Published in Genome Res on April 01, 2005
Mechanisms of genomic rearrangements and gene expression changes in plant polyploids. Bioessays (2006) 2.28
Wheat genomics: present status and future prospects. Int J Plant Genomics (2008) 1.83
Alpha-gliadin genes from the A, B, and D genomes of wheat contain different sets of celiac disease epitopes. BMC Genomics (2006) 1.70
In vivo participation of red chlorophyll catabolite reductase in chlorophyll breakdown. Plant Cell (2007) 1.43
Types and rates of sequence evolution at the high-molecular-weight glutenin locus in hexaploid wheat and its ancestral genomes. Genetics (2006) 1.31
Sequence-based mapping of the polyploid wheat genome. G3 (Bethesda) (2013) 1.29
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
Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat. Genetics (2008) 1.24
Separating homeologs by phasing in the tetraploid wheat transcriptome. Genome Biol (2013) 1.23
Sequencing of chloroplast genomes from wheat, barley, rye and their relatives provides a detailed insight into the evolution of the Triticeae tribe. PLoS One (2014) 1.11
Analysis of intraspecies diversity in wheat and barley genomes identifies breakpoints of ancient haplotypes and provides insight into the structure of diploid and hexaploid triticeae gene pools. Plant Physiol (2008) 1.11
Triticeae genomics: advances in sequence analysis of large genome cereal crops. Chromosome Res (2007) 1.01
Duplication and partitioning in evolution and function of homoeologous Q loci governing domestication characters in polyploid wheat. Proc Natl Acad Sci U S A (2011) 1.01
Conserved globulin gene across eight grass genomes identify fundamental units of the loci encoding seed storage proteins. Funct Integr Genomics (2009) 0.93
Contrasting rates of evolution in Pm3 loci from three wheat species and rice. Genetics (2007) 0.92
Genome-wide analysis of Stowaway-like MITEs in wheat reveals high sequence conservation, gene association, and genomic diversification. Plant Physiol (2012) 0.91
Mechanisms of haplotype divergence at the RGA08 nucleotide-binding leucine-rich repeat gene locus in wild banana (Musa balbisiana). BMC Plant Biol (2010) 0.90
Single nucleotide polymorphism, genetic mapping, and expression of genes coding for the DOF wheat prolamin-box binding factor. Funct Integr Genomics (2006) 0.85
Lgals6, a 2-million-year-old gene in mice: a case of positive Darwinian selection and presence/absence polymorphism. Genetics (2008) 0.85
The impact of Ty3-gypsy group LTR retrotransposons Fatima on B-genome specificity of polyploid wheats. BMC Plant Biol (2011) 0.82
Genome organisation and retrotransposon driven molecular evolution of the endosperm Hardness (Ha) locus in Triticum aestivum cv Glenlea. Mol Genet Genomics (2008) 0.80
Exploring the diploid wheat ancestral A genome through sequence comparison at the high-molecular-weight glutenin locus region. Mol Genet Genomics (2012) 0.79
Recruitment of closely linked genes for divergent functions: the seed storage protein (Glu-3) and powdery mildew (Pm3) genes in wheat (Triticum aestivum L.). Funct Integr Genomics (2009) 0.78
Suppressed recombination and unique candidate genes in the divergent haplotype encoding Fhb1, a major Fusarium head blight resistance locus in wheat. Theor Appl Genet (2016) 0.77
Delineating the structural, functional and evolutionary relationships of sucrose phosphate synthase gene family II in wheat and related grasses. BMC Plant Biol (2010) 0.77
Zn2+ blocks annealing of complementary single-stranded DNA in a sequence-selective manner. Sci Rep (2014) 0.75
Simulating Next-Generation Sequencing Datasets from Empirical Mutation and Sequencing Models. PLoS One (2016) 0.75
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res (1997) 665.31
Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res (1998) 106.16
MEGA2: molecular evolutionary genetics analysis software. Bioinformatics (2001) 38.50
A new DNA sequence assembly program. Nucleic Acids Res (1995) 12.03
Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J Mol Evol (1993) 9.43
The paleontology of intergene retrotransposons of maize. Nat Genet (1998) 8.55
A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene (1995) 8.45
Structure of the Arabidopsis RPM1 gene enabling dual specificity disease resistance. Science (1995) 7.83
Intraspecific violation of genetic colinearity and its implications in maize. Proc Natl Acad Sci U S A (2002) 5.85
Substitution rate comparisons between grasses and palms: synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc Natl Acad Sci U S A (1996) 5.52
Rapid recent growth and divergence of rice nuclear genomes. Proc Natl Acad Sci U S A (2004) 5.35
Genome size reduction through illegitimate recombination counteracts genome expansion in Arabidopsis. Genome Res (2002) 5.15
The extent of linkage disequilibrium in Arabidopsis thaliana. Nat Genet (2002) 4.96
Fitness costs of R-gene-mediated resistance in Arabidopsis thaliana. Nature (2003) 4.46
Analyses of LTR-retrotransposon structures reveal recent and rapid genomic DNA loss in rice. Genome Res (2004) 4.43
Allopolyploidy-induced rapid genome evolution in the wheat (Aegilops-Triticum) group. Plant Cell (2001) 4.35
Dynamics of disease resistance polymorphism at the Rpm1 locus of Arabidopsis. Nature (1999) 4.28
Evolutionary dynamics of plant R-genes. Science (2001) 3.80
Single-nucleotide polymorphisms in soybean. Genetics (2003) 3.73
Genes encoding plastid acetyl-CoA carboxylase and 3-phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat. Proc Natl Acad Sci U S A (2002) 3.51
Genome relationships: the grass model in current research. Plant Cell (2000) 3.25
Gene expression of a gene family in maize based on noncollinear haplotypes. Proc Natl Acad Sci U S A (2003) 3.14
Rapid genomic changes in newly synthesized amphiploids of Triticum and Aegilops. II. Changes in low-copy coding DNA sequences. Genome (1998) 2.81
Analysis of a contiguous 211 kb sequence in diploid wheat (Triticum monococcum L.) reveals multiple mechanisms of genome evolution. Plant J (2001) 2.75
Comparative sequence analysis of colinear barley and rice bacterial artificial chromosomes. Plant Physiol (2001) 2.73
Rapid genome divergence at orthologous low molecular weight glutenin loci of the A and Am genomes of wheat. Plant Cell (2003) 2.58
RiceGAAS: an automated annotation system and database for rice genome sequence. Nucleic Acids Res (2002) 2.53
Signature of balancing selection in Arabidopsis. Proc Natl Acad Sci U S A (2002) 2.52
Colinearity and gene density in grass genomes. Trends Plant Sci (2000) 2.36
Mosaic organization of orthologous sequences in grass genomes. Genome Res (2002) 2.22
Construction and characterization of a bacterial artificial chromosome (BAC) library for the A genome of wheat. Genome (1999) 2.11
Numerous small rearrangements of gene content, order and orientation differentiate grass genomes. Plant Mol Biol (2002) 1.97
A complex history of rearrangement in an orthologous region of the maize, sorghum, and rice genomes. Proc Natl Acad Sci U S A (2003) 1.94
Construction and characterization of a half million clone BAC library of durum wheat ( Triticum turgidum ssp. durum). Theor Appl Genet (2003) 1.92
Corn and humans: recombination and linkage disequilibrium in two genomes of similar size. Trends Genet (2004) 1.88
Map-based isolation of the leaf rust disease resistance gene Lr10 from the hexaploid wheat (Triticum aestivum L.) genome. Proc Natl Acad Sci U S A (2003) 1.85
Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis. Proc Natl Acad Sci U S A (1998) 1.78
Different types and rates of genome evolution detected by comparative sequence analysis of orthologous segments from four cereal genomes. Genetics (2002) 1.76
Subgenome chromosome walking in wheat: a 450-kb physical contig in Triticum monococcum L. spans the Lr10 resistance locus in hexaploid wheat (Triticum aestivum L.). Proc Natl Acad Sci U S A (2000) 1.46
CACTA transposons in Triticeae. A diverse family of high-copy repetitive elements. Plant Physiol (2003) 1.43
Rapid genome evolution revealed by comparative sequence analysis of orthologous regions from four triticeae genomes. Plant Physiol (2004) 1.43
Haplotype structure of the stigmatic self-incompatibility gene in natural populations of Arabidopsis lyrata. Mol Biol Evol (2003) 1.25
Dynamics of the evolution of orthologous and paralogous portions of a complex locus region in two genomes of allopolyploid wheat. Plant Mol Biol (2004) 1.23
A large rearrangement involving genes and low-copy DNA interrupts the microcollinearity between rice and barley at the Rph7 locus. Genetics (2003) 1.12
Ancient origin of pathogen recognition specificity conferred by the tomato disease resistance gene Pto. Proc Natl Acad Sci U S A (2001) 1.09
Structural organization of the barley D-hordein locus in comparison with its orthologous regions of wheat genomes. Genome (2003) 1.00
In silico comparative analysis reveals a mosaic conservation of genes within a novel colinear region in wheat chromosome 1AS and rice chromosome 5S. Funct Integr Genomics (2004) 1.00
Exceptional haplotype variation in maize. Proc Natl Acad Sci U S A (2002) 0.99
Assessment of the degree and the type of restriction fragment length polymorphism in barley (Hordeum vulgare). Theor Appl Genet (1990) 0.94
Two haplotypes of resistance gene analogs have been conserved during evolution at the leaf rust resistance locus Lr10in wild and cultivated wheat. Funct Integr Genomics (2002) 0.90
Sequence haplotypes revealed by sequence-tagged site fine mapping of the Ror1 gene in the centromeric region of barley chromosome 1H. Plant Physiol (2001) 0.81
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
A unified classification system for eukaryotic transposable elements. Nat Rev Genet (2007) 11.03
The genome of the mesopolyploid crop species Brassica rapa. Nat Genet (2011) 8.23
454 sequencing put to the test using the complex genome of barley. BMC Genomics (2006) 6.12
Nuclear activity of MLA immune receptors links isolate-specific and basal disease-resistance responses. Science (2006) 4.42
Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array. Plant Biotechnol J (2014) 4.02
A putative ABC transporter confers durable resistance to multiple fungal pathogens in wheat. Science (2009) 3.85
Agriculture: Feeding the future. Nature (2013) 3.75
Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation. Nature (2013) 3.40
Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell (2008) 3.25
A putative Ca2+ and calmodulin-dependent protein kinase required for bacterial and fungal symbioses. Science (2004) 3.23
A physical map of the 1-gigabase bread wheat chromosome 3B. Science (2008) 3.21
Rapid genome divergence at orthologous low molecular weight glutenin loci of the A and Am genomes of wheat. Plant Cell (2003) 2.58
Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces. Plant Cell (2010) 2.45
Molecular basis of evolutionary events that shaped the hardness locus in diploid and polyploid wheat species (Triticum and Aegilops). Plant Cell (2005) 2.40
Considering transposable element diversification in de novo annotation approaches. PLoS One (2011) 2.11
Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell (2011) 1.98
Comparison of orthologous loci from small grass genomes Brachypodium and rice: implications for wheat genomics and grass genome annotation. Plant J (2007) 1.96
A workshop report on wheat genome sequencing: International Genome Research on Wheat Consortium. Genetics (2004) 1.94
Genome analysis at different ploidy levels allows cloning of the powdery mildew resistance gene Pm3b from hexaploid wheat. Plant J (2004) 1.90
Comparative genomics in the grass family: molecular characterization of grass genome structure and evolution. Ann Bot (2002) 1.87
The Arabidopsis male-sterile mutant dde2-2 is defective in the ALLENE OXIDE SYNTHASE gene encoding one of the key enzymes of the jasmonic acid biosynthesis pathway. Planta (2002) 1.86
The tomato fer gene encoding a bHLH protein controls iron-uptake responses in roots. Proc Natl Acad Sci U S A (2002) 1.85
Map-based isolation of the leaf rust disease resistance gene Lr10 from the hexaploid wheat (Triticum aestivum L.) genome. Proc Natl Acad Sci U S A (2003) 1.85
Genome-wide comparative analysis of copia retrotransposons in Triticeae, rice, and Arabidopsis reveals conserved ancient evolutionary lineages and distinct dynamics of individual copia families. Genome Res (2007) 1.78
Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals. Proc Natl Acad Sci U S A (2009) 1.71
Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. Plant J (2006) 1.70
Ancestral genome duplication in rice. Genome (2004) 1.66
Palaeogenomics of plants: synteny-based modelling of extinct ancestors. Trends Plant Sci (2010) 1.66
A whole-genome snapshot of 454 sequences exposes the composition of the barley genome and provides evidence for parallel evolution of genome size in wheat and barley. Plant J (2009) 1.63
Chromosome-based genomics in the cereals. Chromosome Res (2007) 1.59
Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea. Genome Biol (2014) 1.56
Insertion site-based polymorphism markers open new perspectives for genome saturation and marker-assisted selection in wheat. Plant Biotechnol J (2010) 1.56
The 'inner circle' of the cereal genomes. Curr Opin Plant Biol (2008) 1.55
Impact of transposable elements on the organization and function of allopolyploid genomes. New Phytol (2009) 1.48
CACTA transposons in Triticeae. A diverse family of high-copy repetitive elements. Plant Physiol (2003) 1.43
The wheat powdery mildew genome shows the unique evolution of an obligate biotroph. Nat Genet (2013) 1.38
Sequence-based marker development in wheat: advances and applications to breeding. Biotechnol Adv (2011) 1.38
Patching gaps in plant genomes results in gene movement and erosion of colinearity. Genome Res (2010) 1.36
Transgene x environment interactions in genetically modified wheat. PLoS One (2010) 1.36
Dissecting large and complex genomes: flow sorting and BAC cloning of individual chromosomes from bread wheat. Plant J (2004) 1.31
Types and rates of sequence evolution at the high-molecular-weight glutenin locus in hexaploid wheat and its ancestral genomes. Genetics (2006) 1.31
Homeologous recombination plays a major role in chromosome rearrangements that occur during meiosis of Brassica napus haploids. Genetics (2006) 1.31
ACTIN2 is essential for bulge site selection and tip growth during root hair development of Arabidopsis. Plant Physiol (2002) 1.28
Diversity at the Mla powdery mildew resistance locus from cultivated barley reveals sites of positive selection. Mol Plant Microbe Interact (2010) 1.27
Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes. Plant J (2013) 1.26
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
Dynamics and differential proliferation of transposable elements during the evolution of the B and A genomes of wheat. Genetics (2008) 1.24
Whole-genome comparison of leucine-rich repeat extensins in Arabidopsis and rice. A conserved family of cell wall proteins form a vegetative and a reproductive clade. Plant Physiol (2003) 1.24
Leaf rust resistance gene Lr1, isolated from bread wheat (Triticum aestivum L.) is a member of the large psr567 gene family. Plant Mol Biol (2007) 1.24
Improved criteria and comparative genomics tool provide new insights into grass paleogenomics. Brief Bioinform (2009) 1.24
Updating of transposable element annotations from large wheat genomic sequences reveals diverse activities and gene associations. Mol Genet Genomics (2005) 1.21
Rapid generation of new powdery mildew resistance genes after wheat domestication. Plant J (2006) 1.21
RNA interference-based gene silencing as an efficient tool for functional genomics in hexaploid bread wheat. Plant Physiol (2006) 1.20
Two different CC-NBS-LRR genes are required for Lr10-mediated leaf rust resistance in tetraploid and hexaploid wheat. Plant J (2009) 1.20
Detailed recombination studies along chromosome 3B provide new insights on crossover distribution in wheat (Triticum aestivum L.). Genetics (2008) 1.19
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. Mol Biol Evol (2009) 1.18
Unlocking wheat genetic resources for the molecular identification of previously undescribed functional alleles at the Pm3 resistance locus. Proc Natl Acad Sci U S A (2009) 1.18
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
Single-nucleotide polymorphism frequency in a set of selected lines of bread wheat (Triticum aestivum L.). Genome (2006) 1.15
Gene-specific markers for the wheat gene Lr34/Yr18/Pm38 which confers resistance to multiple fungal pathogens. Theor Appl Genet (2009) 1.15
Large intraspecific haplotype variability at the Rph7 locus results from rapid and recent divergence in the barley genome. Plant Cell (2005) 1.14
Allelic series of four powdery mildew resistance genes at the Pm3 locus in hexaploid bread wheat. Plant Physiol (2005) 1.13
Analysis of intraspecies diversity in wheat and barley genomes identifies breakpoints of ancient haplotypes and provides insight into the structure of diploid and hexaploid triticeae gene pools. Plant Physiol (2008) 1.11
A first survey of the rye (Secale cereale) genome composition through BAC end sequencing of the short arm of chromosome 1R. BMC Plant Biol (2008) 1.11
A 3,000-loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat. Plant Physiol (2011) 1.10
Newly synthesized wheat allohexaploids display progenitor-dependent meiotic stability and aneuploidy but structural genomic additivity. New Phytol (2010) 1.09
Substitutions of two amino acids in the nucleotide-binding site domain of a resistance protein enhance the hypersensitive response and enlarge the PM3F resistance spectrum in wheat. Mol Plant Microbe Interact (2014) 1.05
Genome-wide gene expression changes in genetically stable synthetic and natural wheat allohexaploids. New Phytol (2010) 1.05
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes. Front Plant Sci (2012) 1.04
Illegitimate recombination is a major evolutionary mechanism for initiating size variation in plant resistance genes. Plant J (2007) 1.03
Advanced resources for plant genomics: a BAC library specific for the short arm of wheat chromosome 1B. Plant J (2006) 1.03
Lr34 multi-pathogen resistance ABC transporter: molecular analysis of homoeologous and orthologous genes in hexaploid wheat and other grass species. Plant J (2010) 1.03
Comparative gene expression analysis of susceptible and resistant near-isogenic lines in common wheat infected by Puccinia triticina. DNA Res (2010) 1.02
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
Duplication and partitioning in evolution and function of homoeologous Q loci governing domestication characters in polyploid wheat. Proc Natl Acad Sci U S A (2011) 1.01
In silico comparative analysis reveals a mosaic conservation of genes within a novel colinear region in wheat chromosome 1AS and rice chromosome 5S. Funct Integr Genomics (2004) 1.00
Sequence-based analysis of translocations and inversions in bread wheat (Triticum aestivum L.). PLoS One (2013) 1.00
Functional variability of the Lr34 durable resistance gene in transgenic wheat. Plant Biotechnol J (2012) 0.99
Transgenic Pm3b wheat lines show resistance to powdery mildew in the field. Plant Biotechnol J (2011) 0.99
Multi-environment analysis and improved mapping of a yield-related QTL on chromosome 3B of wheat. Theor Appl Genet (2012) 0.99
Anchoring of a large set of markers onto a BAC library for the development of a draft physical map of the grapevine genome. Theor Appl Genet (2006) 0.98
Common and distinct gene expression patterns induced by the herbicides 2,4-dichlorophenoxyacetic acid, cinidon-ethyl and tribenuron-methyl in wheat. Pest Manag Sci (2006) 0.98
Direct targeting and rapid isolation of BAC clones spanning a defined chromosome region. Funct Integr Genomics (2005) 0.97
Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome. Genome Biol (2015) 0.97
Independent evolution of functional Pm3 resistance genes in wild tetraploid wheat and domesticated bread wheat. Plant J (2008) 0.95
LTC: a novel algorithm to improve the efficiency of contig assembly for physical mapping in complex genomes. BMC Bioinformatics (2010) 0.95
Development of simple sequence repeat markers specific for the Lr34 resistance region of wheat using sequence information from rice and Aegilops tauschii. Theor Appl Genet (2006) 0.95