Publications

2020

    • Lin et al. A Biodiversity Composition Map of California Derived from Environmental DNA Metabarcoding and Earth Observation. bioRxiv [abstract][PDF]
    • Heppenheimer et al. A Genome-wide perspective on the persistence of red wolf ancestry in southeastern canids. Journal of Heredity [abstract]

2019

    • Chavez et al. Comparative genomics provides new insights into the remarkable adaptations of the African wild dog (Lycaon pictus). Scientific Reports [abstract] [PDF]
    • Beichman et al. Aquatic adaptation and depleted diversity: a deep dive into the genomes of the sea otter and giant otter. Molecular biology and evolution [abstract]
    • Koch et al. De novo mutation rate estimation in wolves of known pedigree. Molecular biology and evolution [abstract] [PDF]
    • Curd et al. Anacapa Toolkit: An environmental DNA toolkit for processing multilocus metabarcode datasets. Methods in Ecology and Evolution [abstract] [PDF]
    • Ostrander et al. Dog10K: an international sequencing effort to advance studies of canine domestication, phenotypes and health. National science review [abstract] [PDF]
    • Ackermann et al. Hybridization in human evolution: insights from other organisms. Evolutionary Anthropology: Issues, News, and Reviews [abstract] [PDF]
    • Serieys et al. Widespread anticoagulant poison exposure in predators in a rapidly growing South African city. Science of the Total Environment [abstract] [PDF]
    • Fraser et al. Connectivity of mule deer (Odocoileus hemionus) populations in a highly fragmented urban landscape. Landscape ecology [abstract]
    • Robinson et al. Genomic signatures of extensive inbreeding in Isle Royale wolves, a population on the threshold of extinction. Science Advances [abstract] [PDF]
    • Hendricks et al. Conservation genomics illuminates the adaptive uniqueness of North American gray wolves. Conservation Genetics [abstract] [PDF]
    • Hendricks et al. Natural re-colonization and admixture of wolves (Canis lupus) in the US Pacific Northwest: challenges for the protection and management of rare and endangered taxa. Heredity [abstract] [PDF]
    • Kyriazis et al. High genetic diversity can contribute to extinction in small populations. bioRxiv [abstract] [PDF]
    • Meyer et al. The California Environmental DNA “CALeDNA” Program. bioRxiv [abstract] [PDF]

2018

    • Robinson et al. Purging of strongly deleterious mutations explains long-term persistence and absence of inbreeding depression in island foxes. Current Biology [abstract] [PDF]
    • Pilot et al. Widespread, long‐term admixture between grey wolves and domestic dogs across Eurasia and its implications for the conservation status of hybrids. Evolutionary applications [abstract] [PDF]
    • Nigenda-Morales et al. Transcriptomic analysis of skin pigmentation variation in the Virginia opossum (Didelphis virginiana). Molecular ecology [abstract] [PDF]
    • Schweizer. Natural selection and origin of a melanistic allele in North American gray wolves. Oxford University Press [abstract] [PDF]
    • Nigenda-Morales et al. Playing by the rules? Phenotypic adaptation to temperate environments in an American marsupial. PeerJ [abstract] [PDF]
    • Fraser et al. Genome‐wide expression reveals multiple systemic effects associated with detection of anticoagulant poisons in bobcats (Lynx rufus). Molecular ecology [abstract] [PDF]
    • Thomassen et al. Determining the drivers of population structure in a highly urbanized landscape to inform conservation planning. Conservation biology [abstract] [PDF]
    • Serieys et al. Urbanization and anticoagulant poisons promote immune dysfunction in bobcats. Proceedings of the Royal Society B: Biological Sciences [abstract] [PDF]

2017

    • Serres-Armero et al. Similar genomic proportions of copy number variation within gray wolves and modern dog breeds inferred from whole genome sequencing. BMC Genomics [abstract] [PDF]
    • Ostrander et al. DDemographic history, selection and functional diversity of the canine genome. Nature Reviews Genetics [abstract]
    • Hendricks et al. Defense of an expanded historical range for the Mexican wolf: A comment on Heffelfinger et al. The Journal of Wildlife Management [abstract] [PDF]
    • Fan et al. EPAS1 variants in high altitude Tibetan wolves were selectively introgressed into highland dogs. PeerJ [abstract] [PDF]
    • Vonholdt et al. Response to Hohenlohe et al. Science Advances [abstract] [PDF]
    • Freedman et al. Deciphering the origin of dogs: From fossils to genomes. Annual review of animal biosciences [abstract] [PDF]

2016

    • Hendricks et al. Re-defining historical geographic range in species with sparse records: Implications for the Mexican wolf reintroduction program. Biological Conservation [abstract] [PDF]
    • Freedman et al. Demographically-Based Evaluation of Genomic Regions under Selection in Domestic Dogs. PLoS Genet [abstract]
    • Marsden et al. Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs. Proceedings of the National Academy of Sciences [abstract]
    • Robinson et al. Genomic Flatlining in the Endangered Island Fox. Current Biology [abstract]
    • Schweizer et al. Genetic subdivision and candidate genes under selection in North American grey wolves. Molecular Ecology [abstract]
    • Schweizer et al. Targeted capture and resequencing of 1040 genes reveal environmentally driven functional variation in grey wolves. [abstract]
    • Vonholdt et al. Admixture mapping identifies introgressed genomic regions in North American canids. Molecular Ecology [abstract]
    • Wayne & Shaffer. Hybridization and Endangered Species Protection in the Molecular Era. Molecular Ecology

2015

    • Decker et al. Comparison against 186 canid whole-genome sequences reveals survival strategies of an ancient clonally transmissible canine tumor. Genome research [abstract]
    • Fan et al. Worldwide patterns of genomic variation and admixture in gray wolves. Genome research [abstract]
    • Fredrickson et al. Mexican wolves are a valid subspecies and an appropriate conservation target. Journal of Heredity [abstract]
    • Freedman et al. Genome Sequencing Highlights the Dynamic Early History of Dogs. PLoS Genetics [abstract]
    • Hendricks et al. Polyphyletic ancestry of historic gray wolves inhabiting US Pacific states. Conservation Genetics [abstract]
    • Kapheim et al. Kinship, parental manipulation and evolutionary origins of eusociality. Proceedings of the Royal Society of London B: Biological Sciences [abstract]
    • Koepfli et al. Genome-wide evidence reveals that African and Eurasian golden jackals are distinct species. Current Biology [abstract]
    • Lonsinger al. Fine-scale genetic structure of the ringtail (Bassariscus astutus) in a Sky Island mountain range. Journal of Mammalogy [abstract]
    • Serieys et al. Anticoagulant rodenticides in urban bobcats: exposure, risk factors and potential effects based on a 16-year study. Ecotoxicology [abstract]
    • Serieys et al. Disease and freeways drive genetic change in urban bobcat populations. Evolutionary applications [abstract]

2014

    • Freedman et al. Genome Sequencing Highlights the Dynamic Early History of Dogs. PLoS Genetics [abstract]
    • Pease et al. Divergent responses of exposed and naive Pacific tree frog tadpoles to invasive predatory crayfish. Oecologia. [abstract]
    • Pilot et al. Genome-wide signatures of population bottlenecks and diversifying selection in European wolves. Heredity. [abstract]
    • Price et al. Renewed diversification is associated with new ecological opportunity in the Neotropical turtle ants. J Evol Biol. [abstract]
    • Quan et al. Origins of the invasive red swamp crayfish (Procambarus clarkii) in the Santa Monica Mountains. Aquatic Invations abstract]
    • Ramirez et al. Analysis of structural diversity in wolf-like canids reveals post-domestication variants. BMC Genomics abstract]
    • Riley et al. Individual behaviors dominate the dynamics of an urban mountain lion population isolated by road. Current Biology. abstract]
    • Zhang et al. Hypoxia adaptations in the grey wolf (Canis lupus chanco) from Qinghai-Tibet Plateau. PLoS Genet [abstract]

2013

    • Kapheim et al. Foundress polyphenism and the origins of eusociality in a facultatively eusocial sweat bee, Megalopta genalis (Halictidae). Behavioral Ecology and Sociobiology [abstract]
    • Karyadi et al. Copy Number Variant at the KITLG Locus Likely Confers Risk for Canine Squamous Cell Carcinoma of the Digit. Plos Genetics [abstract]
    • Fuller et al. Intraspecific morphological and genetic variation of common species predicts ranges of threatened ones. PNAS [abstract]
    • Li et al. Artificial Selection on Brain-Expressed Genes during the Domestication of Dog. Molecular Biology and Evolution [abstract]
    • Marsden et al. Pedigrees, MHC and microsatellites: an integrated approach for genetic management of captive African wild dogs (Lycaon pictus). Conservation Genetics [abstract]
    • Roy et al. Analysis of the canine brain transcriptome with an emphasis on the hypothalamus and cerebral cortex. Mammalian Genome [abstract]
    • Rimbault et al. Derived variants at six genes explain nearly half of size reduction in dog breeds. Genome Research [abstract]
    • Thalmann et al. Complete Mitochondrial Genomes of Ancient Canids Suggest a European Origin of Domestic Dogs. Science [abstract]
    • Stahler et al. The adaptive value of morphological, behavioural and life-history traits in reproductive female wolves. Journal of Animal Ecology [abstract]
    • Thalmann et al. Complete Mitochondrial Genomes of Ancient Canids Suggest a European Origin of Domestic Dogs. Science [abstract]
    • vonHoldt et al. Identification of recent hybridization between gray wolves and domesticated dogs by SNP genotyping. Mammalian Genome [abstract]

2012

    • Amorim et al. Phylogeography and molecular phylogeny of Macaronesian island Tarphius (Coleoptera: Zopheridae): why are there so few species in the Azores? Journal of Biogeography [abstract]
    • de Ita et al. Genetic evidence for recent range fragmentation and severely restricted dispersal in the critically endangered Sierra Madre Sparrow, Xenospiza baileyi [abstract]
    • Koblmueller et al. Impact of Quaternary climatic changes and interspecific competition on the demographic history of a highly mobile generalist carnivore, the coyote. Biology Letters [abstract]
    • MacDonald et al. Pattern of extinction of the woolly mammoth in Beringia. Nature [abstract]
    • Marsden et al. Spatial and temporal patterns of neutral and adaptive genetic variation in the endangered African wild dog (Lycaon pictus). Molecular Ecology [abstract]
    • Marsden et al. Inferring the ancestry of African wild dogs that returned to the Serengeti-Mara. Conservation Genetics [abstract]
    • Olson et al. No evidence of inbreeding avoidance despite demonstrated survival costs in a polygynous rodent. Molecular Ecology [abstract]
    • Schoenebeck al. Variation of BMP3 Contributes to Dog Breed Skull Diversity. Plos Genetics [abstract]
    • Schwochow et al. Efficient recovery of whole blood RNA – a comparison of commercial RNA extraction techniques. BMC Biotechnology [abstract]
    • vonHoldt et al. Identification of recent hybridization between gray wolves and domesticated dogs by SNP genotyping. Mammalian Genome [abstract]
    • Wayne & vonHoldt. Evolutionary genomics of dog domestication. Mammalian Genome [abstract ]

2011

    • Becker et al. Anchoring the dog to its relatives reveals new evolutionary breakpoints across 11 species of the Canidae and provides new clues for the role of B chromosomes. Chromosome Research [abstract]
    • Coulson et al. Modeling Effects of Environmental Change on Wolf Population Dynamics, Trait Evolution, and Life History. Science [abstract]
    • Geffen et al. Kin encounter rate and inbreeding avoidance in canids. Molecular Ecology [abstract]
    • Lorenzen et al. Species-specific responses of late quaternary megafauna to climate and humans. Nature [abstract]
    • Milá et al. A cryptic contact zone between divergent mitochondrial DNA lineages in southwestern North America supports past introgressive hybridization in the yellow-rumped warbler complex (Aves: Dendroica coronata). Biological Journal of the Linnean Society [abstract]
    • Smith et al. Patterns of divergence in the olive sunbird Cyanomitra olivacea (Aves: Nectariniidae) across the African rainforest, Csavanna ecotone. Biological Journal of the Linnean Society [abstract]
    • Thomassen et al. Mapping evolutionary process: a multi-taxa approach to conservation prioritization. Evolutionary Applications [abstract]
    • Oster et al. Optimization of RNA isolation and leukocyte viability in canid RNA expression studies. Conservation Genetics Resources [abstract]
    • vonHoldt et al. A genome-wide perspective on the evolutionary history of enigmatic wolf-like canids. Genome Research [abstract]
    • Wayne & Hendrick. Genetics and wolf conservation in the American West: Lessons and challenges. Heredity [abstract]

2010

    • Eizirik et al. Pattern and timing of diversification of the mammalian order Carnivora inferred from multiple nuclear gene sequences. Molecular Phylogenetics and Evolution [abstract]
    • Gray et al. The IGF1 small dog haplotype is derived from Middle Eastern grey wolves. BMC Biology [abstract]
    • Randall et al. Fine-scale genetic structure in Ethiopian wolves imposed by sociality, migration, and population bottlenecks. Conservation Genetics [abstract]
    • Thomassen et al. Spatial modelling and landscape-level approaches for visualizing intra-specific variation. Molecular Ecology [abstract]
    • Thomassen et al. Modeling environmentally associated morphological and genetic variation in a rainforest bird, and its application to conservation prioritization. Evolutionary Applications [abstract]
    • vonHoldt et al. A novel assessment of population structure and gene flow in grey wolf populations of the Northern Rocky Mountains of the United States. Molecular Ecology [abstract]
    • Van Valkenburgh & Wayne. Carnivores. Current Biology [abstract]
    • vonHoldt et al. A novel assessment of population structure and gene flow in grey wolf populations of the Northern Rocky Mountains of the United States. Molecular Ecology [abstract]
    • vonHoldt et al. Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication. Nature [abstract]
    • Wayne. Chapter: Recent Advances in the Population Genetics of Wolf-like Canids. The World of Wolves: new perspectives on ecology, behaviour and management.
    • Wright et al. Mating tactics and paternity in a socially monogamous canid, the bat-eared fox. Journal of Mammalogy [abstract]

2009

    • Cadieu et al. Coat Variation in Domestic Dog is Goverened by Variants in Three Genes. Science [abstract]
    • Haussler et al. Genome 10K: A Proposal to Obtain Whole-Genome Sequence for 10 000 Vertebrate Species. Heredity [abstract]
    • Parker et al. An Expressed Fgf4 Retrogene is Associated with Breed-defining Chondrodysplasia in Domestic Dogs. Science [abstract]
    • Koblmueller et al. Origin and status of the Great Lakes wolf. Molecular Ecology [abstract]
    • Koblmuller et al. REPLY – More is better. Molecular Ecology
    • Slater et al. Evolutionary history of the Falklands wolf. Current Biology [abstract]
    • Gray et al. Linkage Disequilibrium and Demographic History of Wild and Domestic Canids. Genetics [abstract]
    • Pease et al. Landscape genetics of California mule deer (Odocoileus hemionus): the roles of ecological and historical factors in generating differentiation. Molecular Ecology [abstract]
    • Anderson et al. Molecular and evolutionary history of melanism in North American gray wolves. Science [abstract]

2008

    • vonHoldt et al. The genealogy and genetic viability of the reintroduced Yellowstone grey wolves. Molecular Ecology [abstract]
    • Delaney et al. Genetic divergence and differentiation within Western Scrub-Jays (Aphelocoma californica). The Auk [abstract]
    • Leonard & Wayne. Native Great Lakes wolves were not restored. Biology Letters [abstract]
    • Koefpli et al. Multigene phylogeny of the Mustelidae: Resolving relationships, tempo and biogeographic history of a mammalian adaptive radiation. BMC Biology [abstract]

2007

    • Mila et al. Recent postglacial range expansion drives the rapid diversification of a songbird lineage in the genus Junco. Proceedings of the Royal Society B [abstract]
    • Brown et al. Extensive population genetic structure in the giraffe. BMC Biology [abstract]
    • Wayne & Ostrander. Lessons learned from the dog genome. Trends in Genetics [abstract]
    • Musiani et al. Differentiation of tundra/taiga and boreal coniferous forest wolves: genetics, coat colour and association with migratory caribou. Molecular Ecology [abstract]
    • Sutter et al. A Single IGF1 Allele Is a Major Determinant of Small Size in Dogs. Science [abstract]
    • Leonard et al. Megafaunal Extinctions and the Disappearance of a Specialized Wolf Ecomorph. Current Biology [abstract]
    • Geffen et al. Sea ice occurrence predicts genetic isolation in the Arctic fox. Molecular Ecology [abstract]
    • Koefpli et al. Phylogeny of the Procyonidae (Mammalia: Carnivora): Molecules, morphology and the Great American Interchange. Molecular Phylogenetics and Evolution [abstract]

2006

    • Mila et al. Speciation and rapid phenotypic differentiation in the yellow-rumped warbler Dendroica coronata complex. Molecular Ecology [abstract]
    • Kohn et al. Genomics and conservation genetics. Trends in Ecology and Evolution [abstract]

2005

  • Delaney & Wayne. Adaptive units for conservation: Population distinction and historic extinctions in the Island Scrub-Jay. Conservation Biology [abstract]
Wayne Lab