 24.17
The B73 maize genome: complexity, diversity, and dynamics. Science (2009) 18.73
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature (2004) 12.32
Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature (2010) 9.52
Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics. Proc Natl Acad Sci U S A (2004) 6.66
Major ecological transitions in wild sunflowers facilitated by hybridization. Science (2003) 6.25
Dynamics of mammalian chromosome evolution inferred from multispecies comparative maps. Science (2005) 5.47
Evolutionary history of the grasses. Plant Physiol (2001) 5.22
Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res (2002) 5.15
The Behavior in Successive Nuclear Divisions of a Chromosome Broken at Meiosis. Proc Natl Acad Sci U S A (1939) 5.06
Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Res (2004) 4.43
Close split of sorghum and maize genome progenitors. Genome Res (2004) 4.34
Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. Genome Res (2008) 4.02
The evolutionary significance of ancient genome duplications. Nat Rev Genet (2009) 3.95
Evolutionary genetics of genome merger and doubling in plants. Annu Rev Genet (2008) 3.45
A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat. Genetics (2004) 3.37
Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell (2008) 3.25
Sequence composition and genome organization of maize. Proc Natl Acad Sci U S A (2004) 3.22
Biased gene conversion: implications for genome and sex evolution. Trends Genet (2003) 3.04
Neocentromeres: new insights into centromere structure, disease development, and karyotype evolution. Am J Hum Genet (2008) 2.88
Mechanisms of chromosome number reduction in Arabidopsis thaliana and related Brassicaceae species. Proc Natl Acad Sci U S A (2006) 2.68
Improved telomere detection using a telomere repeat probe (TTAGGG)n generated by PCR. Nucleic Acids Res (1991) 2.52
Molecular basis of evolutionary events that shaped the hardness locus in diploid and polyploid wheat species (Triticum and Aegilops). Plant Cell (2005) 2.40
Mapping of meiotic single-stranded DNA reveals double-stranded-break hotspots near centromeres and telomeres. Curr Biol (2007) 2.34
Genome comparisons reveal a dominant mechanism of chromosome number reduction in grasses and accelerated genome evolution in Triticeae. Proc Natl Acad Sci U S A (2009) 2.32
Mosaic organization of orthologous sequences in grass genomes. Genome Res (2002) 2.22
Understanding apomixis: recent advances and remaining conundrums. Plant Cell (2004) 2.14
High frequency of centromere inactivation resulting in stable dicentric chromosomes of maize. Proc Natl Acad Sci U S A (2006) 1.98
Uneven chromosome contraction and expansion in the maize genome. Genome Res (2006) 1.96
Human centromere repositioning "in progress". Proc Natl Acad Sci U S A (2004) 1.88
Chromosomal phylogeny and karyotype evolution in x=7 crucifer species (Brassicaceae). Plant Cell (2008) 1.77
Chromosome evolution. Curr Opin Plant Biol (2007) 1.74
Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals. Proc Natl Acad Sci U S A (2009) 1.71
Evolutionary formation of new centromeres in macaque. Science (2007) 1.67
Breakpoint regions and homologous synteny blocks in chromosomes have different evolutionary histories. Genome Res (2009) 1.66
Comparative map and trait viewer (CMTV): an integrated bioinformatic tool to construct consensus maps and compare QTL and functional genomics data across genomes and experiments. Plant Mol Biol (2004) 1.59
The 'inner circle' of the cereal genomes. Curr Opin Plant Biol (2008) 1.55
Organization of the prolamin gene family provides insight into the evolution of the maize genome and gene duplications in grass species. Proc Natl Acad Sci U S A (2008) 1.51
A 1463 gene cattle-human comparative map with anchor points defined by human genome sequence coordinates. Genome Res (2004) 1.48
Patching gaps in plant genomes results in gene movement and erosion of colinearity. Genome Res (2010) 1.36
Narcisse: a mirror view of conserved syntenies. Nucleic Acids Res (2007) 1.36
Analysis of fine-scale mammalian evolutionary breakpoints provides new insight into their relation to genome organisation. BMC Genomics (2009) 1.31
Improved criteria and comparative genomics tool provide new insights into grass paleogenomics. Brief Bioinform (2009) 1.24
Amplification of prolamin storage protein genes in different subfamilies of the Poaceae. Theor Appl Genet (2009) 1.20
A methodological framework for the reconstruction of contiguous regions of ancestral genomes and its application to mammalian genomes. PLoS Comput Biol (2008) 1.15
Polyploidy: doubling up for evolutionary success. Curr Biol (2007) 1.14
Species-specific shifts in centromere sequence composition are coincident with breakpoint reuse in karyotypically divergent lineages. Genome Biol (2007) 1.14
Structure and expression analysis of rice paleo duplications. Nucleic Acids Res (2009) 1.13
Genomic features in the breakpoint regions between syntenic blocks. Bioinformatics (2004) 1.12
Centromere repositioning in cucurbit species: implication of the genomic impact from centromere activation and inactivation. Proc Natl Acad Sci U S A (2009) 1.11
High-resolution comparative mapping among man, cattle and mouse suggests a role for repeat sequences in mammalian genome evolution. BMC Genomics (2006) 1.03
Uncoupling of satellite DNA and centromeric function in the genus Equus. PLoS Genet (2010) 0.99
Change of gene structure and function by non-homologous end-joining, homologous recombination, and transposition of DNA. PLoS Genet (2009) 0.91
Evolutionary history and positional shift of a rice centromere. Genetics (2007) 0.89
Diverged copies of the seed regulatory Opaque-2 gene by a segmental duplication in the progenitor genome of rice, sorghum, and maize. Mol Plant (2008) 0.87
CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana. Curr Biol (2002) 15.13
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
Close split of sorghum and maize genome progenitors. Genome Res (2004) 4.34
The Rice Annotation Project Database (RAP-DB): 2008 update. Nucleic Acids Res (2007) 4.23
Physical and genetic structure of the maize genome reflects its complex evolutionary history. PLoS Genet (2007) 3.66
The genome of Theobroma cacao. Nat Genet (2010) 3.47
A physical map of the 1-gigabase bread wheat chromosome 3B. Science (2008) 3.21
Gene expression of a gene family in maize based on noncollinear haplotypes. Proc Natl Acad Sci U S A (2003) 3.14
Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana. Genome Res (2007) 3.13
Gene movement by Helitron transposons contributes to the haplotype variability of maize. Proc Natl Acad Sci U S A (2005) 3.13
Pattern of diversity in the genomic region near the maize domestication gene tb1. Proc Natl Acad Sci U S A (2003) 2.85
Structure and architecture of the maize genome. Plant Physiol (2005) 2.52
Molecular basis of evolutionary events that shaped the hardness locus in diploid and polyploid wheat species (Triticum and Aegilops). Plant Cell (2005) 2.40
Mosaic organization of orthologous sequences in grass genomes. Genome Res (2002) 2.22
Gene loss and movement in the maize genome. Genome Res (2004) 2.11
Whole-genome validation of high-information-content fingerprinting. Plant Physiol (2005) 1.98
Uneven chromosome contraction and expansion in the maize genome. Genome Res (2006) 1.96
Genome-scale coestimation of species and gene trees. Genome Res (2012) 1.82
Undetermined focal liver lesions on gray-scale ultrasound in patients with fatty liver: characterization with contrast-enhanced ultrasound. J Gastroenterol Hepatol (2008) 1.74
Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals. Proc Natl Acad Sci U S A (2009) 1.71
A new opaque variant of maize by a single dominant RNA-interference-inducing transgene. Genetics (2003) 1.71
Palaeogenomics of plants: synteny-based modelling of extinct ancestors. Trends Plant Sci (2010) 1.66
Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations. Proc Natl Acad Sci U S A (2012) 1.66
Contiguous genomic DNA sequence comprising the 19-kD zein gene family from maize. Plant Physiol (2002) 1.63
The 'inner circle' of the cereal genomes. Curr Opin Plant Biol (2008) 1.55
RNA interference-mediated change in protein body morphology and seed opacity through loss of different zein proteins. Plant Physiol (2010) 1.53
Organization of the prolamin gene family provides insight into the evolution of the maize genome and gene duplications in grass species. Proc Natl Acad Sci U S A (2008) 1.51
Steady-state transposon mutagenesis in inbred maize. Plant J (2005) 1.47
Lateral gene transfer as a support for the tree of life. Proc Natl Acad Sci U S A (2012) 1.40
Characterization of the maize endosperm transcriptome and its comparison to the rice genome. Genome Res (2004) 1.39
High-throughput sequencing of three Lemnoideae (duckweeds) chloroplast genomes from total DNA. PLoS One (2011) 1.38
Structure and evolution of the r/b chromosomal regions in rice, maize and sorghum. Genetics (2004) 1.37
On the tetraploid origin of the maize genome. Comp Funct Genomics (2004) 1.32
Types and rates of sequence evolution at the high-molecular-weight glutenin locus in hexaploid wheat and its ancestral genomes. Genetics (2006) 1.31
Analysis of fine-scale mammalian evolutionary breakpoints provides new insight into their relation to genome organisation. BMC Genomics (2009) 1.31
DNA barcoding of the Lemnaceae, a family of aquatic monocots. BMC Plant Biol (2010) 1.27
Genetic analysis of opaque2 modifier loci in quality protein maize. Theor Appl Genet (2008) 1.27
New insights into the origin of the B genome of hexaploid wheat: evolutionary relationships at the SPA genomic region with the S genome of the diploid relative Aegilops speltoides. BMC Genomics (2008) 1.26
Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes. Plant J (2013) 1.26
Gamma-zeins are essential for endosperm modification in quality protein maize. Proc Natl Acad Sci U S A (2010) 1.26
Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests. BMC Bioinformatics (2010) 1.24
Improved criteria and comparative genomics tool provide new insights into grass paleogenomics. Brief Bioinform (2009) 1.24
Precise detection of rearrangement breakpoints in mammalian chromosomes. BMC Bioinformatics (2008) 1.22
Amplification of prolamin storage protein genes in different subfamilies of the Poaceae. Theor Appl Genet (2009) 1.20
Efficient exploration of the space of reconciled gene trees. Syst Biol (2013) 1.20
Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak. BMC Genomics (2010) 1.17
Cross-genome map based dissection of a nitrogen use efficiency ortho-metaQTL in bread wheat unravels concerted cereal genome evolution. Plant J (2011) 1.16
A methodological framework for the reconstruction of contiguous regions of ancestral genomes and its application to mammalian genomes. PLoS Comput Biol (2008) 1.15
Structure and expression analysis of rice paleo duplications. Nucleic Acids Res (2009) 1.13
DNA rearrangement in orthologous orp regions of the maize, rice and sorghum genomes. Genetics (2005) 1.12
Footprints of inversions at present and past pseudoautosomal boundaries in human sex chromosomes. Genome Biol Evol (2009) 1.11
Retrotranspositions in orthologous regions of closely related grass species. BMC Evol Biol (2006) 1.11
RNA interference can rebalance the nitrogen sink of maize seeds without losing hard endosperm. PLoS One (2012) 1.11
Non-Mendelian regulation and allelic variation of methionine-rich delta-zein genes in maize. Theor Appl Genet (2009) 1.10
Sequence-indexed mutations in maize using the UniformMu transposon-tagging population. BMC Genomics (2007) 1.10
Sequence analysis of the long arm of rice chromosome 11 for rice-wheat synteny. Funct Integr Genomics (2004) 1.10
Lateral gene transfer from the dead. Syst Biol (2013) 1.10
Genomics in cereals: from genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection. Funct Integr Genomics (2009) 1.10
Stem cells in plastic surgery: a review of current clinical and translational applications. Arch Plast Surg (2013) 1.09
Comparative sequence analysis of the sorghum Rph region and the maize Rp1 resistance gene complex. Plant Physiol (2002) 1.08
Exploring the solution space of sorting by reversals, with experiments and an application to evolution. IEEE/ACM Trans Comput Biol Bioinform (2008) 1.08
Efficacy of clone fingerprinting methodologies. Genomics (2006) 1.08
RNA-seq in grain unveils fate of neo- and paleopolyploidization events in bread wheat (Triticum aestivum L.). Genome Biol (2011) 1.07
Evolution of gene neighborhoods within reconciled phylogenies. Bioinformatics (2012) 1.07
Sweet sorghum as a model system for bioenergy crops. Curr Opin Biotechnol (2011) 1.07
Novel genetic selection system for quantitative trait loci of quality protein maize. Genetics (2011) 1.05
Reconstructing the architecture of the ancestral amniote genome. Bioinformatics (2011) 1.05
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes. Front Plant Sci (2012) 1.04
Maize haplotype with a helitron-amplified cytidine deaminase gene copy. BMC Genet (2006) 1.04
Combined meta-genomics analyses unravel candidate genes for the grain dietary fiber content in bread wheat (Triticum aestivum L.). Funct Integr Genomics (2010) 1.01
Evolution under reversals: parsimony and conservation of common intervals. IEEE/ACM Trans Comput Biol Bioinform (2007) 1.00
ANGES: reconstructing ANcestral GEnomeS maps. Bioinformatics (2012) 0.99
Differential gene expression and epiregulation of alpha zein gene copies in maize haplotypes. PLoS Genet (2011) 0.99
Increasing maize seed methionine by mRNA stability. Plant J (2002) 0.99
Energy biotechnology. Curr Opin Biotechnol (2012) 0.96
Dual regulated RNA transport pathways to the cortical region in developing rice endosperm. Plant Cell (2003) 0.95
Yeast ancestral genome reconstructions: the possibilities of computational methods II. J Comput Biol (2010) 0.95
Characterization of the small RNA component of the transcriptome from grain and sweet sorghum stems. BMC Genomics (2011) 0.95
Gene tree correction guided by orthology. BMC Bioinformatics (2013) 0.94
Expression of the sorghum 10-member kafirin gene cluster in maize endosperm. Nucleic Acids Res (2004) 0.94
Cassis: detection of genomic rearrangement breakpoints. Bioinformatics (2010) 0.92
Grass microRNA gene paleohistory unveils new insights into gene dosage balance in subgenome partitioning after whole-genome duplication. Plant Cell (2012) 0.92
Decoding plant and animal genome plasticity from differential paleo-evolutionary patterns and processes. Genome Biol Evol (2012) 0.92
Shared subgenome dominance following polyploidization explains grass genome evolutionary plasticity from a seven protochromosome ancestor with 16K protogenes. Genome Biol Evol (2014) 0.91
FPSAC: fast phylogenetic scaffolding of ancient contigs. Bioinformatics (2013) 0.91
Balancing of sulfur storage in maize seed. BMC Plant Biol (2012) 0.91