Molecular Biology and Evolution

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  Publication Venue For

  • Localizing Post-Admixture Adaptive Variants with Object Detection on Ancestry-Painted Chromosomes..  40:msad074. 2023
  • Evolutionary Changes in the Chromatin Landscape Contribute to Reorganization of a Developmental Gene Network During Rapid Life History Evolution in Sea Urchins..  39:msac172. 2022
  • Ancient Gene Duplications, Rather Than Polyploidization, Facilitate Diversification of Petal Pigmentation Patterns in Clarkia gracilis (Onagraceae)..  38:5528-5538. 2021
  • Human-Mediated Admixture and Selection Shape the Diversity on the Modern Swine (Sus scrofa) Y Chromosomes..  38:5051-5065. 2021
  • Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus..  38:2750-2766. 2021
  • Probabilities of Unranked and Ranked Anomaly Zones under Birth-Death Models..  37:1480-1494. 2020
  • Coalescent Theory of Migration Network Motifs..  36:2358-2374. 2019
  • Recombination-Aware Phylogenomics Reveals the Structured Genomic Landscape of Hybridizing Cat Species..  36:2111-2126. 2019
  • Evolution of DNA Methylation in Papio Baboons..  36:527-540. 2019
  • Neutral Theory Is the Foundation of Conservation Genetics..  35:1322-1326. 2018
  • Pervasive Effects of Aging on Gene Expression in Wild Wolves..  33:1967-1978. 2016
  • The Time Scale of Recombination Rate Evolution in Great Apes..  33:928-945. 2016
  • Phenoscape: Identifying Candidate Genes for Evolutionary Phenotypes..  33:13-24. 2016
  • Prolonged Adaptive Evolution of a Defensive Gene in the Solanaceae..  33:143-151. 2016
  • Ecological transition predictably associated with gene degeneration..  32:347-354. 2015
  • Simultaneous Bayesian estimation of alignment and phylogeny under a joint model of protein sequence and structure..  31:2251-2266. 2014
  • Heterochronic meiotic misexpression in an interspecific yeast hybrid..  31:1333-1342. 2014
  • Hedgehog signaling requires motile cilia in the sea urchin..  31:18-22. 2014
  • Selection is no more efficient in haploid than in diploid life stages of an angiosperm and a moss..  30:1929-1939. 2013
  • Statistical evaluation of the Rodin-Ohno hypothesis: sense/antisense coding of ancestral class I and II aminoacyl-tRNA synthetases..  30:1588-1604. 2013
  • Editor's Report for Volume 28 (2011)..  30:236-237. 2013
  • Evolution of flux control in the glucosinolate pathway in Arabidopsis thaliana..  30:14-23. 2013
  • Environmental adaptation contributes to gene polymorphism across the Arabidopsis thaliana genome..  29:3721-3728. 2012
  • A stochastic evolutionary model for protein structure alignment and phylogeny..  29:3575-3587. 2012
  • Concatenation and concordance in the reconstruction of mouse lemur phylogeny: an empirical demonstration of the effect of allele sampling in phylogenetics..  29:1615-1630. 2012
  • Editor's report for volume 27 (2010).  29:1493-1494. 2012
  • SMBE proposal to the government of Japan..  29:441. 2012
  • Generation-biased gene expression in a bryophyte model system..  28:803-812. 2011
  • Molecular Biology and Evolution: Editor's report.  27:2890-2891. 2010
  • Genome wide analyses reveal little evidence for adaptive evolution in many plant species..  27:1822-1832. 2010
  • Slip into something more functional: selection maintains ancient frameshifts in homopolymeric sequences..  27:833-839. 2010
  • Editorial: MBE Editor's Report.  27:742-743. 2010
  • Multiple Functional Variants in cis Modulate PDYN Expression..  27:465-479. 2010
  • Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation..  26:2047-2059. 2009
  • Altered trans-regulatory control of gene expression in multiple anthocyanin genes contributes to adaptive flower color evolution in Mimulus aurantiacus..  26:433-444. 2009
  • Editor's Report for 2008.  26:483-484. 2009
  • Mutagenesis from meiotic recombination is not a primary driver of sequence divergence between Saccharomyces species..  25:2439-2444. 2008
  • A comparative synteny map of Burkholderia species links large-scale genome rearrangements to fine-scale nucleotide variation in prokaryotes.  25:549-558. 2008
  • Relaxed constraint and evolutionary rate variation between basic helix-loop-helix floral anthocyanin regulators in Ipomoea..  24:2816-2826. 2007
  • Genome-wide patterns of expression in Drosophila pure species and hybrid males. II. Examination of multiple-species hybridizations, platforms, and life cycle stages..  24:137-145. 2007
  • Recent evolution of the human pathogen Cryptococcus neoformans by intervarietal transfer of a 14-gene fragment..  23:1879-1890. 2006
  • Widespread recombination throughout Wolbachia genomes..  23:437-449. 2006
  • Evolution of the trnF(GAA) gene in Arabidopsis relatives and the brassicaceae family: monophyletic origin and subsequent diversification of a plastidic pseudogene..  22:1032-1043. 2005
  • Nonhomogeneous model of sequence evolution indicates independent origins of primary endosymbionts within the enterobacteriales (gamma-Proteobacteria)..  22:520-532. 2005
  • Adaptive evolution drives the diversification of zinc-finger binding domains..  21:2326-2339. 2004
  • Bacteriophage flux in endosymbionts (Wolbachia): infection frequency, lateral transfer, and recombination rates..  21:1981-1991. 2004
  • Rapid evolution of a pollen-specific oleosin-like gene family from Arabidopsis thaliana and closely related species..  21:659-669. 2004
  • The evolution of homing endonuclease genes and group I introns in nuclear rDNA..  21:129-140. 2004
  • Evolutionary rate variation in anthocyanin pathway genes..  20:1844-1853. 2003
  • Patterns of variation within self-incompatibility loci..  20:1778-1794. 2003
  • The evolution of transcriptional regulation in eukaryotes..  20:1377-1419. 2003
  • Genome-wide patterns of expression in Drosophila pure species and hybrid males..  20:1070-1076. 2003
  • The effects of selection against spurious transcription factor binding sites..  20:901-906. 2003
  • Dinucleotide repeats in the Drosophila and human genomes have complex, length-dependent mutation processes..  20:715-725. 2003
  • Multiple hybrid formation in natural populations: concerted evolution of the internal transcribed spacer of nuclear ribosomal DNA (ITS) in North American Arabis divaricarpa (Brassicaceae)..  20:338-350. 2003
  • Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence..  20:255-266. 2003
  • Abundant raw material for cis-regulatory evolution in humans..  19:1991-2004. 2002
  • Genetic evidence for long-term population decline in a savannah-dwelling primate: inferences from a hierarchical bayesian model..  19:1981-1990. 2002
  • A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes..  19:1575-1584. 2002
  • The effects of nucleotide substitution model assumptions on estimates of nonparametric bootstrap support..  19:394-405. 2002
  • Evidence for selection at multiple allozyme loci across a mussel hybrid zone..  19:347-351. 2002
  • Using secondary structure to identify ribosomal numts: cautionary examples from the human genome..  19:93-100. 2002
  • Erratum: Dramatic mitochondrial gene rearrangements in the hermit crab Pagurus longicarpus (Crustacea, Anomura) (Molecular Biology and Evolution (17) (639-644)).  18:2350. 2001
  • Comparative genomics and regulatory evolution: conservation and function of the Chs and Apetala3 promoters..  18:1882-1891. 2001
  • Rapid evolution of cis-regulatory sequences via local point mutations..  18:1764-1770. 2001
  • Evolutionary history of microsatellites in the obscura group of Drosophila..  18:551-556. 2001
  • Widespread occurrence of spliceosomal introns in the rDNA genes of ascomycetes..  17:1971-1984. 2000
  • Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae)..  17:1483-1498. 2000
  • Distribution and abundance of microsatellites in the yeast genome can Be explained by a balance between slippage events and point mutations..  17:1210-1219. 2000
  • Estimation of primate speciation dates using local molecular clocks..  17:1081-1090. 2000
  • A re-evaluation of 12S ribosomal RNA variability in Drosophila pseudoobscura..  17:938-941. 2000
  • Dramatic mitochondrial gene rearrangements in the hermit crab Pagurus longicarpus (Crustacea, anomura)..  17:639-644. 2000
  • A new perspective on lower metazoan relationships from 18S rDNA sequences..  16:423-427. 1999
  • Parallel evolution of drug resistance in HIV: failure of nonsynonymous/synonymous substitution rate ratio to detect selection..  16:372-382. 1999
  • Patterns of evolutionary rate variation among genes of the anthocyanin biosynthetic pathway..  16:266-274. 1999
  • Comparison of the evolutionary dynamics of symbiotic and housekeeping loci: a case for the genetic coherence of rhizobial lineages..  16:98-113. 1999
  • Evidence for genetic drift in endosymbionts (Buchnera): analyses of protein-coding genes..  16:83-97. 1999
  • Can three incongruence tests predict when data should be combined?.  14:733-740. 1997
  • Parallel molecular evolution of deletions and nonsense mutations in bacteriophage T7..  14:113-116. 1997
  • Molecular evolutionary dynamics of cytochrome b in strepsirrhine primates: the phylogenetic significance of third-position transversions..  13:1339-1350. 1996
  • Adaptation at specific loci. VI. Divergence vs. parallelism of polymorphic allozymes in molecular function and fitness-component effects among Colias species (Lepidoptera, Pieridae).  13:699-709. 1996
  • Evidence for independent recruitment of zeta-crystallin/quinone reductase (CRYZ) as a crystallin in camelids and hystricomorph rodents..  12:773-781. 1995
  • Class-level relationships in the phylum Cnidaria: molecular and morphological evidence..  12:679-689. 1995
  • Comparative analysis of the zeta-crystallin/quinone reductase gene in guinea pig and mouse..  11:305-315. 1994