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National Marine Fisheries Service (NMFS)

NOAA Institutional Repository

This collection contains materials that have been published and created by the NOAA National Marine Fisheries Service. Items included technical reports, technical memorandum, data reports, reference documents, and journal articles authored and/or published by NMFS staff.

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Showing 18261 - 18280 of 18944 results
  • Consequences of sex change for effective population size
    Consequences of sex change for effective population size
    Waples, Robin S. ;
    Mariani, Stefano
    2018 | Proc Biol Sci. 2018 Dec 19;285(1893):20181702.
    Sequential hermaphroditism, where males change to females (protandry) or the reverse (protogyny), is widespread in animals and plants, and can be an evolutionarily stable strategy (ESS) if fecundity rises faster with age in the second sex. Sequential hermaphrodites also generally have sex ratios skewed towards the initial sex, and standard theory b ...
  • Hybridization between sympatric hammerhead sharks in the western North Atlantic Ocean
    Hybridization between sympatric hammerhead sharks in the western North Atlantic Ocean
    Barker, Amanda M. ;
    Adams, Douglas H.
    2019 | Biol Lett. 2019 Apr 26;15(4):20190004.
    Hybridization between closely related species has been documented across a wide range of taxa but has not been well studied in elasmobranchs. Hammerhead sharks have drawn global conservation concern because they experience some of the highest mortality rates among sharks when interacting with fisheries. Here we report on the detection of hybrids be ...
    Supporting Files
  • Genomewide Association Analyses Of Fitness Traits In CaptiveReared Chinook Salmon Applications In Evaluating Conservation Strategies
    Genomewide Association Analyses Of Fitness Traits In Captive-Reared Chinook Salmon: Applications In Evaluating Conservation Strategies
    Waters, Charles D. ;
    Hard, Jeffrey J.
    2018 | Evol Appl. 2018 Jul; 11(6): 853–868.
    A novel application of genomewide association analyses is to use trait‐associated loci to monitor the effects of conservation strategies on potentially adaptive genetic variation. Comparisons of fitness between captive‐ and wild‐origin individuals, for example, do not reveal how captive rearing affects genetic variation underlying fitness traits or ...
    Supporting Files
  • Humanmediated evolution in a threatened species Juvenile lifehistory changes in Snake River salmon
    Human‐mediated evolution in a threatened species? Juvenile life‐history changes in Snake River salmon
    Waples, Robin S. ;
    Elz, Anna
    2017 | Evol Appl. 2017 Aug; 10(7): 667-681.
    Evaluations of human impacts on Earth's ecosystems often ignore evolutionary changes in response to altered selective regimes. Freshwater habitats for Snake River fall Chinook salmon (SRFCS), a threatened species in the US, have been dramatically changed by hydropower development and other watershed modifications. Associated biological changes incl ...
    Supporting Files
  • Recent advances in conservation and population genomics data analysis
    Recent advances in conservation and population genomics data analysis
    Hendricks, Sarah ;
    Anderson, Eric C.
    2018 | Evol Appl. 2018 Sep; 11(8): 1197–1211.
    New computational methods and next‐generation sequencing (NGS) approaches have enabled the use of thousands or hundreds of thousands of genetic markers to address previously intractable questions. The methods and massive marker sets present both new data analysis challenges and opportunities to visualize, understand, and apply population and conser ...
  • Genomic signatures among Oncorhynchus nerka ecotypes to inform conservation and management of endangered Sockeye Salmon
    Genomic signatures among Oncorhynchus nerka ecotypes to inform conservation and management of endangered Sockeye Salmon
    Nichols, Krista M. ;
    Kozfkay, Christine C.
    2016 | Evol Appl. 2016 Dec; 9(10): 1285–1300.
    Conservation of life history variation is an important consideration for many species with trade-offs in migratory characteristics. Many salmonid species exhibit both resident and migratory strategies that capitalize on benefits in freshwater and marine environments. In this study, we investigated genomic signatures for migratory life history in co ...
    Supporting Files
  • Roads to ruin conservation threats to a sentinel species across an urban gradient
    Roads to ruin: conservation threats to a sentinel species across an urban gradient
    Feist, Blake E. ;
    Buhle, Eric R.
    2017 | Ecol Appl. 2017 Dec; 27(8): 2382–2396.
    Urbanization poses a global challenge to species conservation. This is primarily understood in terms of physical habitat loss, as agricultural and forested lands are replaced with urban infrastructure. However, aquatic habitats are also chemically degraded by urban development, often in the form of toxic stormwater runoff. Here we assess threats of ...
    Supporting Files
  • Disentangling genetic structure for genetic monitoring of complex populations
    Disentangling genetic structure for genetic monitoring of complex populations
    Milligan, Brook G. ;
    Archer, Frederick I.
    2018 | Evol Appl. 2018 Aug; 11(7): 1149–1161.
    Genetic monitoring estimates temporal changes in population parameters from molecular marker information. Most populations are complex in structure and change through time by expanding or contracting their geographic range, becoming fragmented or coalescing, or increasing or decreasing density. Traditional approaches to genetic monitoring rely on q ...
  • Genotypingbysequencing of genomewide microsatellite loci reveals finescale harvest composition in a coastal Atlantic salmon fishery
    Genotyping-by-sequencing of genome-wide microsatellite loci reveals fine-scale harvest composition in a coastal Atlantic salmon fishery
    Bradbury, Ian R. ;
    Wringe, Brendan F.
    2018 | Evol Appl. 2018 Jul; 11(6): 918–930.
    Individual assignment and genetic mixture analysis are commonly utilized in contemporary wildlife and fisheries management. Although microsatellite loci provide unparalleled numbers of alleles per locus, their use in assignment applications is increasingly limited. However, next-generation sequencing, in conjunction with novel bioinformatic tools, ...
    Supporting Files
  • Harvestinduced evolution and effective population size
    Harvest-induced evolution and effective population size
    Kuparinen, Anna ;
    Hutchings, Jeffrey A.
    2016 | Evol Appl. 2016 Jun; 9(5): 658–672.
    Much has been written about fishery-induced evolution (FIE) in exploited species, but relatively little attention has been paid to the consequences for one of the most important parameters in evolutionary biology-effective population size (Nₑ). We use a combination of simulations of Atlantic cod populations experiencing harvest, artificial manipula ...
    Supporting Files
  • Genomics and conservation units The genetic basis of adult migration timing in Pacific salmonids
    Genomics and conservation units: The genetic basis of adult migration timing in Pacific salmonids
    Waples, Robin S. ;
    Lindley, Steven T.
    2018 | Evol Appl. 2018 Oct; 11(9): 1518–1526.
    It is now routinely possible to generate genomics-scale datasets for nonmodel species; however, many questions remain about how best to use these data for conservation and management. Some recent genomics studies of anadromous Pacific salmonids have reported a strong association between alleles at one or a very few genes and a key life history trai ...
  • Bigeye Tuna Catch and Allocation Limits for Pelagic Longline Fisheries in US Pacific Island Territories Supplemental Environmental Assessment including a Regulatory Impact Review RTID 0648XP010
    Bigeye Tuna Catch and Allocation Limits for Pelagic Longline Fisheries in U.S. Pacific Island Territories: Supplemental Environmental Assessment, including a Regulatory Impact Review (RTID 0648-XP010)
    2020 | pdf
    NMFS proposes to implement the Council-recommended U.S. participating territory longline bigeye tuna catch and allocation limits for 2020, and, depending on future recommendations, again each year through 2023. Specifically, NMFS will specify a 2,000 metric ton (t) annual longline bigeye tuna catch limit for each U.S. participating territory (Ameri ...
    Supporting Files
  • Annual Report of the US Atlantic Salmon Assessment Committee Report no 32 2019 Activities
    Annual Report of the U.S. Atlantic Salmon Assessment Committee, Report no. 32 - 2019 Activities
    2020
    Total returns to USA rivers in 2019 was 1,535 salmon; this is the sum of documented returns to traps and returns estimated by redd counts. Returns to the US ranks 15 out of the 1991-2019 time series. Most returns (1,528, 99.5%) were to the Gulf of Maine Distinct Population Segment (GoM DPS), which includes the Penobscot River, Kennebec River and Ea ...
  • Environmental Assessment Reducing Predation Impacts on AtRisk Fish by California and Steller Sea Lions In the Columbia River Basin
    Environmental Assessment: Reducing Predation Impacts on At-Risk Fish by California and Steller Sea Lions In the Columbia River Basin
    2020 | pdf
    The National Marine Fisheries Service (NMFS) has prepared this Environmental Assessment (EA) in accordance with the National Environmental Policy Act (NEPA). This document considers the environmental consequences of alternative actions related to an application by certain States and Tribes to remove California sea lions (Zalophus californianus) and ...
  • Estimating habitat capacity for springrun Chinook salmon and steelhead in the North Fork Feather River Watershed
    Estimating habitat capacity for spring-run Chinook salmon and steelhead in the North Fork Feather River Watershed
    Volk, Carol ;
    Boughton, David A. (David Alan), 1967-
    2020 | NOAA technical memorandum NMFS-SWFSC ; 633
    We estimated thermal suitability and habitat capacity for spring-run Chinook salmon (Oncorhynchus tshawytscha) and steelhead (Oncorhynchus mykiss) within the North Fork of Feather River upstream of Lake Oroville, with particular focus on areas upstream of Rock Creek Dam that may be appropriate for reintroduction. Thermal suitability of stream habit ...
  • Genetic stock composition analysis of the Chinook salmon Oncorhynchus tshawytscha bycatch from the 2018 Bering Sea pollock trawl fishery
    Genetic stock composition analysis of the Chinook salmon (Oncorhynchus tshawytscha) bycatch from the 2018 Bering Sea pollock trawl fishery
    Guthrie, C. M., III ;
    Nguyen, Hv. T.
    2020 | NOAA technical memorandum NMFS-AFSC ; 407
    A genetic analysis of samples from the Chinook salmon (Oncorhynchus tshawytscha) bycatch of the 2018 Bering Sea-Aleutian Island (BSAI) trawl fishery for walleye pollock (Gadus chalcogrammus) was undertaken to determine the overall stock composition of the bycatch and examine temporal changes in stock composition across seasons. Samples were genotyp ...
  • Ecological correlates of blue whale movement behavior and its predictability in the California Current Ecosystem during the summerfall feeding season
    Ecological correlates of blue whale movement behavior and its predictability in the California Current Ecosystem during the summer-fall feeding season
    Palacios, Daniel M. ;
    Bailey, Helen
    2019 | Mov Ecol 7, 26 (2019).
    Species distribution models have shown that blue whales (Balaenoptera musculus) occur seasonally in high densities in the most biologically productive regions of the California Current Ecosystem (CCE). Satellite telemetry studies have additionally shown that blue whales in the CCE regularly switch between behavioral states consistent with area-rest ...
  • Hostderived population genomics data provides insights into bacterial and diatom composition of the killer whale skin
    Host‐derived population genomics data provides insights into bacterial and diatom composition of the killer whale skin
    Hooper, Rebecca ;
    Brealey, Jaelle C.
    2018 | Mol Ecol. 2019 Jan;28(2):484-502.
    Recent exploration into the interactions and relationship between hosts and their microbiota has revealed a connection between many aspects of the host's biology, health and associated micro‐organisms. Whereas amplicon sequencing has traditionally been used to characterize the microbiome, the increasing number of published population genomics data ...
  • Polyaromatic hydrocarbons in pollution a heartbreaking matter
    Polyaromatic hydrocarbons in pollution: a heart‐breaking matter
    Marris, C. R. ;
    Kompella, S. N.
    2019 | J Physiol. 2020 Jan;598(2):227-247.
    Air pollution is associated with detrimental effects on human health, including decreased cardiovascular function. However, the causative mechanisms behind these effects have yet to be fully elucidated. Here we review the current epidemiological, clinical and experimental evidence linking pollution with cardiovascular dysfunction. Our focus is on p ...
  • What drives phenotypic divergence among coral clonemates of Acropora palmata
    What drives phenotypic divergence among coral clonemates of Acropora palmata?
    Durante, Meghann K. ;
    Baums, Iliana B.
    2019 | Mol Ecol. 2019 Jul; 28(13): 3208–3224.
    Evolutionary rescue of populations depends on their ability to produce phenotypic variation that is heritable and adaptive. DNA mutations are the best understood mechanisms to create phenotypic variation, but other, less well‐studied mechanisms exist. Marine benthic foundation species provide opportunities to study these mechanisms because many are ...
    Supporting Files
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