OOIR: Observatory of International Research

Papers

(The median citation count of Journal of Molecular Evolution is 1. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-02-01 to 2025-02-01.)

Article	Citations
Origin of Sex-Biased Mental Disorders: Do Males and Females Experience Different Selective Regimes?	64
Consequences of Genetic Recombination on Protein Folding Stability	58
Modified Metabolism and Response to UV Radiation: Gene Expression Variations Along an Elevational Gradient in the Asiatic Toad (Bufo gargarizans)	52
Phylogenetic and Ancestral Sequence Reconstruction of SARS-CoV-2 Reveals Latent Capacity to Bind Human ACE2 Receptor	35
Best Practices in Microbial Experimental Evolution	21
2022 Zuckerkandl Prize	19
Adaptive Selection in the Evolution of Aquaglyceroporins in Mammals	16
Translation Comes First: Ancient and Convergent Selection of Codon Usage Bias Across Prokaryotic Genomes	16
Functional or Vestigial? The Genomics of the Pineal Gland in Xenarthra	15
Multiple Ecological Axes Drive Molecular Evolution of Cone Opsins in Beloniform Fishes	14
A Thermodynamic Model for Water Activity and Redox Potential in Evolution and Development	13
Genetic Diversity and Population Structure of Sorghum (Sorghum bicolor (L.) Moench) Landraces Using DArTseq-Derived Single-Nucleotide Polymorphism (SNP) Markers	13
Frustration can Limit the Adaptation of Promiscuous Enzymes Through Gene Duplication and Specialisation	13
Exploring Flexibility and Folding Patterns Throughout Time in Voltage Sensors	12
Molecular Evolution of Malacostracan Short Wavelength Sensitive Opsins	12
Variables Influencing Differences in Sequence Conservation in the Fission Yeast Schizosaccharomyces pombe	12
Functional Diversification and the Plant Secondary Cell Wall	12
Molecular Evolution and Local Root Heterogeneous Expression of the Chenopodium quinoa ARF Genes Provide Insights into the Adaptive Domestication of Crops in Complex Environments	11
Evolution of the N-Terminal Regulation of Cardiac Troponin I for Heart Function of Tetrapods: Lungfish Presents an Example of the Emergence of Novel Submolecular Structure to Lead the Capacity of Adap	10
Nucleobases in Meteorites to Nucleobases in RNA and DNA?	10
Extreme Sensitivity of Fitness to Environmental Conditions: Lessons from #1BigBatch	9
Context-Dependent Substitution Dynamics in Plastid DNA Across a Wide Range of Taxonomic Groups	9
A Genomic Conceptualization of Species	9
Prebiotic N-(2-Aminoethyl)-Glycine (AEG)-Assisted Synthesis of Proto-RNA?	8
Red-on-Yellow Queen: Bio-Layer Interferometry Reveals Functional Diversity Within Micrurus Venoms and Toxin Resistance in Prey Species	8

Long-Term Adaptation to Galactose as a Sole Carbon Source Selects for Mutations Outside the Canonical GAL Pathway	8
GC Content Across Insect Genomes: Phylogenetic Patterns, Causes and Consequences	7
Unveiling the Genomic Symphony: Identification Cultivar-Specific Genes and Enhanced Insights on Sweet Sorghum Genomes Through Comprehensive superTranscriptomic Analysis	7
Extant Sequence Reconstruction: The Accuracy of Ancestral Sequence Reconstructions Evaluated by Extant Sequence Cross-Validation	7
Untangling Zebrafish Genetic Annotation: Addressing Complexities and Nomenclature Issues in Orthologous Evaluation of TCOF1 and NOLC1	7
Correction: Analysis of Cancer-Resisting Evolutionary Adaptations in Wild Animals and Applications for Human Oncology	7
Best Practices in Designing, Sequencing, and Identifying Random DNA Barcodes	6
Correction: Stochastic Epigenetic Modification and Evolution of Sex Determination in Vertebrates	6
Models of Fluctuating Selection Between Generations: A Solution for the Theoretical Inconsistency	6
PAReTT: A Python Package for the Automated Retrieval and Management of Divergence Time Data from the TimeTree Resource for Downstream Analyses	6
Informatic Capabilities of Translation and Its Implications for the Origins of Life	6
A New View of the Last Universal Common Ancestor	6
Biothermodynamics of Hemoglobin and Red Blood Cells: Analysis of Structure and Evolution of Hemoglobin and Red Blood Cells, Based on Molecular and Empirical Formulas, Biosynthesis Reactions, and Therm	6
Evolution and Functional Diversification of Serine Racemase Homologs in Bacteria	6
Human Riboviruses: A Comprehensive Study	6
The De Novo Emergence of Two Brain Genes in the Human Lineage Appears to be Unsupported	6
A Possible Aquatic Origin of the Thiaminase TenA of the Human Gut Symbiont Bacteroides thetaiotaomicron	5
Amino Acid Specificity of Ancestral Aminoacyl-tRNA Synthetase Prior to the Last Universal Common Ancestor Commonote commonote	5
Genome Scan for Variable Genes Involved in Environmental Adaptations of Nubian Ibex	5
Cost-Efficiency Optimization Serves as a Conserved Mechanism that Promotes Osteosarcoma in Mammals	5
Unraveling the Drivers of Tumorigenesis in the Context of Evolution: Theoretical Models and Bioinformatics Tools	5
Phylogenetic Analysis and Comparative Genomics of Brucella abortus and Brucella melitensis Strains in Egypt	5
Analysis of Programmed Cell Death-1 (PD-1) Gene Variations (re11568821 and rs41386349) in HTLV-1 Infection Using One Primer Pair and Proviral Load	5
Unusual Evolution of Cephalopod Tryptophan Indole-Lyases	5
Spectrum of Protein Location in Proteomes Captures Evolutionary Relationship Between Species	5
The Multiple Paths to Multiple Life	5
Scaling up Functional Analyses of the G Protein-Coupled Receptor Rhodopsin	4
Promiscuous Domains in Eukaryotes and HAT Proteins in FUNGI Have Followed Different Evolutionary Paths	4
A New Perspective on the Maillard Reaction and the Origin of Life	4
How Many Factors Influence Genomic GC Content Among Prokaryotes?	4
The Ancient Origins of Death Domains Support the ‘Original Sin’ Hypothesis for the Evolution of Programmed Cell Death	4
Embracing Complexity: Yeast Evolution Experiments Featuring Standing Genetic Variation	4
2023 Zuckerkandl Prize	4
Sampling Strategies for Experimentally Mapping Molecular Fitness Landscapes Using High-Throughput Methods	4
The Evolutionary Fate of Mitochondrial Aminoacyl-tRNA Synthetases in Amitochondrial Organisms	4
The Role of Selection and Migration in the Evolution of (Auto)Immunity Genes	4
The MultiFurcating Neighbor-Joining Algorithm for Reconstructing Polytomic Phylogenetic Trees	4
The Fate of Duplicated Enzymes in Prokaryotes: The Case of Isomerases	3
The Possible Role of Prion-Like Viral Protein Domains on the Emergence of Novel Viruses as SARS-CoV-2	3
Codon Usage Bias: An Endless Tale	3
Molecular Evolution of Aryl Hydrocarbon Receptor Signaling Pathway Genes	3
Mechanisms Underlying Host Range Variation in Flavivirus: From Empirical Knowledge to Predictive Models	3
Structural and Evolutionary Analysis of Proteins Endowed with a Nucleotidyltransferase, or Non-canonical Palm, Catalytic Domain	3
A Law of Redundancy Compounds the Problem of Cancer and Precision Medicine	3
Speciation Features of Ferdinandcohnia quinoae sp. nov to Adapt to the Plant Host	3
A Simple Evolutionary Model of Genetic Robustness After Gene Duplication	3
A Micro-evolutionary Change in Target Binding Sites as a Key Determinant of Ultrabithorax Function in Drosophila	3
Learning from the Codon Table: Convergent Recoding Provides Novel Understanding on the Evolution of A-to-I RNA Editing	3
Emergence of Avian coronavirus Escape Mutants Under Suboptimal Antibody Titers	3
Principles of Molecular Evolution: Concepts from Non-equilibrium Thermodynamics for the Multilevel Theory of Learning	3

Very Low Rates of Spontaneous Gene Deletions and Gene Duplications in Dictyostelium discoideum	3
The Sponge Interaction Between Circular RNA and microRNA Serves as a Fast-Evolving Mechanism That Suppresses Non-small Cell Lung Cancer (NSCLC) in Humans	3
Rapid Divergence of Key Spermatogenesis Genes in nasuta-Subgroup of Drosophila	3
Estimating the Influence of Physicochemical and Biochemical Property Indexes on Selection for Amino Acids Usage in Eukaryotic Cells	3
Stress-Induced Constraint on Expression Noise of Essential Genes in E. coli	3
Stem Region of tRNA Genes Favors Transition Substitution Towards Keto Bases in Bacteria	3
Overlaps Between CDS Regions of Protein-Coding Genes in the Human Genome: A Case Study on the NR1D1-THRA Gene Pair	2
Expansion and Functional Diversification of Long-Wavelength-Sensitive Opsin in Anabantoid Fishes	2
The Journal of Molecular Evolution Turns 50	2
2024 Zuckerkandl Prize	2
Molecular Evolution of Tooth-Related Genes Provides New Insights into Dietary Adaptations of Mammals	2
Decay of Skin-Specific Gene Modules in Pangolins	2
Context-Dependent Mutation Dynamics, Not Selection, Explains the Codon Usage Bias of Most Angiosperm Chloroplast Genes	2
Evolution of TOP1 and TOP1MT Topoisomerases in Chordata	2
Domain Architecture Based Methods for Comparative Functional Genomics Toward Therapeutic Drug Target Discovery	2
Introduction to the Special Issue on Early Evolution and the Last Common Ancestor	2
Analysis of the MCTP Amino Acid Sequence Reveals the Conservation of Putative Calcium- and Lipid-Binding Pockets Within the C2 Domains In Silico	2
Recurrent Independent Pseudogenization Events of the Sperm Fertilization Gene ZP3r in Apes and Monkeys	2
Molecular Evolution of rbcL in Orthotrichales (Bryophyta): Site Variation, Adaptive Evolution, and Coevolutionary Patterns of Amino Acid Replacements	2
Correction: Untangling the Evolution of the Receptor-Binding Motif of SARS-CoV-2	2
Selection Across the Three-Dimensional Structure of Venom Proteins from North American Scolopendromorph Centipedes	2
Reenacting the Birth of a Function: Functional Divergence of HIUases and Transthyretins as Inferred by Evolutionary and Biophysical Studies	2
Best Practices in Microbial Experimental Evolution: Using Reporters and Long-Read Sequencing to Identify Copy Number Variation in Experimental Evolution	2
FEZF2 and AIRE1: An Evolutionary Trade-off in the Elimination of Auto-reactive T Cells in the Thymus	2
Conservation of a Chromosome 8 Inversion and Exon Mutations Confirm Common Gulonolactone Oxidase Gene Evolution Among Primates, Including H. Neanderthalensis	2
Origin of the 16S Ribosomal Molecule from Ancestor tRNAs	2
Positive Selection Shapes Breast Cancer Tumor Suppressor Genes: Unveiling Insights into BRCA1, BRCA2, and MDC1 Stability	2
Evolutionary Aspects of Selenium Binding Protein (SBP)	2
Untangling the Evolution of the Receptor-Binding Motif of SARS-CoV-2	2
Evolution of the Cytokinin Dehydrogenase (CKX) Domain	2
Post-Subfunctionalization Functions of HIF-1αA and HIF-1αB in Cyprinid Fish: Fine-Tuning Mitophagy and Apoptosis Regulation Under Hypoxic Stress	2
Evolutionary Consequences of Functional and Regulatory Divergence of HD-Zip I Transcription Factors as a Source of Diversity in Protein Interaction Networks in Plants	2
The Unfinished Reconstructed Nature of the Last Universal Common Ancestor	2
dN/dS-H, a New Test to Distinguish Different Selection Modes in Protein Evolution and Cancer Evolution	1
Evolution of Transcript Abundance is Influenced by Indels in Protein Low Complexity Regions	1
Kinetic Modeling and Parameter Estimation of a Prebiotic Peptide Reaction Network	1
Main Factors Shaping Amino Acid Usage Across Evolution	1
Organophosphorus Compound Formation Through the Oxidation of Reduced Oxidation State Phosphorus Compounds on the Hadean Earth	1
Cofactors are Remnants of Life’s Origin and Early Evolution	1
Mutation Rate Variation and Other Challenges in 2-LTR Dating of Primate Endogenous Retrovirus Integrations	1
Structural and Genetic Determinants of Convergence in the Drosophila tRNA Structure–Function Map	1
Pseudogenization of the Hair-Related Genes PADI3 and S100A3 in Cetaceans and Hippopotamus amphibius	1
Collaborative Expression: Transcriptomics of Conus virgo Suggests Contribution of Multiple Secretory Glands to Venom Production	1
Evolution of Superoxide Dismutases and Catalases in Cyanobacteria: Occurrence of the Antioxidant Enzyme Genes before the Rise of Atmospheric Oxygen	1
Evolutionary Rates are Correlated Between Buchnera Endosymbionts and the Mitochondrial Genomes of Their Aphid Hosts	1
Next Generation Sequencing Revolutionizes Organismal Biology Research in Bats	1
The Origin(s) of Cell(s): Pre-Darwinian Evolution from FUCAs to LUCA	1
Sequence Divergence in Venom Genes Within and Between Montane Pitviper (Viperidae: Crotalinae: Cerrophidion) Species is Driven by Mutation–Drift Equilibrium	1
Structural Analysis of Monomeric RNA-Dependent Polymerases Revisited	1
Phenotype Design Space Provides a Mechanistic Framework Relating Molecular Parameters to Phenotype Diversity Available for Selection	1
Left–Right Reversal Recurrently Evolved Regardless of Diaphanous-Related Formin Gene Duplication or Loss in Snails	1
Diversification of von Willebrand Factor A and Chitin-Binding Domains in Pif/BMSPs Among Mollusks	1
Epistasis-Driven Evolution of the SARS-CoV-2 Secondary Structure	1
Varying Modes of Selection Among Toxin Families in the Venoms of the Giant Desert Hairy Scorpions (Hadrurus)	1
The Evolution of Hemocyanin Genes in Caenogastropoda: Gene Duplications and Intron Accumulation in Highly Diverse Gastropods	1
Origins and Functional Significance of Eukaryotic Protein Folds	1
Odorant-Binding and Chemosensory Proteins in Fig Wasps: Evolutionary Insights From Comparative Studies	1
Evidence Supporting That C-to-U RNA Editing Is the Major Force That Drives SARS-CoV-2 Evolution	1
Evolution of the Major Components of Innate Immunity in Animals	1
Exploring Structural Plastome Evolution in Asterales: Insights from Off-Target Hybrid Enrichment Data on the Small Single-Copy Region	1
Deep Conservation and Unexpected Evolutionary History of Neighboring lncRNAs MALAT1 and NEAT1	1
The Chemosensory Repertoire of the Eastern Diamondback Rattlesnake (Crotalus adamanteus) Reveals Complementary Genetics of Olfactory and Vomeronasal-Type Receptors	1
Plant Kinesin Repertoires Expand with New Domain Architecture and Contract with the Loss of Flagella	1