This image shows a "landscape" carved into a 40-year old pottery mug made by the corresponding author's father. It is reminiscent of the metaphor of adaptive landscapes used to derive intuition about how populations evolve. We examined a series of strains with beneficial mutations affecting the expression of a metabolic pathway under selection. By developing a mathematical model based upon enzyme catalysis and costs of expression – parameterized to single mutants – we could predict the often antagonistic effects of combining beneficial mutations that were individually beneficial. See Chou et al.
Image Credit: Christopher J. Marx
Perspectives
The Same but Different: Worms Reveal the Pervasiveness of Developmental System Drift
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004150
Related Articles
Fifteen Years Later: Hard and Soft Selection Sweeps Confirm a Large Population Number for HIV In Vivo
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004179
Related Articles
Research Articles
X Chromosome Control of Meiotic Chromosome Synapsis in Mouse Inter-Subspecific Hybrids
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004088
Canine Hereditary Ataxia in Old English Sheepdogs and Gordon Setters Is Associated with a Defect in the Autophagy Gene Encoding RAB24
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1003991
Serine- and Threonine/Valine-Dependent Activation of PDK and Tor Orthologs Converge on Sch9 to Promote Aging
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004113
Transmission Distortion Affecting Human Noncrossover but Not Crossover Recombination: A Hidden Source of Meiotic Drive
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004106
The Genome of Spironucleus salmonicida Highlights a Fish Pathogen Adapted to Fluctuating Environments
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004053
The Streamlined Genome of Phytomonas spp. Relative to Human Pathogenic Kinetoplastids Reveals a Parasite Tailored for Plants
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004007
Distinct DNA Binding Sites Contribute to the TCF Transcriptional Switch in C. elegans and Drosophila
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004133
Chromosome X-Wide Association Study Identifies Loci for Fasting Insulin and Height and Evidence for Incomplete Dosage Compensation
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004127
Coherent Functional Modules Improve Transcription Factor Target Identification, Cooperativity Prediction, and Disease Association
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004122
Sex-Specific Embryonic Gene Expression in Species with Newly Evolved Sex Chromosomes
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004159
Comparative RNAi Screens in C. elegans and C. briggsae Reveal the Impact of Developmental System Drift on Gene Function
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004077
Related Articles
Euchromatic Transposon Insertions Trigger Production of Novel Pi- and Endo-siRNAs at the Target Sites in the Drosophila Germline
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004138
NSUN4 Is a Dual Function Mitochondrial Protein Required for Both Methylation of 12S rRNA and Coordination of Mitoribosomal Assembly
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004110
DAF-16/FoxO Directly Regulates an Atypical AMP-Activated Protein Kinase Gamma Isoform to Mediate the Effects of Insulin/IGF-1 Signaling on Aging in Caenorhabditis elegans
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004109
DNA Sequence Explains Seemingly Disordered Methylation Levels in Partially Methylated Domains of Mammalian Genomes
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004143
Mutation of SLC35D3 Causes Metabolic Syndrome by Impairing Dopamine Signaling in Striatal D1 Neurons
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004124
Molecular Identification of Collagen 17a1 as a Major Genetic Modifier of Laminin Gamma 2 Mutation-Induced Junctional Epidermolysis Bullosa in Mice
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004068
Zfp322a Regulates Mouse ES Cell Pluripotency and Enhances Reprogramming Efficiency
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004038
Fine-Mapping the HOXB Region Detects Common Variants Tagging a Rare Coding Allele: Evidence for Synthetic Association in Prostate Cancer
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004129
Oxidative Stress Is Not a Major Contributor to Somatic Mitochondrial DNA Mutations
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1003974
Related Articles
Uncoupling of Molecular Maturation from Peripheral Target Innervation in Nociceptors Expressing a Chimeric TrkA/TrkC Receptor
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004081
Accurate and Robust Genomic Prediction of Celiac Disease Using Statistical Learning
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004137
Related Articles
Transcriptomics and Functional Genomics of ROS-Induced Cell Death Regulation by RADICAL-INDUCED CELL DEATH1
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004112
Integrated Genomic Characterization Reveals Novel, Therapeutically Relevant Drug Targets in FGFR and EGFR Pathways in Sporadic Intrahepatic Cholangiocarcinoma
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004135
Ddc2 Mediates Mec1 Activation through a Ddc1- or Dpb11-Independent Mechanism
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004136
A Cohesin-Independent Role for NIPBL at Promoters Provides Insights in CdLS
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004153
Insights into the Dekkera bruxellensis Genomic Landscape: Comparative Genomics Reveals Variations in Ploidy and Nutrient Utilisation Potential amongst Wine Isolates
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004161
Mechanistically Distinct Mouse Models for CRX-Associated Retinopathy
PLOS Genetics: published February 6, 2014 | https://doi.org/10.1371/journal.pgen.1004111
A Long-Chain Flavodoxin Protects Pseudomonas aeruginosa from Oxidative Stress and Host Bacterial Clearance
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004163
The Centriolar Satellite Protein AZI1 Interacts with BBS4 and Regulates Ciliary Trafficking of the BBSome
PLOS Genetics: published February 13, 2014 | https://doi.org/10.1371/journal.pgen.1004083
Arf4 Is Required for Mammalian Development but Dispensable for Ciliary Assembly
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004170
Loss of Trabid, a New Negative Regulator of the Drosophila Immune-Deficiency Pathway at the Level of TAK1, Reduces Life Span
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004117
Molecular Evidence for the Inverse Comorbidity between Central Nervous System Disorders and Cancers Detected by Transcriptomic Meta-analyses
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004173
Genomic Networks of Hybrid Sterility
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004162
Natural Polymorphisms in Tap2 Influence Negative Selection and CD4∶CD8 Lineage Commitment in the Rat
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004151
Genome-Wide Association Study of Metabolic Traits Reveals Novel Gene-Metabolite-Disease Links
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004132
Distinct Requirements for Cranial Ectoderm and Mesenchyme-Derived Wnts in Specification and Differentiation of Osteoblast and Dermal Progenitors
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004152
Quantitative Genome-Wide Genetic Interaction Screens Reveal Global Epistatic Relationships of Protein Complexes in Escherichia coli
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004120
Extreme Population Differences in the Human Zinc Transporter ZIP4 (SLC39A4) Are Explained by Positive Selection in Sub-Saharan Africa
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004128
Chk2 and P53 Regulate the Transmission of Healed Chromosomes in the Drosophila Male Germline
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004130
Targeted Ablation of Nesprin 1 and Nesprin 2 from Murine Myocardium Results in Cardiomyopathy, Altered Nuclear Morphology and Inhibition of the Biomechanical Gene Response
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004114
Analysis of Meiosis in SUN1 Deficient Mice Reveals a Distinct Role of SUN2 in Mammalian Meiotic LINC Complex Formation and Function
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004099
Serine Carboxypeptidase SCPEP1 and Cathepsin A Play Complementary Roles in Regulation of Vasoconstriction via Inactivation of Endothelin-1
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004146
Negative Feedback and Transcriptional Overshooting in a Regulatory Network for Horizontal Gene Transfer
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004171
The Caenorhabditis elegans Iodotyrosine Deiodinase Ortholog SUP-18 Functions through a Conserved Channel SC-Box to Regulate the Muscle Two-Pore Domain Potassium Channel SUP-9
PLOS Genetics: published February 20, 2014 | https://doi.org/10.1371/journal.pgen.1004175
Mapping the Fitness Landscape of Gene Expression Uncovers the Cause of Antagonism and Sign Epistasis between Adaptive Mutations
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004149
A Variant in the Neuropeptide Receptor npr-1 is a Major Determinant of Caenorhabditis elegans Growth and Physiology
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004156
Related Articles
Chromosome I Controls Chromosome II Replication in Vibrio cholerae
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004184
DAAM Is Required for Thin Filament Formation and Sarcomerogenesis during Muscle Development in Drosophila
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004166
Classic Selective Sweeps Revealed by Massive Sequencing in Cattle
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004148
High-Resolution Profiling of Stationary-Phase Survival Reveals Yeast Longevity Factors and Their Genetic Interactions
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004168
Cascades of Genetic Instability Resulting from Compromised Break-Induced Replication
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004119
Within-Host Spatiotemporal Dynamics of Plant Virus Infection at the Cellular Level
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004186
Selective Disruption of Aurora C Kinase Reveals Distinct Functions from Aurora B Kinase during Meiosis in Mouse Oocytes
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004194
MicroRNAs Located in the Hox Gene Clusters Are Implicated in Huntington's Disease Pathogenesis
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004188
Insertional Mutagenesis and Deep Profiling Reveals Gene Hierarchies and a Myc/p53-Dependent Bottleneck in Lymphomagenesis
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004167
Convergence of Light and ABA Signaling on the ABI5 Promoter
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004197
Influenza Virus Drug Resistance: A Time-Sampled Population Genetics Perspective
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004185
miR-100 Induces Epithelial-Mesenchymal Transition but Suppresses Tumorigenesis, Migration and Invasion
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004177
Mammalian E-type Cyclins Control Chromosome Pairing, Telomere Stability and CDK2 Localization in Male Meiosis
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004165
Related Articles
MicroRNA-133 Inhibits Behavioral Aggregation by Controlling Dopamine Synthesis in Locusts
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004206
Transcriptome-Wide Analyses of 5′-Ends in RNase J Mutants of a Gram-Positive Pathogen Reveal a Role in RNA Maturation, Regulation and Degradation
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004207
CEP-1, the Caenorhabditis elegans p53 Homolog, Mediates Opposing Longevity Outcomes in Mitochondrial Electron Transport Chain Mutants
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004097
Plasma Cholesterol–Induced Lesion Networks Activated before Regression of Early, Mature, and Advanced Atherosclerosis
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004201
Identification of Novel Genetic Loci Associated with Thyroid Peroxidase Antibodies and Clinical Thyroid Disease
PLOS Genetics: published February 27, 2014 | https://doi.org/10.1371/journal.pgen.1004123