Published in Proc Natl Acad Sci U S A on May 09, 2007
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Phylogenetic analysis of a spontaneous cocoa bean fermentation metagenome reveals new insights into its bacterial and fungal community diversity. PLoS One (2012) 0.88
Glycerol-3-phosphate acyltransferases gat1p and gat2p are microsomal phosphoproteins with differential contributions to polarized cell growth. Eukaryot Cell (2009) 0.88
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Widespread recurrent evolution of genomic features. Genome Biol Evol (2012) 0.87
Amino acid signaling in yeast: post-genome duplication divergence of the Stp1 and Stp2 transcription factors. J Biol Chem (2009) 0.86
Genetic, genomic, and molecular tools for studying the protoploid yeast, L. waltii. Yeast (2010) 0.86
Elaboration, diversification and regulation of the Sir1 family of silencing proteins in Saccharomyces. Genetics (2009) 0.85
Activation of an essential calcium signaling pathway in Saccharomyces cerevisiae by Kch1 and Kch2, putative low-affinity potassium transporters. Eukaryot Cell (2012) 0.84
Phylogeny of the SNARE vesicle fusion machinery yields insights into the conservation of the secretory pathway in fungi. BMC Evol Biol (2009) 0.84
Systematic discovery of unannotated genes in 11 yeast species using a database of orthologous genomic segments. BMC Genomics (2011) 0.84
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Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus. Genome Res (2016) 0.83
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Comparative gene expression between two yeast species. BMC Genomics (2013) 0.82
Rapid reorganization of the transcriptional regulatory network after genome duplication in yeast. Proc Biol Sci (2009) 0.81
Phylogenetic and preliminary phenotypic analysis of yeast PAQR receptors: potential antifungal targets. J Mol Evol (2011) 0.81
Intron evolution in Saccharomycetaceae. Genome Biol Evol (2014) 0.80
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Genomes of Ashbya fungi isolated from insects reveal four mating-type loci, numerous translocations, lack of transposons, and distinct gene duplications. G3 (Bethesda) (2013) 0.80
Genome-Wide Gene/Genome Dosage Imbalance Regulates Gene Expressions in Synthetic Brassica napus and Derivatives (AC, AAC, CCA, CCAA). Front Plant Sci (2016) 0.79
Clade- and species-specific features of genome evolution in the Saccharomycetaceae. FEMS Yeast Res (2015) 0.78
Phylogenomics: gene duplication, unrecognized paralogy and outgroup choice. PLoS One (2009) 0.78
Evolutionary mobility of the ribosomal DNA array in yeasts. Genome Biol Evol (2013) 0.78
Comparative analysis of chromosome counts infers three paleopolyploidies in the mollusca. Genome Biol Evol (2011) 0.78
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Differential selection on gene translation efficiency between the filamentous fungus Ashbya gossypii and yeasts. BMC Evol Biol (2008) 0.77
Ancient gene duplication provided a key molecular step for anaerobic growth of Baker's yeast. Mol Biol Evol (2011) 0.76
Differences in the number of intrinsically disordered regions between yeast duplicated proteins, and their relationship with functional divergence. PLoS One (2011) 0.76
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Characterizing gene family evolution. Biol Proced Online (2008) 0.75
Early stages of functional diversification in the Rab GTPase gene family revealed by genomic and localization studies in Paramecium species. Mol Biol Cell (2017) 0.75
Ongoing resolution of duplicate gene functions shapes the diversification of a metabolic network. Elife (2016) 0.75
The Pivotal Role of Protein Phosphorylation in the Control of Yeast Central Metabolism. G3 (Bethesda) (2017) 0.75
A Recent Whole-Genome Duplication Divides Populations of a Globally Distributed Microsporidian. Mol Biol Evol (2016) 0.75
The Zygosaccharomyces bailii transcription factor Haa1 is required for acetic acid and copper stress responses suggesting subfunctionalization of the ancestral bifunctional protein Haa1/Cup2. BMC Genomics (2017) 0.75
Phylogenomic evolutionary surveys of subtilase superfamily genes in fungi. Sci Rep (2017) 0.75
Recent advances in understanding the roles of whole genome duplications in evolution. F1000Res (2017) 0.75
Comparative Analysis of Transcriptomes in Rhizophoraceae Provides Insights into the Origin and Adaptive Evolution of Mangrove Plants in Intertidal Environments. Front Plant Sci (2017) 0.75
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Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science (2003) 16.49
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Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics. Proc Natl Acad Sci U S A (2004) 6.66
The Ashbya gossypii genome as a tool for mapping the ancient Saccharomyces cerevisiae genome. Science (2004) 6.25
The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res (2005) 5.87
Modeling gene and genome duplications in eukaryotes. Proc Natl Acad Sci U S A (2005) 5.00
Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts. Nature (2006) 3.39
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SMURF: Genomic mapping of fungal secondary metabolite clusters. Fungal Genet Biol (2010) 3.95
The distribution of fitness effects of new deleterious amino acid mutations in humans. Genetics (2006) 3.63
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The louse-borne human pathogen Bartonella quintana is a genomic derivative of the zoonotic agent Bartonella henselae. Proc Natl Acad Sci U S A (2004) 2.61
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Functional partitioning of yeast co-expression networks after genome duplication. PLoS Biol (2006) 1.92
Evolution of the MAT locus and its Ho endonuclease in yeast species. Proc Natl Acad Sci U S A (2004) 1.90
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Divergence of spatial gene expression profiles following species-specific gene duplications in human and mouse. Genome Res (2004) 1.88
Birth of a metabolic gene cluster in yeast by adaptive gene relocation. Nat Genet (2005) 1.86
Clusters of co-expressed genes in mammalian genomes are conserved by natural selection. Mol Biol Evol (2004) 1.86
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Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics. Proc Natl Acad Sci U S A (2009) 1.79
Computational inference of scenarios for alpha-proteobacterial genome evolution. Proc Natl Acad Sci U S A (2004) 1.77
Increased glycolytic flux as an outcome of whole-genome duplication in yeast. Mol Syst Biol (2007) 1.76
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The relative importance of innate immune priming in Wolbachia-mediated dengue interference. PLoS Pathog (2012) 1.71
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Evidence for horizontal transfer of a secondary metabolite gene cluster between fungi. Genome Biol (2008) 1.59
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Evidence from comparative genomics for a complete sexual cycle in the 'asexual' pathogenic yeast Candida glabrata. Genome Biol (2003) 1.52
Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser. Nucleic Acids Res (2006) 1.49
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A genome sequence survey shows that the pathogenic yeast Candida parapsilosis has a defective MTLa1 allele at its mating type locus. Eukaryot Cell (2005) 1.30
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Quantifying the variation in the effective population size within a genome. Genetics (2011) 1.23
Evolutionary erosion of yeast sex chromosomes by mating-type switching accidents. Proc Natl Acad Sci U S A (2011) 1.23
Two-phase resolution of polyploidy in the Arabidopsis metabolic network gives rise to relative and absolute dosage constraints. Plant Cell (2011) 1.22
Parallel evolution of the make-accumulate-consume strategy in Saccharomyces and Dekkera yeasts. Nat Commun (2011) 1.21
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Increased locomotor activity and metabolism of Aedes aegypti infected with a life-shortening strain of Wolbachia pipientis. J Exp Biol (2009) 1.17
Wrapping up BLAST and other applications for use on Unix clusters. Bioinformatics (2003) 1.17
Complete chloroplast genome sequence of a major allogamous forage species, perennial ryegrass (Lolium perenne L.). DNA Res (2009) 1.16
Comparative genome analysis and gene finding in Candida species using CGOB. Mol Biol Evol (2013) 1.16
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Preferential subfunctionalization of slow-evolving genes after allopolyploidization in Xenopus laevis. Proc Natl Acad Sci U S A (2008) 1.13
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Complete DNA sequences of the mitochondrial genomes of the pathogenic yeasts Candida orthopsilosis and Candida metapsilosis: insight into the evolution of linear DNA genomes from mitochondrial telomere mutants. Nucleic Acids Res (2006) 1.11
Genome survey sequencing of the wine spoilage yeast Dekkera (Brettanomyces) bruxellensis. Eukaryot Cell (2007) 1.11
Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons. Mol Biol Evol (2005) 1.09
Mechanisms of chromosome number evolution in yeast. PLoS Genet (2011) 1.09
Evolutionary capture of viral and plasmid DNA by yeast nuclear chromosomes. Eukaryot Cell (2009) 1.08
Diversifying selection and concerted evolution of a type IV secretion system in Bartonella. Mol Biol Evol (2007) 1.08
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The 2R hypothesis and the human genome sequence. J Struct Funct Genomics (2003) 0.93
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Infection with a Virulent Strain of Wolbachia Disrupts Genome Wide-Patterns of Cytosine Methylation in the Mosquito Aedes aegypti. PLoS One (2013) 0.89
Tandem repeat markers as novel diagnostic tools for high resolution fingerprinting of Wolbachia. BMC Microbiol (2012) 0.89
A simple protocol to obtain highly pure Wolbachia endosymbiont DNA for genome sequencing. J Microbiol Methods (2010) 0.88
Massively parallel sequencing and analysis of expressed sequence tags in a successful invasive plant. Ann Bot (2010) 0.87
Selection pressure-driven evolution of the Epstein-Barr virus-encoded oncogene LMP1 in virus isolates from Southeast Asia. J Virol (2004) 0.86
Influence of the virus LbFV and of Wolbachia in a host-parasitoid interaction. PLoS One (2012) 0.85
Elaboration, diversification and regulation of the Sir1 family of silencing proteins in Saccharomyces. Genetics (2009) 0.85
Watching the grin fade: tracing the effects of polyploidy on different evolutionary time scales. Semin Cell Dev Biol (2013) 0.84
Polyploidy and the evolution of complex traits. Int J Evol Biol (2012) 0.84
Systematic discovery of unannotated genes in 11 yeast species using a database of orthologous genomic segments. BMC Genomics (2011) 0.84
Nonrandom survival of gene conversions among yeast ribosomal proteins duplicated through genome doubling. Genome Biol Evol (2010) 0.83