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Molecular evidence for an ancient duplication of the entire yeast genome

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Genomic reorganization between two sibling yeast species,Saccharomyces bayanus andSaccharomyces cerevisiae
inferredcites →https://doi.org/10.1002/yea.320050106openalex-snapshot
Cloning and analysis of the Kluyveromyces lactis TRP1 gene: A chromosomal locus flanked by genes encoding inorganic pyrophosphatase and histone H3
inferredcites →https://doi.org/10.1002/yea.320081102openalex-snapshot
Stuctural and putative regulatory sequences of Kluyveromyces ribosomal protein genes
inferredcites →https://doi.org/10.1006/jmbi.1993.1518openalex-snapshot
The Gene Clusters ARC and COR on Chromosomes 5 and 10, Respectively, of Saccharomyces cerevisiae Share a Common Ancestry
inferredcites →https://doi.org/10.1007/978-3-642-86659-3openalex-snapshot
Evolution by Gene Duplication
inferredcites →https://doi.org/10.1007/bf00277133openalex-snapshot
The consensus sequence of Kluyveromyces lactis centromeres shows homology to functional centromeric DNA from Saccharomyces cerevisiae
inferredcites →https://doi.org/10.1007/bf02111238openalex-snapshot
Molecular evolution of theSaccharomyces cerevisiae histone gene loci
inferredcites →https://doi.org/10.1016/0378-1119(94)90854-0openalex-snapshot
Isolation and functional analysis of a Kluyveromyces lactis RAP1 homologue
inferredcites →https://doi.org/10.1016/s0014-5793(96)01351-8openalex-snapshot
Vertebrate evolution by interspecific hybridisation – are we polyploid?
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1016/s0092-8674(00)81047-8openalex-snapshot
Mother Cell–Specific HO Expression in Budding Yeast Depends on the Unconventional Myosin Myo4p and Other Cytoplasmic Proteins
inferredcites →https://doi.org/10.1016/s0723-2020(11)80145-1openalex-snapshot
Phylogenetic Relationships among Ascomycetes and Ascomycete-like Yeasts as Deduced from Small Ribosomal Subunit RNA Sequences
inferredcites →https://doi.org/10.1073/pnas.39.3.171openalex-snapshot
Heterogeneity of Clones of Saccharomyces Derived from Haploid Ascospores
inferredcites →https://doi.org/10.1073/pnas.90.17.7980openalex-snapshot
Comparative linkage maps of the rice and maize genomes.
inferredcites →https://doi.org/10.1073/pnas.92.24.11009openalex-snapshot
Differential activation of yeast adenylyl cyclase by Ras1 and Ras2 depends on the conserved N terminus.
inferredcites →https://doi.org/10.1073/pnas.93.24.13780openalex-snapshot
TOR2 is required for organization of the actin cytoskeleton in yeast
inferredcites →https://doi.org/10.1098/rspb.1994.0058openalex-snapshot
The evolution of functionally novel proteins after gene duplication
inferredcites →https://doi.org/10.1101/gad.6.1.93openalex-snapshot
Parallel pathways of gene regulation: homologous regulators SWI5 and ACE2 differentially control transcription of HO and chitinase.
inferredcites →https://doi.org/10.1126/science.155.3760.279openalex-snapshot
Construction of Phylogenetic Trees
inferredcites →https://doi.org/10.1126/science.274.5287.546openalex-snapshot
Life with 6000 Genes
inferredcites →https://doi.org/10.2307/3514790openalex-snapshot
The Origins of Angiosperms and Their Biological Consequences
inferredcites →https://doi.org/10.5860/choice.26-0307openalex-snapshot
The Origins of angiosperms and their biological consequences

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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A taxogenomic view of the genus Torulaspora : an expansion from ten to twenty-two species
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Expression Profiles of Transcripts from 126 Open Reading Frames in the Entire Chromosome VI ofSaccharomyces cerevisiae by Systematic Northern Analyses
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Functional comparison of the yeastscERV1 andscERV2 genes
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Evolution of gene order and chromosome number inSaccharomyces,Kluyveromyces and related fungi
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Isolation of the Pichia pastoris PYC1 gene encoding pyruvate carboxylase and identification of a suppressor of the pyc phenotype
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Identification and characterization of the KlCMD1 gene encoding Kluyveromyces lactis calmodulin
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Co-existence of two types of chromosome in the bottom fermenting yeast,Saccharomyces pastorianus
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A highly conserved intraspecies homolog of the Saccharomyces cerevisiae elongation factor-3 encoded by the HEF3 gene
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Inter- and intraspecific chromosome pattern variation in the yeast genusKluyveromyces
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Expanding yeast knowledge online
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Systematic identification, classification, and characterization of the open reading frames which encode novel helicase-related proteins inSaccharomyces cerevisiae by gene disruption and Northern analysis
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Regulated expression of theSaccharomyces cerevisiae Fre1p/Fre2p Fe/Cu reductase related genes
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Disruption of six Saccharomyces cerevisiae novel genes and phenotypic analysis of the deletants
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Disruption and phenotypic analysis of six novel genes from chromosome IV of Saccharomyces cerevisiae reveal YDL060w as an essential gene for vegetative growth
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Systematic analysis of S. cerevisiae chromosome VIII genes
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Two-dimensional gel analysis of the proteome of lager brewing yeasts
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Identification by functional analysis of the gene encoding ?-isopropylmalate synthase II (LEU9) inSaccharomyces cerevisiae
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Patterns of protein-fold usage in eight microbial genomes: A comprehensive structural census
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Vertebrate genome evolution: a slow shuffle or a big bang?
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Genome Evolution
inferred← citeshttps://doi.org/10.1002/047120918x.emb1402openalex-snapshot
Sequence Analysis
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References
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References
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Protein disulphide isomerase genes ofKluyveromyces lactis
inferred← citeshttps://doi.org/10.1002/1097-0061(20000315)16:4<343::aid-yea534>3.0.co;2-fopenalex-snapshot
The ubiquitin-encoding genes ofKluyveromyces lactis
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Mitotic recombination in yeast: elements controlling its incidence
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Isolation of Pichia pastoris genes involved in ER‐to‐Golgi transport
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The Dual Origin of the Yeast Mitochondrial Proteome
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Organization of specific genomic regions of Zygosaccharomyces rouxii and Pichia sorbitophila: comparison with Saccharomyces cerevisiae
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Protein Repertoire, Evolution of
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Genome Evolution in Yeasts
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Gene Copy‐Number Changes in Evolution
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Eukaryotic Genomes: Fungi
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Single‐Gene and Whole‐Genome Duplications and the Evolution of Protein–Protein Interaction Networks
inferred← citeshttps://doi.org/10.1002/9780470570418.ch6openalex-snapshot
Evolutionary Genomics of Yeasts
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Evolutionary and Functional Aspects of Genetic Redundancy
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Functional Divergence of Duplicated Genes
inferred← citeshttps://doi.org/10.1002/9780470619902.ch3openalex-snapshot
Duplicate Retention After Small‐ and Large‐Scale Duplications
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Myths and Realities of Gene Duplication
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Statistical Methods for Detecting Functional Divergence of Gene Families
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Brewing Yeast and Fermentation
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Featured Organism: Schizosaccharomyces pombe, the fission yeast
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European functional analysis network (EUROFAN) and the functional analysis of the Saccharomyces cerevisiae genome (minireview)
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RNA processing and degradation mechanisms shaping the mitochondrial transcriptome of budding yeasts
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Effect of Growth Media and Strains on Structural Stability in Small Chromosomes (Chromosome I, VI and III) of Bottom-Fermenting Yeast
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Rapid evolution in a pair of recent duplicate segments of rice
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Supplementation of Aspergillus glaucus with gfdB gene encoding a glycerol 3‐phosphate dehydrogenase in Aspergillus nidulans
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Diversification of the kinetic properties of yeast NADP‐glutamate‐dehydrogenase isozymes proceeds independently of their evolutionary origin
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Biochemie und Molekulargenetik 1397
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Interaction networks: Lessons from large‐scale studies in yeast
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Conserved Functions of LARP1 Proteins in Eukaryotes
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A DNA region of Torulaspora delbrueckii containing the HIS3 gene: sequence, gene order and evolution
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Characterization of a gene similar to BIK1 in the yeast Kluyveromyces lactis
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Screening the yeast deletant mutant collection for hypersensitivity and hyper‐resistance to sorbate, a weak organic acid food preservative
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Dissection of the molecular basis of mycophenolate resistance in Saccharomyces cerevisiae
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Basic methods for fission yeast
inferred← citeshttps://doi.org/10.1002/yea.1376openalex-snapshot
The yeast potassium transporter TRK2 is able to substitute for TRK1 in its biological function under low K and low pH conditions
inferred← citeshttps://doi.org/10.1002/yea.1430openalex-snapshot
Factors involved in anaerobic growth of Saccharomyces cerevisiae
inferred← citeshttps://doi.org/10.1002/yea.1497openalex-snapshot
Genetic side effects accompanying gene targeting in yeast: the influence of short heterologous termini
inferred← citeshttps://doi.org/10.1002/yea.1515openalex-snapshot
Yeast genome evolution—the origin of the species
inferred← citeshttps://doi.org/10.1002/yea.1598openalex-snapshot
Recent allopolyploid origin of Zygosaccharomyces rouxii strain ATCC 42981
inferred← citeshttps://doi.org/10.1002/yea.1670openalex-snapshot
The Hsp90/Cdc37p chaperone system is a determinant of molybdate resistance in Saccharomyces cerevisiae
inferred← citeshttps://doi.org/10.1002/yea.2940openalex-snapshot
The Saccharomyces cerevisiae enolase‐related regions encode proteins that are active enolases
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Yeast on the milky way: genetics, physiology and biotechnology of Kluyveromyces lactis
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Insights into molecular evolution from yeast genomics
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Saccharomyces pastorianus: genomic insights inspiring innovation for industry
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Cell factory applications of the yeast Kluyveromyces marxianus for the biotechnological production of natural flavour and fragrance molecules
inferred← citeshttps://doi.org/10.1002/yea.3157openalex-snapshot
Maltase protein of Ogataea (Hansenula) polymorpha is a counterpart to the resurrected ancestor protein ancMALS of yeast maltases and isomaltases
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A Trichosporonales genome tree based on 27 haploid and three evolutionarily conserved ‘natural’ hybrid genomes
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André Goffeau's imprinting on second generation yeast “genomologists”
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Glutamate dehydrogenases in the oleaginous yeast Yarrowia lipolytica
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Characterization and optimization of the LAC4 upstream region for low‐leakage expression in Kluyveromyces marxianus
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Saccharomyces yeast hybrids on the rise
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The evolution of anaerobic growth in Saccharomycotina yeasts
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Genetic Tools in the Nakaseomyces clade for Evolutionary Comparisons of Signal Transduction Pathways
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How many protein‐coding genes are there in the Saccharomyces cerevisiae genome?
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Molecular characterization of Saccharomyces cerevisiae Sco2p reveals a high degree of redundancy with Sco1p
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Molecular cloning and DNA analysis of a gene encoding α mating pheromone from the yeast Saccharomyces naganishii
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Genetics and Molecular Physiology of the Yeast Kluyveromyces lactis
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A structural census of genomes: comparing bacterial, eukaryotic, and archaeal genomes in terms of protein structure
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The spacing between binding sites controls the mode of cooperative DNA-protein interactions: implications for evolution of regulatory circuitry 1 1Edited by M. Gottesman
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Yeast chromosomes have been significantly reshaped during their evolutionary history
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Evolution of the rab family of small GTP-binding proteins
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Variations of the Mononucleotide and Short Oligonucleotide Distributions in the Genomes of Various Organisms
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Is there Replication-associated Mutational Pressure in the Saccharomyces cerevisiae Genome?
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Polyploidy
inferred← citeshttps://doi.org/10.1006/scdb.1999.0332openalex-snapshot
Gene duplication and the uniqueness of vertebrate genomes circa 1970–1999
inferred← citeshttps://doi.org/10.1006/scdb.1999.0333openalex-snapshot
Gene duplications in early metazoan evolution
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Gene function, gene networks and the fate of duplicated genes
inferred← citeshttps://doi.org/10.1006/scdb.1999.0337openalex-snapshot
Evolutionary preservation of redundant duplicated genes
inferred← citeshttps://doi.org/10.1007/11533719_4openalex-snapshot
Gene Network: Model, Dynamics and Simulation
inferred← citeshttps://doi.org/10.1007/11554714_10openalex-snapshot
Individual Gene Cluster Statistics in Noisy Maps
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Function and Evolution of HO and VDE Endonucleases in Fungi
inferred← citeshttps://doi.org/10.1007/3-540-30809-1_11openalex-snapshot
Regulators of Candida glabrata Pathogenicity
inferred← citeshttps://doi.org/10.1007/3-540-30809-1_2openalex-snapshot
Genome Evolution in Hemiascomycete Yeasts
inferred← citeshttps://doi.org/10.1007/3-540-30985-3_4openalex-snapshot
Genomics and Biodiversity in Yeasts
inferred← citeshttps://doi.org/10.1007/3-540-30985-3_7openalex-snapshot
Diversity of Nitrogen Metabolism Among Yeast Species: Regulatory and Evolutionary Aspects
inferred← citeshttps://doi.org/10.1007/3-540-37003-x_2openalex-snapshot
Genetics and classical genetic manipulations of industrial yeasts
inferred← citeshttps://doi.org/10.1007/3-540-37003-x_6openalex-snapshot
Kluyveromyces lactis: genetics, physiology, and application
inferred← citeshttps://doi.org/10.1007/4735_111openalex-snapshot
Comparative genomics and gene finding in fungi
inferred← citeshttps://doi.org/10.1007/4735_112openalex-snapshot
Structural features of fungal genomes
inferred← citeshttps://doi.org/10.1007/4735_114openalex-snapshot
The genome of the filamentous fungus Ashbya gossypii: annotation and evolutionary implications
inferred← citeshttps://doi.org/10.1007/4735_97openalex-snapshot
Schizosaccharomyces pombe comparative genomics; from sequence to systems
inferred← citeshttps://doi.org/10.1007/978-0-387-30042-9_3openalex-snapshot
Acidulants and low pH
inferred← citeshttps://doi.org/10.1007/978-0-387-69319-4_18openalex-snapshot
Deciphering the Structures of Genomic DNA Sequences Using Recurrence Time Statistics
inferred← citeshttps://doi.org/10.1007/978-0-387-85766-4_14openalex-snapshot
Tropomyosin Function in Yeast
inferred← citeshttps://doi.org/10.1007/978-0-387-89382-2_10openalex-snapshot
Programmed Frameshifting in Budding Yeast
inferred← citeshttps://doi.org/10.1007/978-0-8176-4751-3_7openalex-snapshot
Spectral Characterization of Network Structures and Dynamics
inferred← citeshttps://doi.org/10.1007/978-1-0716-2561-3_4openalex-snapshot
POInT: Modeling Polyploidy in the Era of Ubiquitous Genomics
inferred← citeshttps://doi.org/10.1007/978-1-0716-2561-3_5openalex-snapshot
Applying Machine Learning to Classify the Origins of Gene Duplications
inferred← citeshttps://doi.org/10.1007/978-1-4419-7841-7_7openalex-snapshot
Functions of the Cytoplasmic Exosome
inferred← citeshttps://doi.org/10.1007/978-1-4419-8859-1_2openalex-snapshot
Genomics of Filamentous Fungi
inferred← citeshttps://doi.org/10.1007/978-1-4471-5298-9_11openalex-snapshot
Fractionation, Rearrangement, Consolidation, Reconstruction
inferred← citeshttps://doi.org/10.1007/978-1-4471-5304-7_8openalex-snapshot
Eukaryote Genomes
inferred← citeshttps://doi.org/10.1007/978-1-4613-0271-1_52openalex-snapshot
Classification of Linear Chromosomes
inferred← citeshttps://doi.org/10.1007/978-1-4757-6285-3openalex-snapshot
Probability Models for DNA Sequence Evolution
inferred← citeshttps://doi.org/10.1007/978-1-4939-3079-1_4openalex-snapshot
Comparative Transcriptomics in Yeasts
inferred← citeshttps://doi.org/10.1007/978-1-4939-7463-4_10openalex-snapshot
Whole Genome Duplication in Plants: Implications for Evolutionary Analysis
inferred← citeshttps://doi.org/10.1007/978-1-60327-563-7_11openalex-snapshot
Quantification of Variation in Expression Networks
inferred← citeshttps://doi.org/10.1007/978-1-61779-086-7_13openalex-snapshot
Evolutionary Aspects of a Genetic Network: Studying the Lactose/Galactose Regulon of Kluyveromyces lactis
inferred← citeshttps://doi.org/10.1007/978-1-61779-173-4_2openalex-snapshot
Saccharomyces cerevisiae: Gene Annotation and Genome Variability, State of the Art Through Comparative Genomics
inferred← citeshttps://doi.org/10.1007/978-1-62703-773-0_2openalex-snapshot
The Gene Balance Hypothesis: Dosage Effects in Plants
inferred← citeshttps://doi.org/10.1007/978-3-030-10797-0_14openalex-snapshot
Reconstruction of Ancestral Chromosomes of the Family Rosaceae
inferred← citeshttps://doi.org/10.1007/978-3-030-10837-3_10openalex-snapshot
Genome Rearrangement Problems with Single and Multiple Gene Copies: A Review
inferred← citeshttps://doi.org/10.1007/978-3-030-21110-3_8openalex-snapshot
Microtubules in Non-conventional Yeasts
inferred← citeshttps://doi.org/10.1007/978-3-030-31897-0_5openalex-snapshot
Reduction of the Saccharomyces cerevisiae Genome: Challenges and Perspectives
inferred← citeshttps://doi.org/10.1007/978-3-030-38281-0_12openalex-snapshot
Eukaryotic Pangenomes
inferred← citeshttps://doi.org/10.1007/978-3-211-75123-7_11openalex-snapshot
Modern genome annotation: the BioSapiens network
inferred← citeshttps://doi.org/10.1007/978-3-319-19932-0_10openalex-snapshot
Structure, Interaction, and Evolution: Reflections on the Natural History of Proteins
inferred← citeshttps://doi.org/10.1007/978-3-319-50409-4_23openalex-snapshot
Using Yeast to Discover Inhibitors of Multidrug Efflux in Candida albicans
inferred← citeshttps://doi.org/10.1007/978-3-319-61569-1_19openalex-snapshot
Case Studies of Seven Gene Families with Unusual High Retention Rate Since the Vertebrate and Teleost Whole-Genome Duplications
inferred← citeshttps://doi.org/10.1007/978-3-319-92642-1_9openalex-snapshot
Eukaryote Genomes
inferred← citeshttps://doi.org/10.1007/978-3-540-28398-0_3openalex-snapshot
Molecular Methods to Identify and Characterize Yeasts in Foods and Beverages
inferred← citeshttps://doi.org/10.1007/978-3-540-28398-0_6openalex-snapshot
Molecular Mechanisms Involved in the Adaptive Evolution of Industrial Yeasts
inferred← citeshttps://doi.org/10.1007/978-3-540-30217-9_58openalex-snapshot
Evolving Dynamics in an Artificial Regulatory Network Model
inferred← citeshttps://doi.org/10.1007/978-3-540-30538-5_1openalex-snapshot
Genome Halving Problem Revisited
inferred← citeshttps://doi.org/10.1007/978-3-540-32290-0_5openalex-snapshot
The Statistical Significance of Max-Gap Clusters
inferred← citeshttps://doi.org/10.1007/978-3-540-35306-5_9openalex-snapshot
Phylogenetics and Computational Biology of Multigene Families
inferred← citeshttps://doi.org/10.1007/978-3-540-48540-7_11openalex-snapshot
Improved Duplication Models for Proteome Network Evolution
inferred← citeshttps://doi.org/10.1007/978-3-540-69511-0_1openalex-snapshot
Evolutionary Biology of CD1
inferred← citeshttps://doi.org/10.1007/978-3-540-74960-8_13openalex-snapshot
Parts of the Problem of Polyploids in Rearrangement Phylogeny
inferred← citeshttps://doi.org/10.1007/978-3-540-77587-4_152openalex-snapshot
The Hydrocarbon-Degrading Oleaginous Yeast Yarrowia lipolytica
inferred← citeshttps://doi.org/10.1007/978-3-540-87989-3_3openalex-snapshot
Duplication Mechanism and Disruptions in Flanking Regions Influence the Fate of Mammalian Gene Duplicates
inferred← citeshttps://doi.org/10.1007/978-3-540-87989-3_5openalex-snapshot
Discovering Local Patterns of Co-evolution
inferred← citeshttps://doi.org/10.1007/978-3-642-12148-7_17openalex-snapshot
Evolving Genes to Balance a Pole
inferred← citeshttps://doi.org/10.1007/978-3-642-14571-1_14openalex-snapshot
Combining Replicates and Nearby Species Data: A Bayesian Approach
inferred← citeshttps://doi.org/10.1007/978-3-642-31442-1_1openalex-snapshot
Evolutionary Significance of Whole-Genome Duplication
inferred← citeshttps://doi.org/10.1007/978-3-642-31442-1_14openalex-snapshot
The Early Stages of Polyploidy: Rapid and Repeated Evolution in Tragopogon
inferred← citeshttps://doi.org/10.1007/978-3-642-31442-1_15openalex-snapshot
Yeast as a Window into Changes in Genome Complexity Due to Polyploidization
inferred← citeshttps://doi.org/10.1007/978-3-642-31442-1_16openalex-snapshot
Two Rounds of Whole-Genome Duplication: Evidence and Impact on the Evolution of Vertebrate Innovations
inferred← citeshttps://doi.org/10.1007/978-3-642-31442-1_2openalex-snapshot
Genetic Consequences of Polyploidy in Plants
inferred← citeshttps://doi.org/10.1007/978-3-642-33823-6_4openalex-snapshot
Genomics of Tuber melanosporum: New Knowledge Concerning Reproductive Biology, Symbiosis, and Aroma Production
inferred← citeshttps://doi.org/10.1007/978-3-642-41566-1_3openalex-snapshot
Subtelomeric Regions Promote Evolutionary Innovation of Gene Families in Yeast
inferred← citeshttps://doi.org/10.1007/978-3-642-45218-5_3openalex-snapshot
3 Phylogenomics for the Study of Fungal Biology
inferred← citeshttps://doi.org/10.1007/978-3-642-55013-3_5openalex-snapshot
Comparative Genomics and Evolutionary Genetics of Yeast Carbon Metabolism
inferred← citeshttps://doi.org/10.1007/978-3-642-72236-3_5openalex-snapshot
The Notion of the Cambrian Pananimalia Genome and a Genomic Difference that Separated Vertebrates from Invertebrates
inferred← citeshttps://doi.org/10.1007/978-3-662-04033-1_18openalex-snapshot
Fungal Molecular Biology
inferred← citeshttps://doi.org/10.1007/978-3-662-10360-9_2openalex-snapshot
The Genome and Beyond
inferred← citeshttps://doi.org/10.1007/978-3-662-53389-5_11openalex-snapshot
Two Paleo-Hexaploidies Underlie Formation of Modern Solanaceae Genome Structure
inferred← citeshttps://doi.org/10.1007/978-3-7091-1788-0_13openalex-snapshot
The Matrix Protein Import Complex in Yeast
inferred← citeshttps://doi.org/10.1007/978-90-481-9069-0_3openalex-snapshot
A Catalogue of Eukaryotic Transcription Factor Types, Their Evolutionary Origin, and Species Distribution
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_10openalex-snapshot
The 2R hypothesis and the human genome sequence
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_2openalex-snapshot
Major transitions in evolution by genome fusions: from prokaryotes to eukaryotes, metazoans, bilaterians and vertebrates
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_21openalex-snapshot
Approach of the functional evolution of duplicated genes in Saccharomyces cerevisiae using a new classification method based on protein-protein interaction data
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_3openalex-snapshot
Detection of gene duplications and block duplications in eukaryotic genomes
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_5openalex-snapshot
Functional evolution in the ancestral lineage of vertebrates or when genomic complexity was wagging its morphological tail
inferred← citeshttps://doi.org/10.1007/978-94-010-0263-9_6openalex-snapshot
Numerous groups of chromosomal regional paralogies strongly indicate two genome doublings at the root of the vertebrates
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