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Protected Species Research Publications - Taxonomy and Genetics
These publications focus on the classification of protected species as well as studies that apply genetic approaches to understanding protected species biology, ecology, and conservation needs.
Ackerman et al. 2016. Effective number of breeders from sibship reconstruction: empirical evaluations using hatchery steelhead. Evolutionary Applications
Alexander et al. 2016. What influences the worldwide genetic structure of sperm whales (Physeter macrocephalus)? Molecular Ecology
Bradbury et al. 2016. Genetic mixed stock analysis disentangles spatial and temporal variation in composition of the West Greenland Atlantic Salmon fishery. ICES Journal of Marine Science
Caldarone et al. 2016. Evaluation of nucleic acids and plasma IGF1 levels for estimating short-term responses of post-smolt Atlantic salmon (Salmo salar) to food availability. Fishery Bulletin
Cise et al. 2016. Redrawing the map: mtDNA provides new insights into the distribution and diversity of short-finned pilot whales in the Pacific Ocean. Marine Mammal Science
Costa et al. 2016. Offshore and coastal common bottlenose dolphins of the western South Atlantic face-to-face: What the skull and the spine can tell us. Marine Mammal Science
Devlin-Durante et al. 2016. How old are you? Genet age estimates in a clonal animal. Molecular Ecology
Foote and Morin. 2016. Genome-wide SNP data suggests complex ancestry of sympatric North Pacific killer whale ecotypes. Heredity
Ford et al. 2016. Estimation of a killer whale (Orcinus orca) population's diet using sequencing analysis of DNA from feces.PLos One
Ford et al. 2016. Broodstock history strongly influences natural spawning success in hatchery steelhead (Oncorhynchus mykiss). PLoS One
Leitwein et al. 2016. Ancestry and adaptive evolution of anadromous, resident, and adfluvial rainbow trout (Oncorhynchus mykiss) in the San Francisco Bay Area: application of adaptive genomic variation to conservation in a highly impacted landscape. Evolutionary Applications
Leslie and Morin. 2016. Using genome-wide SNPs to detect structure in high-diversity and low-divergence populations of severely impacted eastern tropical Pacific spinner (Stenella longirostris) and pantropical spotted dolphins (S. attenuata). Frontiers in Marine Science
Matsuzawa et al. 2016. Fine scale genetic population structure of loggerhead turtles in the Northwest Pacific. Endangered Species Research
Morin et al. 2016. Genetic structure of the beaked whale genus Berardius in the North Pacific, with genetic evidence for a new species. Marine Mammal Science
Moser et al. 2016. Biology and life history of green sturgeon (Acipenser medirostris): state of the science. Journal of Applied Ichthyology
Morley et al. 2016. Seasonal variation exceeds effects of salmon carcass additions on benthic food webs in the Elwha River. Ecosphere
Pearse. 2016. Saving the spandrels? Adaptive genomic variation in conservation and fisheries management. FIsh Biology
Sather et al. 2016. Shallow tidal freshwater habitats of the Columbia River: spatial and temporal variability of fish communities and density, size, and genetic stock composition of juvenile Chinook Salmon. Transactions of the American Fisheries Society
Segura-Garcia et al. 2016. Post-glacial habitat release and incipient speciation in the genus Delphinus. Heredity
Springer et al. 2016. Inactivation of cone-specific phototransduction genes in rod monochromatic cetaceans. Frontiers in Ecology and Evolution
Abadia-Cardoso et al. 2017. Molecular population genetics of the northern elephant seal Mirounga angustirostris. Journal of Heredity
Anderson et al. 2017. Genetic and individual assignment of tetraploid green sturgeon with SNP assay data. Conservation Genetics
Apprill et al. 2017. Extensive core microbiome in drone-captured whale blow supports a framework for health monitoring. Host-Microbe Biology
Archer et al. 2017. Diagnosability of mtDNA with Random Forests: Using sequence data to delimit subspecies. Marine Mammal Science
Davis et al. 2017. Identification of multiple genetically distinct populations of Chinook salmon (Oncorhynchus tshawytscha) in a small coastal watershed. Environmental Biology of Fishes
Gaos et al. 2017. Natal foraging philopatry of hawksbill turtles in the eastern Pacific Ocean. The Royal Society Open Science
Kodama et al. 2017. Mapping of quantitative trait loci for temporal growth and age at maturity in coho salmon: evidence for genotype-by-sex interactions. Marine Genomics
Komoroske et al. 2017. Advances in the application of genetics in marine turtle biology & conservation. Frontiers in Marine Science
Lin et al. 2017. Modeling local adaptation and gene flow in sockeye salmon. Ecosphere
Macqueen et al. 2017. Functional Annotation of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation, and aquaculture. BMC Genomics
Martien et al. 2017. Analytical approaches to subspecies delimitation with genetic data. Marine Mammal Science
Martien et al. 2017. Unexpected patterns of global population structure in melon-headed whales (Peponocephala electra). Marine Ecology Progress Series
Neely et al. 2017. Skin transcriptomes of common bottlenose dolphins (Tursiops truncatus) from the northern Gulf of Mexico and southeastern U.S. Atlantic coasts. Marine Genomics
Robertson et al. 2017. Genetic sexing of pinnipeds: a real-time, single step qPCR technique. Conservation Genetics Resources
Roden et al. 2017. Genetic fingerprinting reveals natal origins of male leatherback turtles encountered in the Atlantic Ocean and Mediterranean Sea. Marine Biology
Rosel et al. 2017. Examining metrics and magnitudes of molecular genetic differentiation used to delimit cetacean subspecies based on mitochondrial DNA control region sequences. Marine Mammal Science
Rosel et al. 2017. A review of molecular genetic markers and analytical approaches that have been used for delimiting marine mammal subspecies and species. Marine Mammal Science
Stacy et al. 2017. Evidence of diversity, site and host specificity of sea turtle blood flukes (Digenea: Schistosomatoidea: "Spirorchiidae"): a molecular prospecting study. The Journal of Parasitology
Taylor et al. 2017. Why we should develop guidelines and quantitative standards for using genetic data to delimit subspecies for data-poor organisms like cetaceans. Marine Mammal Science
Taylor et al. 2017. Guidelines and quantitative standards to improve consistency in cetacean subspecies and species delimitation relying on molecular genetic data. Marine Mammal Science
Van Cise et al. 2017. Familial social structure and socially-driven genetic differentiation in Hawaiian short-finned pilot whales. Molecular Ecology
Vollmer et al. 2017. Fine-scale population structure of common bottlenose dolphins (Tursiops truncatus) in offshore and coastal waters of the U.S. Gulf of Mexico. Marine Biology
Waples and Anderson. 2017. Purging putative siblings from population genetic datasets: a cautionary view. Molecular Ecology
Wu et al. 2017. Identification of three Brucellaceti genotypes in bottlenose dolphins (Tursiops truncatus) using a multiplex SYBR green real-time PCR. Aquatic Mammals
Yeh et al. 2017. Effect of contaminants of emerging concern on liver mitochondrial function in Chinook salmon. Aquatic Toxicology
2018
Andrews et al. 2018. Cooperative research sheds light on the listing status of threatened and endangered rockfish species. Conservation Genetics
Archer et al. 2018. Taxonomic status of a “finner whale”(Balaenoptera swinhoei Gray, 1865) from southern Taiwan. Marine Mammal Science
Cammen et al. 2018. Genomic signatures of population bottleneck and recovery in Northwest Atlantic pinnipeds.Ecology and Evolution
Conrad et al. 2018. Ancient DNA analysis of sea turtles (Cheloniidae) from the Gold Rush-era (1850s) eastern Pacific Ocean. Open Quaternary
Ford et al. 2018. Inbreeding in an endangered killer whale population.Animal Conservation
Gao et al. 2018. A new single nucleotide polymorphism database for rainbow trout generated through whole genome resequencing.Frontiers in Genetics
Hill et al. 2018. Short-finned pilot whales (Globicephala macrorhynchus) of the Mariana Archipelago: individual affiliations, movements, and spatial use.Marine Mammal Science
Hoffman et al. 2018. A global cline in a color polymorphism suggests a limited contribution of gene flow towards the recovery of a heavily exploited marine mammal.Royal Society Open Access
Jensen et al. 2018. Environmental warming and feminisation of one of the largest sea turtle populations in the world. Current Biology
Leslie and Morin 2018. Structure and phylogeography of two tropical predators, spinner (Stenella longirostris) and pantropical spotted (S. attenuata) dolphins, from SNP data.Royal Society Open Science
Pearse et al. 2019. Sex-dependent dominance maintains migration supergene in rainbow trout.Nature Ecology & Evolution
Shamblin et al. 2018. Mixed stock analyses indicate population-scale connectivity effects of active dispersal by surface-pelagic green turtles.Marine Ecology Progress Series
Stewart et al. 2018. Using mixed stock analysis to assess source populations for at‐sea bycaught juvenile and adult loggerhead turtles (Caretta caretta) in the north‐west Atlantic.Fish and Fisheries
Stoffel et al. 2018. Demographic histories and genetic diversity across pinnipeds are shaped by human exploitation, ecology and life-history.Nature Communications
Waples and Lindley 2018. Genomics and conservation units: the genetic basis of adult migration timing in Pacific salmonids. Evolutionary Applications
Waters et al. 2018. Genomewide association analyses of fitness traits in captive‐reared Chinook salmon: applications in evaluating conservation strategies. Evolutionary Applications
Wringe et al. 2018. Development and evaluation of SNP panels for the detection of hybridization between wild and escaped Atlantic salmon (Salmo salar) in the western Atlantic.Canadian Journal of Fisheries and Aquatic Sciences
2019
Banerjee et al. 2019. Single nucleotide polymorphism markers for genotyping hawksbill turtles (Eretmochelys imbricata). Conservation Genetics Resources
Costa et al. 2019. Ecological divergence and speciation in common bottlenose dolphins in the western South Atlantic. Journal of Evolutionary Biology
Foote et al. 2019. Killer whale genomes reveal a complex history of recurrent admixture and vicariance summary. Molecular Ecology
Jensen et al. 2019. The evolutionary history and global phylogeography of the green turtle (Chelonia mydas). Journal of Biogeography
Pearse et al. 2019. Sex-dependent dominance maintains migration supergene in rainbow trout.Nature Ecology & Evolution
Piovano et al. 2019. Mixed stock analysis of juvenile green turtles aggregating at two foraging grounds in Fiji reveals major contribution from the American Samoa Management Unit. Scientific Reports
Van Cise et al. 2019. Oceanographic barriers, divergence, and admixture: phylogeography and taxonomy of two putative subspecies of short-finned pilot whale.Molecular Ecology
Vollmer et al. 2019. Taxonomic revision of the dolphin genus Lagenorhynchus.Marine Mammal Science
Vos et al. 2019. Age and growth analyses for the endangered belugas in Cook Inlet, Alaska. Marine Mammal Science
The Pacific leatherback sea turtles have existed in their current form without scales and a hard shell since the age of the dinosaurs, but threats from bycatch, egg harvesting, and degradation of nesting habit have made this species endangered. Photo credit: Jason Isley, Scubazoo.