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High divergence among Drosophila simulans mitochondrial haplogroups arose in midst of long term purifying selection

https://doi.org/10.1016/j.ympev.2005.02.016
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Outgoing claims: the papers this work cites, builds on, or argues with.

inferreduses_data →https://doi.org/10.5281/zenodo.10723540zenodo-depositor-declared
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Historical Biogeography of the Drosophila melanogaster Species Subgroup
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Deleterious mutations in animal mitochondrial DNA
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Mitochondrial DNA evolution in themelanogaster species subgroup ofDrosophila
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Comparative Genomics of Mitochondrial DNA in Members of the Drosophila melanogaster Subgroup
inferredcites →https://doi.org/10.1007/s002390010067openalex-snapshot
Comparative Genomics of Mitochondrial DNA in Drosophila simulans
inferredcites →https://doi.org/10.1016/j.ympev.2004.03.013openalex-snapshot
Linking phylogenetics with population genetics to reconstruct the geographic origin of a species
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Statistical methods for detecting molecular adaptation
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Doubly duped males: the sweet and sour of the orchid's bouquet
inferredcites →https://doi.org/10.1016/s0169-5347(99)01814-5openalex-snapshot
Polymorphism of attack and defense
inferredcites →https://doi.org/10.1016/s0959-437x(02)00348-9openalex-snapshot
Inference of selection from multiple species alignments
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The hitch-hiking effect of a favourable gene
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How Two Afrotropical Endemics Made Two Cosmopolitan Human Commensals: the Drosophila Melanogaster–D. Simulans Palaeogeographic Riddle
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Mitochondrial DNA in the Drosophila Melanogaster Complex
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Rapid spread of an inherited incompatibility factor in California Drosophila
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Rescuing Wolbachia have been overlooked
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and discovered on Mount Kilimanjaro
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The Neutral Theory of Molecular Evolution
inferredcites →https://doi.org/10.1073/pnas.85.17.6414openalex-snapshot
Effects of linkage on rates of molecular evolution.
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16S rRNA phylogenetic analysis of the bacterial endosymbionts associated with cytoplasmic incompatibility in insects.
inferredcites →https://doi.org/10.1073/pnas.92.14.6389openalex-snapshot
Evolution of single and double Wolbachia symbioses during speciation in the Drosophila simulans complex.
inferredcites →https://doi.org/10.1073/pnas.96.8.4482openalex-snapshot
Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis , Drosophila , and Arabidopsis
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The Ratio of Oxidative Phosphorylation Complexes I–V in Bovine Heart Mitochondria and the Composition of Respiratory Chain Supercomplexes
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PAML: a program package for phylogenetic analysis by maximum likelihood
inferredcites →https://doi.org/10.1093/genetics/125.3.551openalex-snapshot
Is there selection on RFLP differences in mitochondrial DNA?
inferredcites →https://doi.org/10.1093/genetics/129.2.399openalex-snapshot
Geographic distribution and inheritance of three cytoplasmic incompatibility types in Drosophila simulans.
inferredcites →https://doi.org/10.1093/genetics/132.1.205openalex-snapshot
Frequencies of mitochondrial DNA haplotypes in laboratory cage populations of the mosquito, Aedes albopictus.
inferredcites →https://doi.org/10.1093/genetics/132.3.713openalex-snapshot
Dynamics of cytoplasmic incompatibility and mtDNA variation in natural Drosophila simulans populations.
inferredcites →https://doi.org/10.1093/genetics/138.3.757openalex-snapshot
Unraveling selection in the mitochondrial genome of Drosophila.
inferredcites →https://doi.org/10.1093/genetics/140.4.1307openalex-snapshot
Wolbachia infections and the expression of cytoplasmic incompatibility in Drosophila sechellia and D. mauritiana.
inferredcites →https://doi.org/10.1093/genetics/140.4.1319openalex-snapshot
Cytoplasmic incompatibility in Drosophila simulans: dynamics and parameter estimates from natural populations.
inferredcites →https://doi.org/10.1093/genetics/144.4.1519openalex-snapshot
Reduced Variation in Drosophila simulans Mitochondrial DNA
inferredcites →https://doi.org/10.1093/genetics/147.2.713openalex-snapshot
Molecular Population Genetics of Drosophila Immune System Genes
inferredcites →https://doi.org/10.1093/genetics/148.3.929openalex-snapshot
Likelihood Models for Detecting Positively Selected Amino Acid Sites and Applications to the HIV-1 Envelope Gene
inferredcites →https://doi.org/10.1093/genetics/150.2.767openalex-snapshot
The Correlation Between Synonymous and Nonsynonymous Substitutions in Drosophila: Mutation, Selection or Relaxed Constraints?
inferredcites →https://doi.org/10.1093/genetics/151.1.239openalex-snapshot
Natural Selection on Synonymous Sites Is Correlated With Gene Length and Recombination in Drosophila
inferredcites →https://doi.org/10.1093/genetics/152.2.543openalex-snapshot
Positive Selection Drives the Evolution of the Acp29AB Accessory Gland Protein in Drosophila
inferredcites →https://doi.org/10.1093/genetics/154.3.1231openalex-snapshot
Adaptive Evolution of Relish, a Drosophila NF-κB/IκB Protein
inferredcites →https://doi.org/10.1093/genetics/155.1.431openalex-snapshot
Codon-Substitution Models for Heterogeneous Selection Pressure at Amino Acid Sites
inferredcites →https://doi.org/10.1093/genetics/155.2.909openalex-snapshot
Genetic Drift in an Infinite Population: The Pseudohitchhiking Model
inferredcites →https://doi.org/10.1093/genetics/164.4.1471openalex-snapshot
Natural Selection Drives Drosophila Immune System Evolution
inferredcites →https://doi.org/10.1093/genetics/165.4.1959openalex-snapshot
Influence of Two Wolbachia Strains on Population Structure of East AfricanDrosophila simulans
inferredcites →https://doi.org/10.1093/molbev/msh028openalex-snapshot
Sequential Evolution of a Symbiont Inferred From the Host: Wolbachia and Drosophila simulans
inferredcites →https://doi.org/10.1093/nar/10.21.6619openalex-snapshot
Drosophilamitochondrial DNA: a novel gene order
inferredcites →https://doi.org/10.1093/nar/10.22.7055openalex-snapshot
Codon usage in bacteria: correlation with gene expressivity
inferredcites →https://doi.org/10.1093/nar/26.13.3188openalex-snapshot
Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli
inferredcites →https://doi.org/10.1093/nar/26.19.4540openalex-snapshot
Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cervisiae and Escherichia coli
inferredcites →https://doi.org/10.1093/oso/9780198577867.003.0002openalex-snapshot
Cytoplasmic incompatibility in insects
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a003804openalex-snapshot
Contrasting Patterns of X-Linked and Autosomal Nucleotide Variation in Drosophila melanogaster and Drosophila simulans
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a003813openalex-snapshot
Polymorphism in Abalone Fertilization Proteins Is Consistent with the Neutral Evolution of the Egg's Receptor for Lysin (VERL) and Positive Darwinian Selection of Sperm Lysin
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004201openalex-snapshot
Accounting for Background Nucleotide Composition When Measuring Codon Usage Bias
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025646openalex-snapshot
Synonymous codon bias is related to gene length in Escherichia coli: selection for translational accuracy?
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025877openalex-snapshot
Preponderance of Slightly Deleterious Polymorphism in Mitochondrial DNA: Nonsynonymous/Synonymous Rate Ratio is Much Higher Within Species than Between Species
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026236openalex-snapshot
Estimating Synonymous and Nonsynonymous Substitution Rates Under Realistic Evolutionary Models
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a026394openalex-snapshot
When One Is Not Enough: Introgression of Mitochondrial DNA in Drosophila
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040335openalex-snapshot
Codon usage and tRNA content in unicellular and multicellular organisms.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040484openalex-snapshot
High level of divergence of male-reproductive-tract proteins, between Drosophila melanogaster and its sibling species, D. simulans.
inferredcites →https://doi.org/10.1098/rspb.1996.0016openalex-snapshot
Clade selection, reversible evolution and the persistence of selfish elements: the evolutionary dynamics of cytoplasmic incompatibility
inferredcites →https://doi.org/10.1098/rspb.1998.0324openalex-snapshot
Phylogeny and PCR–based classification of Wolbachia strains using wsp gene sequences
inferredcites →https://doi.org/10.1098/rspb.2004.2709openalex-snapshot
Differential fitness of mitochondrial DNA in perturbation cage studies correlates with global abundance and population history inDrosophila simulans
inferredcites →https://doi.org/10.1111/j.0014-3820.2000.tb00710.xopenalex-snapshot
EXPRESSION OF CYTOPLASMIC INCOMPATIBILITY IN DROSOPHILA SIMULANS AND ITS IMPACT ON INFECTION FREQUENCIES AND DISTRIBUTION OF WOLBACHIA PIPIENTIS
inferredcites →https://doi.org/10.1111/j.0014-3820.2002.tb00187.xopenalex-snapshot
EVOLUTION OF WOLBACHIA-INDUCED CYTOPLASMIC INCOMPATIBILITY IN DROSOPHILA SIMULANS AND D. SECHELLIA
inferredcites →https://doi.org/10.1111/j.0014-3820.2002.tb01364.xopenalex-snapshot
DIVERGENCE OF MITOCHONDRIAL DNA IS NOT CORROBORATED BY NUCLEAR DNA, MORPHOLOGY, OR BEHAVIOR IN DROSOPHILA SIMULANS
inferredcites →https://doi.org/10.1111/j.1558-5646.1959.tb03045.xopenalex-snapshot
ON THE EVOLUTIONARY IMPORTANCE OF CYTOPLASMIC STERILITY IN MOSQUITOES
inferredcites →https://doi.org/10.1111/j.1558-5646.1964.tb01674.xopenalex-snapshot
BUTTERFLIES AND PLANTS: A STUDY IN COEVOLUTION
inferredcites →https://doi.org/10.1111/j.1558-5646.1994.tb02192.xopenalex-snapshot
EVOLUTION OF INCOMPATIBILITY‐INDUCING MICROBES AND THEIR HOSTS
inferredcites →https://doi.org/10.1126/science.281.5377.710openalex-snapshot
Concerted Evolution in an Egg Receptor for a Rapidly Evolving Abalone Sperm Protein
inferredcites →https://doi.org/10.1146/annurev.ecolsys.23.1.263openalex-snapshot
The Nearly Neutral Theory of Molecular Evolution
inferredcites →https://doi.org/10.1266/ggs.74.117openalex-snapshot
Paleo-demography of the Drosophila melanogaster subgroup. Application of the maximum likelihood method.
inferredcites →https://doi.org/10.1534/genetics.104.030890openalex-snapshot
Decreased Diversity but Increased Substitution Rate in Host mtDNA as a Consequence of Wolbachia Endosymbiont Infection
inferredcites →https://doi.org/10.5860/choice.30-2064openalex-snapshot
The causes of molecular evolution

What points at this work

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

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Integrative taxonomy and a new species description in the sturtevanti subgroup of the Drosophila saltans group (Diptera: Drosophilidae)
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The Response of Amino Acid Frequencies to Directional Mutation Pressure in Mitochondrial Genome Sequences Is Related to the Physical Properties of the Amino Acids and to the Structure of the Genetic Code
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A Candidate Complex Approach to Study Functional Mitochondrial DNA Changes: Sequence Variation and Quaternary Structure Modeling of Drosophila simulans Cytochrome c Oxidase
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Populations, hybrids and the systematic concepts of species and subspecies in Chagas disease triatomine vectors inferred from nuclear ribosomal and mitochondrial DNA
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as a novel model for studying mitochondrial metabolism and aging
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The mitochondrial genomes of Campodea fragilis and Campodea lubbocki (Hexapoda: Diplura): High genetic divergence in a morphologically uniform taxon
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Three divergent mitochondrial genomes from California populations of the copepod Tigriopus californicus
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Mitochondrial DNA variants influence mitochondrial bioenergetics in Drosophila melanogaster
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DNA Barcoding Will Often Fail to Discover New Animal Species over Broad Parameter Space
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Accounting for Background Nucleotide Composition When Measuring Codon Usage Bias: Brilliant Idea, Difficult in Practice
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The Coevolutionary Period of Wolbachia pipientis Infecting Drosophila ananassae and Its Impact on the Evolution of the Host Germline Stem Cell Regulating Genes
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AWolbachia-associated fitness benefit depends on genetic background inDrosophila simulans
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MITOCHONDRIAL DNA VARIATION IS ASSOCIATED WITH MEASURABLE DIFFERENCES IN LIFE-HISTORY TRAITS AND MITOCHONDRIAL METABOLISM IN DROSOPHILA SIMULANS
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The Population Biology of Mitochondrial DNA and Its Phylogenetic Implications
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DNA Barcoding and Molecular Phylogeny ofDrosophila liniand Its Sibling Species
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Origins of asexuality in Bryobia mites (Acari: Tetranychidae)
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Diversity and recombination in Wolbachia and Cardinium from Bryobia spider mites
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Population genetic structure of the malaria vector Anopheles nili in sub-Saharan Africa
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Comparative Genomics of Wolbachia and the Bacterial Species Concept
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Paternal transmission of mitochondrial DNA in interspecific crosses of Drosophila simulans
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