Published in Proc Natl Acad Sci U S A on August 06, 2012
Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration. Nat Rev Genet (2013) 2.08
Comparative sex chromosome genomics in snakes: differentiation, evolutionary strata, and lack of global dosage compensation. PLoS Biol (2013) 1.50
Signatures of sex-antagonistic selection on recombining sex chromosomes. Genetics (2014) 1.05
Genetic degeneration of old and young Y chromosomes in the flowering plant Rumex hastatulus. Proc Natl Acad Sci U S A (2014) 1.04
Testing for the footprint of sexually antagonistic polymorphisms in the pseudoautosomal region of a plant sex chromosome pair. Genetics (2013) 0.97
Rapid divergence and expansion of the X chromosome in papaya. Proc Natl Acad Sci U S A (2012) 0.92
Purifying Selection Maintains Dosage-Sensitive Genes during Degeneration of the Threespine Stickleback Y Chromosome. Mol Biol Evol (2015) 0.89
Origin and domestication of papaya Yh chromosome. Genome Res (2015) 0.88
Construction of a high density SNP linkage map of kelp (Saccharina japonica) by sequencing Taq I site associated DNA and mapping of a sex determining locus. BMC Genomics (2015) 0.87
The status of supergenes in the 21st century: recombination suppression in Batesian mimicry and sex chromosomes and other complex adaptations. Evol Appl (2015) 0.87
A small XY chromosomal region explains sex determination in wild dioecious V. vinifera and the reversal to hermaphroditism in domesticated grapevines. BMC Plant Biol (2014) 0.86
Rapid Y degeneration and dosage compensation in plant sex chromosomes. Proc Natl Acad Sci U S A (2015) 0.84
Molecular cytogenetic characterization of the dioecious Cannabis sativa with an XY chromosome sex determination system. PLoS One (2014) 0.84
The evolutionary dynamics of sexually antagonistic mutations in pseudoautosomal regions of sex chromosomes. Evolution (2014) 0.84
Extremely low nucleotide diversity in the X-linked region of papaya caused by a strong selective sweep. Genome Biol (2016) 0.82
Recent gene-capture on the UV sex chromosomes of the moss Ceratodon purpureus. Evolution (2013) 0.81
How to make a sex chromosome. Nat Commun (2016) 0.81
High-density interspecific genetic maps of kiwifruit and the identification of sex-specific markers. DNA Res (2015) 0.81
Dynamic transposable element accumulation in the nascent sex chromosomes of papaya. Mob Genet Elements (2013) 0.80
Accumulation of interspersed and sex-specific repeats in the non-recombining region of papaya sex chromosomes. BMC Genomics (2014) 0.80
Organelle DNA accumulation in the recently evolved papaya sex chromosomes. Mol Genet Genomics (2013) 0.79
Genome sequence comparison reveals a candidate gene involved in male-hermaphrodite differentiation in papaya (Carica papaya) trees. Mol Genet Genomics (2014) 0.79
Genetic diversity of male and female Chinese bayberry (Myrica rubra) populations and identification of sex-associated markers. BMC Genomics (2015) 0.79
Discovery of the youngest sex chromosomes reveals first case of convergent co-option of ancestral autosomes in turtles. Chromosoma (2016) 0.78
Sex specific expression and distribution of small RNAs in papaya. BMC Genomics (2014) 0.78
Repetitive sequences and epigenetic modification: inseparable partners play important roles in the evolution of plant sex chromosomes. Planta (2016) 0.78
Flower development, pollen fertility and sex expression analyses of three sexual phenotypes of Coccinia grandis. BMC Plant Biol (2014) 0.78
Sex chromosome evolution in snakes inferred from divergence patterns of two gametologous genes and chromosome distribution of sex chromosome-linked repetitive sequences. Zoological Lett (2016) 0.77
The Evolutionary Tempo of Sex Chromosome Degradation in Carica papaya. J Mol Evol (2015) 0.77
ISSR markers for gender identification and genetic diagnosis of Hippophae rhamnoides ssp. turkestanica growing at high altitudes in Ladakh region (Jammu and Kashmir). Protoplasma (2016) 0.77
Rapid degeneration of noncoding DNA regions surrounding SlAP3X/Y after recombination suppression in the dioecious plant Silene latifolia. G3 (Bethesda) (2013) 0.76
DPTEdb, an integrative database of transposable elements in dioecious plants. Database (Oxford) (2016) 0.76
SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms. Genome Biol Evol (2016) 0.75
The Molecular Cytogenetic Characterization of Pistachio (Pistacia vera L.) Suggests the Arrest of Recombination in the Largest Heteropycnotic Pair HC1. PLoS One (2015) 0.75
Evidence for a Common Origin of Homomorphic and Heteromorphic Sex Chromosomes in Distinct Spinacia Species. G3 (Bethesda) (2015) 0.75
A polymorphic pseudoautosomal boundary in the Carica papaya sex chromosomes. Mol Genet Genomics (2015) 0.75
Dynamic karyotype evolution and unique sex determination systems in Leptidea wood white butterflies. BMC Evol Biol (2015) 0.75
Homomorphic ZW chromosomes in a wild strawberry show distinctive recombination heterogeneity but a small sex-determining region. New Phytol (2016) 0.75
Recombination changes at the boundaries of fully and partially sex-linked regions between closely related Silene species pairs. Heredity (Edinb) (2016) 0.75
Transcriptome Profiling Revealed Stress-Induced and Disease Resistance Genes Up-Regulated in PRSV Resistant Transgenic Papaya. Front Plant Sci (2016) 0.75
A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome. Sci Rep (2016) 0.75
Evidence for emergence of sex-determining gene(s) in a centromeric region in Vasconcellea parviflora. Genetics (2014) 0.75
Evolution of recombination rates between sex chromosomes. Philos Trans R Soc Lond B Biol Sci (2017) 0.75
Comparative transcript profiling explores differentially expressed genes associated with sexual phenotype in kiwifruit. PLoS One (2017) 0.75
Sex-oriented research on dioecious crops of Indian subcontinent: an updated review. 3 Biotech (2017) 0.75
Cytogenetic comparison of heteromorphic and homomorphic sex chromosomes in Coccinia (Cucurbitaceae) points to sex chromosome turnover. Chromosome Res (2017) 0.75
The Evolution of Sex Chromosomes and Dosage Compensation in Plants. Genome Biol Evol (2017) 0.75
Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res (1998) 96.63
Consed: a graphical tool for sequence finishing. Genome Res (1998) 59.36
CAP3: A DNA sequence assembly program. Genome Res (1999) 50.04
Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res (1999) 49.21
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics (2006) 43.68
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol (1986) 36.06
Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res (2004) 28.63
Initial sequence of the chimpanzee genome and comparison with the human genome. Nature (2005) 25.67
Evolutionary and biomedical insights from the rhesus macaque genome. Science (2007) 16.21
The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature (2003) 12.44
Four evolutionary strata on the human X chromosome. Science (1999) 7.13
The DNA sequence of the human X chromosome. Nature (2005) 6.97
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature (2008) 5.54
The degeneration of Y chromosomes. Philos Trans R Soc Lond B Biol Sci (2000) 5.22
Steps in the evolution of heteromorphic sex chromosomes. Heredity (Edinb) (2005) 4.29
The effects of local selection, balanced polymorphism and background selection on equilibrium patterns of genetic diversity in subdivided populations. Genet Res (1997) 4.28
The evolution of sex chromosomes. Science (1991) 4.08
The population genetics of Drosophila transposable elements. Annu Rev Genet (1989) 3.27
Chimpanzee and human Y chromosomes are remarkably divergent in structure and gene content. Nature (2010) 2.92
The master sex-determination locus in threespine sticklebacks is on a nascent Y chromosome. Curr Biol (2004) 2.90
A primitive Y chromosome in papaya marks incipient sex chromosome evolution. Nature (2004) 2.81
Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana. Proc Natl Acad Sci U S A (2010) 2.72
Reduced adaptation of a non-recombining neo-Y chromosome. Nature (2002) 2.56
Male-driven evolution. Curr Opin Genet Dev (2002) 2.37
Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes. Genome Res (2008) 2.30
Adaptation shapes patterns of genome evolution on sexual and asexual chromosomes in Drosophila. Nat Genet (2003) 2.27
Genetic mapping of sex determination in a wild strawberry, Fragaria virginiana, reveals earliest form of sex chromosome. Heredity (Edinb) (2008) 2.06
Strict evolutionary conservation followed rapid gene loss on human and rhesus Y chromosomes. Nature (2012) 2.06
Sex differences in fitness and selection for centric fusions between sex-chromosomes and autosomes. Genet Res (1980) 1.95
Evolutionary strata on the X chromosomes of the dioecious plant Silene latifolia: evidence from new sex-linked genes. Genetics (2007) 1.88
Sex chromosomes in land plants. Annu Rev Plant Biol (2011) 1.85
Evolutionary strata on the chicken Z chromosome: implications for sex chromosome evolution. Genetics (2004) 1.80
Low conservation of gene content in the Drosophila Y chromosome. Nature (2008) 1.72
Preservation of the Y transcriptome in a 10-million-year-old plant sex chromosome system. Curr Biol (2011) 1.69
Genomic degradation of a young Y chromosome in Drosophila miranda. Genome Biol (2008) 1.66
Plant Y chromosome degeneration is retarded by haploid purifying selection. Curr Biol (2011) 1.65
The temporal dynamics of processes underlying Y chromosome degeneration. Genetics (2008) 1.47
Genome structure and emerging evidence of an incipient sex chromosome in Populus. Genome Res (2008) 1.46
Convergent evolution of chicken Z and human X chromosomes by expansion and gene acquisition. Nature (2010) 1.46
Sex from W to Z: evolution of vertebrate sex chromosomes and sex determining genes. J Exp Zool (2001) 1.36
Gene organization of the liverwort Y chromosome reveals distinct sex chromosome evolution in a haploid system. Proc Natl Acad Sci U S A (2007) 1.31
The role of repetitive DNA in structure and evolution of sex chromosomes in plants. Heredity (Edinb) (2009) 1.30
Low X/Y divergence in four pairs of papaya sex-linked genes. Plant J (2007) 1.28
Substitution rates in the X- and Y-linked genes of the plants, Silene latifolia and S. dioica. Mol Biol Evol (2002) 1.24
Evolutionary strata on the mouse X chromosome correspond to strata on the human X chromosome. Genome Res (2004) 1.20
The candidate spermatogenesis gene RBMY has a homologue on the human X chromosome. Nat Genet (1999) 1.20
Evolution of the pseudoautosomal boundary in Old World monkeys and great apes. Cell (1990) 1.20
DNA methylation and heterochromatinization in the male-specific region of the primitive Y chromosome of papaya. Genome Res (2008) 1.12
The origin and evolution of human ampliconic gene families and ampliconic structure. Genome Res (2006) 1.03
Nucleotide diversity in Silene latifolia autosomal and sex-linked genes. Proc Biol Sci (2010) 1.01
Active miniature transposons from a plant genome and its nonrecombining Y chromosome. Genetics (2008) 0.95
Construction of physical maps for the sex-specific regions of papaya sex chromosomes. BMC Genomics (2012) 0.92
Rapid divergence and expansion of the X chromosome in papaya. Proc Natl Acad Sci U S A (2012) 0.92
Patterns of neutral genetic variation on recombining sex chromosomes. Genetics (2010) 0.89
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
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events. Nature (2003) 10.65
The genome of the mesopolyploid crop species Brassica rapa. Nat Genet (2011) 8.23
Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature (2008) 5.54
Synteny and collinearity in plant genomes. Science (2008) 5.26
The genome sequence and structure of rice chromosome 1. Nature (2002) 4.99
Polyploidy and angiosperm diversification. Am J Bot (2009) 4.41
Sequence and analysis of rice chromosome 4. Nature (2002) 4.39
Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps. Genome Res (2008) 4.02
Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature (2012) 4.00
Physical and genetic structure of the maize genome reflects its complex evolutionary history. PLoS Genet (2007) 3.66
Sequencing of a rice centromere uncovers active genes. Nat Genet (2004) 3.66
Evolutionary genetics of genome merger and doubling in plants. Annu Rev Genet (2008) 3.45
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity. Nucleic Acids Res (2012) 3.02
The projected timing of climate departure from recent variability. Nature (2013) 3.00
LARGE can functionally bypass alpha-dystroglycan glycosylation defects in distinct congenital muscular dystrophies. Nat Med (2004) 3.00
Finding and comparing syntenic regions among Arabidopsis and the outgroups papaya, poplar, and grape: CoGe with rosids. Plant Physiol (2008) 2.91
A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics (2004) 2.84
A primitive Y chromosome in papaya marks incipient sex chromosome evolution. Nature (2004) 2.81
Rate variation among nuclear genes and the age of polyploidy in Gossypium. Mol Biol Evol (2003) 2.64
An SNP resource for rice genetics and breeding based on subspecies indica and japonica genome alignments. Genome Res (2004) 2.56
The genome of the pear (Pyrus bretschneideri Rehd.). Genome Res (2012) 2.55
Centromeric retroelements and satellites interact with maize kinetochore protein CENH3. Plant Cell (2002) 2.55
Gene RB cloned from Solanum bulbocastanum confers broad spectrum resistance to potato late blight. Proc Natl Acad Sci U S A (2003) 2.43
A high-density genetic recombination map of sequence-tagged sites for sorghum, as a framework for comparative structural and evolutionary genomics of tropical grains and grasses. Genetics (2003) 2.40
Functional rice centromeres are marked by a satellite repeat and a centromere-specific retrotransposon. Plant Cell (2002) 2.40
Molecular biology of the 3beta-hydroxysteroid dehydrogenase/delta5-delta4 isomerase gene family. Endocr Rev (2005) 2.31
Gene amplification confers glyphosate resistance in Amaranthus palmeri. Proc Natl Acad Sci U S A (2009) 2.23
A gradual process of recombination restriction in the evolutionary history of the sex chromosomes in dioecious plants. PLoS Biol (2004) 2.20
A global assembly of cotton ESTs. Genome Res (2006) 2.18
Toward sequencing cotton (Gossypium) genomes. Plant Physiol (2007) 2.16
Genetic, physical, and informatics resources for maize. On the road to an integrated map. Plant Physiol (2002) 2.13
Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia. Nature (2007) 2.12
Rates and patterns of molecular evolution in inbred and outbred Arabidopsis. Mol Biol Evol (2002) 2.08
Chromatin immunoprecipitation reveals that the 180-bp satellite repeat is the key functional DNA element of Arabidopsis thaliana centromeres. Genetics (2003) 2.05
Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses. Proc Natl Acad Sci U S A (2005) 2.01
Comparative analysis between homoeologous genome segments of Brassica napus and its progenitor species reveals extensive sequence-level divergence. Plant Cell (2009) 2.01
Copy number variation of multiple genes at Rhg1 mediates nematode resistance in soybean. Science (2012) 2.01
Maize centromeres: organization and functional adaptation in the genetic background of oat. Plant Cell (2004) 2.01
Angiosperm genome comparisons reveal early polyploidy in the monocot lineage. Proc Natl Acad Sci U S A (2009) 1.94
Integration of Cot analysis, DNA cloning, and high-throughput sequencing facilitates genome characterization and gene discovery. Genome Res (2002) 1.94
Chromosome evolution in eukaryotes: a multi-kingdom perspective. Trends Genet (2005) 1.93
Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres. Genetics (2003) 1.92
Many or most genes in Arabidopsis transposed after the origin of the order Brassicales. Genome Res (2008) 1.90
PGDD: a database of gene and genome duplication in plants. Nucleic Acids Res (2012) 1.90
Evolutionary strata on the X chromosomes of the dioecious plant Silene latifolia: evidence from new sex-linked genes. Genetics (2007) 1.88
Buffering of crucial functions by paleologous duplicated genes may contribute cyclicality to angiosperm genome duplication. Proc Natl Acad Sci U S A (2006) 1.87
High-resolution mapping of epigenetic modifications of the rice genome uncovers interplay between DNA methylation, histone methylation, and gene expression. Plant Cell (2008) 1.85
Meta-analysis of polyploid cotton QTL shows unequal contributions of subgenomes to a complex network of genes and gene clusters implicated in lint fiber development. Genetics (2007) 1.84
Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia. Biol Direct (2008) 1.78
The evolution of restricted recombination in sex chromosomes. Trends Ecol Evol (2008) 1.73
The repetitive landscape of the chicken genome. Genome Res (2004) 1.72
Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons. PLoS Genet (2009) 1.71
QUBIC: a qualitative biclustering algorithm for analyses of gene expression data. Nucleic Acids Res (2009) 1.69
Preservation of the Y transcriptome in a 10-million-year-old plant sex chromosome system. Curr Biol (2011) 1.69
Subdivision and haplotype structure in natural populations of Arabidopsis lyrata. Mol Ecol (2003) 1.68
High nucleotide polymorphism and rapid decay of linkage disequilibrium in wild populations of Caenorhabditis remanei. Genetics (2006) 1.66
Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species. Proc Natl Acad Sci U S A (2005) 1.64
Patterns of polymorphism and demographic history in natural populations of Arabidopsis lyrata. PLoS One (2008) 1.63
Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: new functional implications for MITEs. Genome Res (2008) 1.63
Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis reveals amino acid fermentation as a source of carbon and energy. Proc Natl Acad Sci U S A (2004) 1.62
Impact of mating systems on patterns of sequence polymorphism in flowering plants. Proc Biol Sci (2006) 1.62
Isolation of novel bacteria, including a candidate division, from geothermal soils in New Zealand. Environ Microbiol (2008) 1.61
Genome of the long-living sacred lotus (Nelumbo nucifera Gaertn.). Genome Biol (2013) 1.59