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Development Of Microsatellite Genetic Markers For Kenai River Chinook Salmon
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Book Synopsis Development of Microsatellite Genetic Markers for Kenai River Chinook Salmon by : Robert N. Begich
Download or read book Development of Microsatellite Genetic Markers for Kenai River Chinook Salmon written by Robert N. Begich and published by . This book was released on 2010 with total page 32 pages. Available in PDF, EPUB and Kindle. Book excerpt: Significant genetic variation exists among populations of Chinook salmon from Kenai River drainage. Recent analyses using microsatellite markers confirm the results of the earlier studies which detected differences between early- and late-run Chinook salmon based on allozyme and mitochondrial DNA markers. This report presents the results of a survey of 13 microsatellite loci (from a standardized set used by the Pacific Salmon Commission Chinook Technical Committee) in 977 individual fish representing nine Chinook salmon populations in the drainage. Average genotyping failure rate was approximately 4.5%, with the majority of failures in the Slikok Creek collection (success rate ~ 35.9%) where samples mainly came from carcass sampling. Estimates of per-locus FST ranged from 0.019 to 0.045 suggesting a level of divergence among collections that should be useful for management applications. The populations in the baseline could be separated into four groups based on geographic, behavioral, and genetic characteristics: Lower Kenai River tributaries, Kenai River mainstem, Killey River, and Quartz Creek. Simulation results indicate that contributions from these groups can be detected in fishery harvests with a high degree of precision and accuracy (mean correct allocation = 96.7%).
Book Synopsis Progress in Development of a DNA Baseline for Genetic Identification of Chinook Salmon Stocks of the Copper River Basin, Alaska by : Lisa Wishard Seeb
Download or read book Progress in Development of a DNA Baseline for Genetic Identification of Chinook Salmon Stocks of the Copper River Basin, Alaska written by Lisa Wishard Seeb and published by . This book was released on 2006 with total page 11 pages. Available in PDF, EPUB and Kindle. Book excerpt: This report serves as a first-year summary of progress of a contract study intended to document the timing and origins of chinook salmon, Oncorhynchus tshawytscha, stocks in the Copper River and adjacent ocean fisheries using DNA markers. The project is intended to investigate the genetic structure of chinook salmon from the Copper River drainage using both microsatellite and single nucleotide polymorphisms (SNPs). Identification of genetic stocks of chinook salmon within the Copper River drainage and knowledge of their run timing and migration patterns will provide valuable information to optimize management and provide for sustainable fisheries. The first objective of this contract study is to develop a DNA database to delineate major geographic and temporal stocks of chinook salmon within the Copper River. This objective requires collection of tissue samples as well as the laboratory DNA analyses of those tissues. A second objective is to investigate run timing and entry patterns within the Copper River through the analysis of radio-tagged and fishwheel samples from Baird Canyon. A third objective is to characterize the timing of Copper River stocks in the ocean fisheries and estimate the contribution to this fishery by stocks of non-Copper River origin. Finally, these data will be standardized and contributed to a coastwide DNA database so that Copper River chinook salmon can be tracked throughout their marine migration. This report reviews the first year of the study which concentrated on objective 1.
Book Synopsis Microsatellite DNA Analysis and Run Timing of Chinook Salmon in the White River, Puyallup Basin by : James B. Shaklee
Download or read book Microsatellite DNA Analysis and Run Timing of Chinook Salmon in the White River, Puyallup Basin written by James B. Shaklee and published by . This book was released on 2003 with total page 82 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis A Genetic Analysis of Early Development of Unuk River Chinook Salmon by : M. Scott Kelley
Download or read book A Genetic Analysis of Early Development of Unuk River Chinook Salmon written by M. Scott Kelley and published by . This book was released on 1994 with total page 150 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Genetic Diversity of Chinook Salmon from the Kuskokwim River by : William E. Templin
Download or read book Genetic Diversity of Chinook Salmon from the Kuskokwim River written by William E. Templin and published by . This book was released on 2004 with total page 106 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Investigate[s] the genetic diversity of Chinook salmon from the Kuskokwim River using two types of genetic markers, allozymes and microsatellites"--Abstract.
Book Synopsis An Investigation Into the Genetic Basis of Migration Timing in Chinook Salmon (Oncorhynchus Tshawytscha) by : Kathleen Gallen O'Malley
Download or read book An Investigation Into the Genetic Basis of Migration Timing in Chinook Salmon (Oncorhynchus Tshawytscha) written by Kathleen Gallen O'Malley and published by . This book was released on 2008 with total page 298 pages. Available in PDF, EPUB and Kindle. Book excerpt: The genetic basis of adaptation is complex as many fitness-related traits are quantitative and likely influenced by multiple genes with variable effects across different selective environments. One important adaptation for anadromous Chinook salmon (Oncorhynchus tshawytscha) is the time at which individuals return to natal breeding sites within a reproductive season. Here, I tested for adaptive genetic differentiation among temporally divergent migratory runs using candidate loci. First, I isolated and characterized two copies of the circadian rhythm gene, Clock, from Chinook salmon (OtsClock1a and OtsClock1b). Phylogenetic analysis revealed that these copies likely arose subsequent to the salmonid genome-wide duplication event. Each copy contains a polyglutamine repeat motif (PolyQ), an essential binding domain of this transcription factor. However, a 1200bp non-coding segment, showing >90% sequence identity to the Salmo salar Transferrin gene, is located downstream of the OtsClock1a PolyQ, yet absent from OtsClock1b providing evidence for nonhomologous recombination. Another candidate, Ots515NWFSC, shows sequence identity to three salmonid genes central to reproductive development: Gonadotropin-releasing hormone, CYP19b-I, and Ghrelin. I employed OtsClock1b and Ots515NWFSC to test for differentiation in two unique systems: Feather River, California; and Waitaki and Poulter Rivers, New Zealand. Based on length variation in these candidate genes, Feather River fall and spring run Chinook salmon are genetically differentiated. In contrast, these seasonal runs are genetically indistinguishable based on neutral microsatellite loci. Correspondingly, temporally divergent Chinook salmon runs in the Waitaki and Poulter Rivers show greater differentiation based on variation in OtsClock1b and Ots515NWFSC than microsatellite loci. Tests for selective neutrality indicate that OtsClock1b and Ots515NWFSC are likely under selection in both systems. In addition, I found evidence for a latitudinal cline in two OtsClock1b PolyQ alleles among 42 Chinook salmon runs which is likely maintained by selection and thus may reflect an adaptation to photoperiodic parameters. Lastly, a hierarchical gene diversity analysis of OtsClock1b PolyQ variation revealed that run timing explained 43.7% of the overall genetic variance which contrast sharply with the 8.1% calculated for microsatellite loci. Evidence presented here suggests that OtsClock1b and Ots515NWFSC may influence migration timing of Chinook salmon.
Book Synopsis Genetic Baseline of Kenai River Chinook Salmon for Mixed Stock Analyses, 2013 by : Serena D. Rogers Olive
Download or read book Genetic Baseline of Kenai River Chinook Salmon for Mixed Stock Analyses, 2013 written by Serena D. Rogers Olive and published by . This book was released on 2013 with total page 29 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Genetic History of Chinook and Sockeye Salmon Analyzed Using Ancient and Contemporary Mitochondrial DNA by : Bobbi May Johnson
Download or read book Genetic History of Chinook and Sockeye Salmon Analyzed Using Ancient and Contemporary Mitochondrial DNA written by Bobbi May Johnson and published by . This book was released on 2016 with total page 277 pages. Available in PDF, EPUB and Kindle. Book excerpt: Pacific salmon (Oncorhynchus spp.) serve an important social and economic role in western North America. Despite historical abundance, native salmonids are now at risk of extinction throughout much of their native range. The accurate characterization of historic range, population size, and gene flow is essential for the development of successful conservation strategies. Therefore, conservation disciplines may look to the past to inform the future. One framework for such investigations is phylogeography, which examines geographical and genealogical connections in an effort to understand the evolutionary history of organisms. Another avenue is the study of genetic data from temporally diverse samples, which facilitates the direct observation of a genetic history.
Author :Alaska. Division of Fisheries Rehabilitation, Enhancement, and Development Publisher : ISBN 13 : Total Pages :14 pages Book Rating :4.:/5 (45 download)
Book Synopsis Kenai River Juvenile Chinook Salmon Distribution and Habitat Utilization by : Alaska. Division of Fisheries Rehabilitation, Enhancement, and Development
Download or read book Kenai River Juvenile Chinook Salmon Distribution and Habitat Utilization written by Alaska. Division of Fisheries Rehabilitation, Enhancement, and Development and published by . This book was released on 1984 with total page 14 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Genetic Sex of Chinook Salmon in the Columbia River Basin by : James J. Nagler
Download or read book Genetic Sex of Chinook Salmon in the Columbia River Basin written by James J. Nagler and published by . This book was released on 2004 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: It has previously been documented that naturally spawning, female fall-run chinook salmon (Oncorhynchus tshawytscha) from the Hanford Reach on the Columbia River carried a male-linked genetic marker, OtY1. The primary objective of this study was to investigate the spatial and temporal nature of this observation by sampling adults from the Hanford Reach and two other new sites, the lower Yakima River and at Ives Island below Bonneville Dam, in sequential years (2001 and 2002). A hatchery population on the Columbia River (Priest Rapids Hatchery) was sampled too. A total of 364 male and 359 female fall-run chinook salmon were sampled over the two spawning seasons from all sites. Detection of the male-linked genetic marker OtY1 in male fish was found to be 100% consistent with the phenotypic male sex in all populations sampled. A variable proportion of females from all sites tested positive for OtY1. This ranged from 67% at Ives Island in 2001 to 0% at the Priest Rapids Hatchery in 2002. A significant reduction of OtY1 incidence in females sampled in 2002 compared to 2001 emerged at all sites. A second objective sought evidence that a YY genotype might exist in the populations sampled. A real-time PCR method based on the growth hormone pseudogene (GHp), another male-linked chinook salmon genetic marker, was developed and tested to determine whether a YY genotype might be detected. The experimental variability between different XY individuals precluded its use to discriminate an YY from an XY genotype. During associated work on new chinook salmon sex linked genetic markers a new Y chromosome linked genetic marker, OtY2, was discovered.
Book Synopsis Ecological Genetics of Fall-run Chinook Salmon (Oncorhynchus Tshawytscha) in California's Central Valley by : Kevin Sean Williamson
Download or read book Ecological Genetics of Fall-run Chinook Salmon (Oncorhynchus Tshawytscha) in California's Central Valley written by Kevin Sean Williamson and published by . This book was released on 2004 with total page 260 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Timing and Origin of Chinook Salmon Stocks in the Copper River Using DNA Markers, Report to the Alaska Board of Fisheries, December 1-7, 2008, Cordova, Alaska by : William D. Templin
Download or read book Timing and Origin of Chinook Salmon Stocks in the Copper River Using DNA Markers, Report to the Alaska Board of Fisheries, December 1-7, 2008, Cordova, Alaska written by William D. Templin and published by . This book was released on 2008 with total page 35 pages. Available in PDF, EPUB and Kindle. Book excerpt: The objectives of this study were to delineate major geographic and temporal stocks of Chinook salmon within the Copper River, determine the potential of genetic markers to distinguish among stocks within the Copper River drainage, and to investigate run timing within the Copper River.
Book Synopsis New Genetic Baseline for Upper Cook Inlet Chinook Salmon Allows for the Identification of More Stocks in Mixed Stock Fisheries by : Andrew W. Barclay
Download or read book New Genetic Baseline for Upper Cook Inlet Chinook Salmon Allows for the Identification of More Stocks in Mixed Stock Fisheries written by Andrew W. Barclay and published by . This book was released on 2019 with total page 90 pages. Available in PDF, EPUB and Kindle. Book excerpt: This report describes an updated genetic baseline for Upper Cook Inlet Chinook salmon that allows for the identification of more stocks in mixed stock fisheries than previously possible. Chinook salmon are harvested in commercial, sport, subsistence, and personal use fisheries in Upper Cook Inlet, Alaska. Harvests often occur in areas where stocks intermingle, highlighting the need for understanding stock of origin in fishery catches to improve fishery management. Mixed stock analysis (MSA) has been used to estimate the stock composition of harvests in Cook Inlet since 2013. However, MSA applications have been limited by inadequate genetic structure, making northern Cook Inlet stocks of management and fishery importance difficult to distinguish: west Cook Inlet, Yentna River, and western Susitna stocks were indistinguishable; and eastern Susitna River and Matanuska River stocks were indistinguishable. Here we use cutting-edge genotyping by sequencing techniques to produce a baseline containing 67 Chinook salmon populations and 413 genetic markers and examine the baseline for population structure and test for potential reporting groups (stocks) using new baseline evaluation methods. Tests of potential reporting groups revealed 10 groups with adequate genetic divergence to meet the criteria for reporting groups. The 10 groups identified were (1) West, (2) Susitna, (3) Deshka, (4) Yentna, (5) Knik-Turnagain, (6) Kenai Mainstem, (7) Kenai Tributary, (8) Kasilof Mainstem, (9) Kasilof Tributary, and (10) South Kenai Pen. The data presented in this report will allow for more accurate, precise and finer-scale reporting group estimates for MSA studies in Cook Inlet and improved fisheries management.
Book Synopsis Chinook Salmon and Steelhead Genotyping for Genetic Stock Identification at Lower Granite Dam by : John S. Hargrove
Download or read book Chinook Salmon and Steelhead Genotyping for Genetic Stock Identification at Lower Granite Dam written by John S. Hargrove and published by . This book was released on 2020 with total page 25 pages. Available in PDF, EPUB and Kindle. Book excerpt: This report summarizes progress in the development and implementation of genetic stock identification (GSI) in the Snake River basin for natural-origin steelhead and spring/summer Chinook Salmon for the 01/01/2019 to 12/31/2019 reporting period. Four objectives for the GSI project are addressed in this report: 1) the maintenance and evaluation of single nucleotide polymorphism (SNP) panels for high-throughput genotyping of steelhead and Chinook Salmon in the Snake and Columbia river basins; 2) the updating, maintenance, and testing of SNP baselines to describe genetic variation and for use as a reference in conducting GSI for both species; 3) the implementation of GSI to estimate genetic stock composition and life history diversity of steelhead and spring/summer Chinook Salmon passing Lower Granite Dam (LGR); and 4) the summarization of life history and genetic diversity information for steelhead and spring/summer Chinook Salmon detected at PIT tag detection systems. For both species, panels of up to 379 SNPs have been in use for GSI and parentage-based tagging (PBT) at both Idaho Department of Fish and Game’s Eagle Fish Genetics Lab, and its collaborating laboratory, the Columbia River Inter-Tribal Fish Commission’s Hagerman Genetics Lab. Steelhead SNP baseline version v3.1 consists of 45 collections and 5,967 individuals. Chinook Salmon SNP baseline v3.1 consists of 30 collections and 4,356 individuals. SNP baselines are used to describe genetic diversity and structure of natural-origin populations throughout the Snake River. Based on population structure we have defined 10 genetic stocks for steelhead and 7 genetic stocks for Chinook Salmon for GSI analysis at LGR. We summarize GSI results for returning adults and emigrating juveniles during 2018-2019 at LGR using v3.1 baselines as reference. The information presented in this report provides critical data for viable salmonid population (VSP) monitoring of the Snake River steelhead DPS and the Snake River spring/summer Chinook Salmon ESU.
Book Synopsis Assessing the Validity of Microsatellite DNA Markers for Population Analysis by : Scott Mathew Blankenship
Download or read book Assessing the Validity of Microsatellite DNA Markers for Population Analysis written by Scott Mathew Blankenship and published by . This book was released on 2001 with total page 206 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Chinook Salmon and Steelhead Genotyping for Genetic Stock Identification at Lower Granite Dam by : John S. Hargrove
Download or read book Chinook Salmon and Steelhead Genotyping for Genetic Stock Identification at Lower Granite Dam written by John S. Hargrove and published by . This book was released on 2021 with total page 80 pages. Available in PDF, EPUB and Kindle. Book excerpt: This report summarizes progress in the development and implementation of genetic stock identification (GSI) in the Snake River basin for natural-origin steelhead and spring/summer Chinook Salmon for the 01/01/2020 to 12/31/2020 reporting period. Four objectives for the GSI project are addressed in this report: 1) the maintenance and evaluation of single nucleotide polymorphism (SNP) panels for high-throughput genotyping of steelhead and Chinook Salmon in the Snake and Columbia river basins; 2) the updating, maintenance, and testing of SNP baselines to describe genetic variation and for use as a reference in conducting GSI for both species; 3) the implementation of GSI to estimate genetic stock composition and life history diversity of steelhead and spring/summer Chinook Salmon passing Lower Granite Dam (LGR); and 4) the summarization of life history and genetic diversity information for steelhead and spring/summer Chinook Salmon detected at PIT tag detection systems. For both species, panels of up to 368 SNPs have been in use for GSI and parentage-based tagging (PBT) at both Idaho Department of Fish and Game’s Eagle Fish Genetics Lab, and its collaborating laboratory, the Columbia River Inter-Tribal Fish Commission’s Hagerman Genetics Lab. We present an updated Steelhead SNP baseline version 4, which consists of 43 collections and 2,719 individuals. Chinook Salmon SNP baseline v3.1 consists of 30 collections and 4,356 individuals. SNP baselines are used to describe genetic diversity and structure of natural-origin populations throughout the Snake River. Based on population structure we have defined 10 genetic stocks for steelhead and 7 genetic stocks for Chinook Salmon for GSI analysis at LGR. We summarize GSI results for returning adults and emigrating juveniles during 2019-2020 at LGR using v3.1 baselines as reference for both steelhead and Chinook Salmon. Finally, we describe the life history variation and genetic diversity of steelhead and Chinook Salmon detected at IPTDS. The information presented in this report provides critical data for viable salmonid population (VSP) monitoring of the Snake River steelhead DPS and the Snake River spring/summer Chinook Salmon ESU.
Book Synopsis Yukon River Chinook Salmon Genetic Baseline by : William D. Templin
Download or read book Yukon River Chinook Salmon Genetic Baseline written by William D. Templin and published by . This book was released on 2006 with total page 21 pages. Available in PDF, EPUB and Kindle. Book excerpt: This report presents the results of a survey of 13 microsatellite loci (from a standardized set used by the Pacific Salmon Commission Chinook Technical Committee) in 2646 individual fish representing 11 U.S. Chinook salmon populations.
