Population connectivity and genetic structure of burbot (Lota lota) populations in the Wind River Basin, Wyoming

Underwood, Zachary E.; Mandeville, Elizabeth G.; Walters, Annika W.

doi:10.1007/s10750-015-2422-y

Cited by 30 publications

(26 citation statements)

References 28 publications

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“…To prepare genomic libraries for high throughput DNA sequencing, we first extracted DNA from fin tissue using Qiagen DNeasy Blood & Tissue kits according to the manufacturer's instructions, using a QIAcube robot (Qiagen, Inc.). We then prepared reduced‐complexity genomic libraries according to protocols in Parchman et al (), similar to previous sequencing projects involving fish with similarly sized genomes (Mandeville et al, , ; Underwood, Mandeville, & Walters, ; Walters et al, ). This genotyping‐by‐sequencing method involves first fragmenting DNA using restriction enzymes (EcoRI and MseI), then ligating unique 8–10 base pair (bp) nucleotide barcodes to the DNA of each individual fish.…”

Section: Methodsmentioning

confidence: 99%

Variable hybridization outcomes in trout are predicted by historical fish stocking and environmental context

et al. 2019

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Hybridization can profoundly affect the genomic composition and phenotypes of closely related species, and provides an opportunity to identify mechanisms that maintain reproductive isolation between species. Recent evidence suggests that hybridization outcomes within a species pair can vary across locations. However, we still do not know how variable outcomes of hybridization are across geographic replicates, and what mechanisms drive that variation. In this study, we described hybridization outcomes across 27 locations in the North Fork Shoshone River basin (Wyoming, USA) where native Yellowstone cutthroat trout and introduced rainbow trout co‐occur. We used genomic data and hierarchical Bayesian models to precisely identify ancestry of hybrid individuals. Hybridization outcomes varied across locations. In some locations, only rainbow trout and advanced backcrossed hybrids towards rainbow trout were present, while trout in other locations had a broader range of ancestry, including both parental species and first‐generation hybrids. Later‐generation intermediate hybrids were rare relative to backcrossed hybrids and rainbow trout individuals. Using an individual‐based simulation, we found that outcomes of hybridization in the North Fork Shoshone River basin deviate substantially from what we would expect under null expectations of random mating and no selection against hybrids. Since this deviation implies that some mechanisms of reproductive isolation function to maintain parental taxa and a diversity of hybrid types, we then modelled hybridization outcomes as a function of environmental variables and stocking history that are likely to affect prezygotic barriers to hybridization. Variables associated with history of fish stocking were the strongest predictors of hybridization outcomes, followed by environmental variables that might affect overlap in spawning time and location.

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Section: Methodsmentioning

confidence: 99%

Variable hybridization outcomes in trout are predicted by historical fish stocking and environmental context

et al. 2019

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“…), and Underwood et al . () suggested that although localised burbot movements between lakes and rivers on the same tributary are fairly common, even modest natural barriers can result in distinct populations within the same watershed.…”

Section: Synthesis Of Overall Impacts To Riverine Burbot Populationsmentioning

confidence: 99%

Burbot and large hydropower in North America: benefits, threats and research needs for mitigation

Harrison

Gutowsky

Martins

et al. 2016

Fisheries Management Eco

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In North America, burbot Lota lota (L.), interactions with hydropower are common, southern burbot populations are endangered and hydropower has been implicated in the decline. Thus, the objectives of this review were to identify threats and benefits of hydropower to riverine and reservoir dwelling burbot, assess overall impacts and identify key research needs for mitigation. Review findings suggest that while winter hydropower discharge regimes threaten riverine burbot spawning, burbot often successfully exploit reservoir environments. Further, while turbine entrainment has been hypothesised as a factor in the decline of burbot populations, low adult vulnerability to passage and a high resilience to juvenile removals likely mean risk to populations is low. Identified research needs include better definitions of flow and temperature requirements for riverine burbot and a quantification of the potential for reservoirs to act as source populations for downstream impacted zones. This review highlights the Pacific watershed focus of existing work and calls for status assessments and ecological research of burbot in North American Arctic and Atlantic watersheds where large hydropower and burbot interactions are common yet rarely studied.

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“…We extracted DNA and prepared genomic libraries for all individuals as described by Underwood et al. (; the library preparation method was originally described by Parchman et al. ).…”

Section: Methodsmentioning

confidence: 99%

“…Individuals represented in genomic libraries included those from the Underwood et al. () study, with the addition of Pilot Butte Reservoir, Pilot Butte Canal, and Wyoming Canal. Genomic libraries were sequenced at the Genome Sequencing and Analysis Facility, University of Texas, on the Illumina Hiseq 2500 platform, resulting in 100‐base‐pair, single‐end DNA sequences (“reads”).…”

Section: Methodsmentioning

confidence: 99%

Combining Genetic, Isotopic, and Field Data to Better Describe the Influence of Dams and Diversions on Burbot Movement in the Wind River Drainage, Wyoming

et al. 2018

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Dams and water diversions fragment habitat, entrain fish, and alter fish movement. Many Burbot Lota lota populations are declining, with dams and water diversions thought to be a major threat. We used multiple methods to identify Burbot movement patterns and assess entrainment into an irrigation system in the Wind River, Wyoming. We assessed seasonal movement of Burbot with a mark–recapture (PIT tagging) study, natal origins of entrained fish with otolith microchemistry, and historic movement with genotyping by sequencing. We found limited evidence of entrainment in irrigation waters across all approaches. The mark–recapture study indicated that out‐migration from potential source populations could be influenced by flow regime but was generally low. Otolith and genomic results suggested the presence of a self‐sustaining population within the irrigation network. We conclude that emigration from natural tributary populations is not the current source of the majority of Burbot found in irrigation waters. Instead, reservoir and irrigation canal construction has created novel habitat in which Burbot have established a population. Using a multi‐scale approach increased our inferential abilities and mechanistic understanding of movement patterns between natural and managed systems.

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Population connectivity and genetic structure of burbot (Lota lota) populations in the Wind River Basin, Wyoming

Cited by 30 publications

References 28 publications

Variable hybridization outcomes in trout are predicted by historical fish stocking and environmental context

Variable hybridization outcomes in trout are predicted by historical fish stocking and environmental context

Burbot and large hydropower in North America: benefits, threats and research needs for mitigation

Combining Genetic, Isotopic, and Field Data to Better Describe the Influence of Dams and Diversions on Burbot Movement in the Wind River Drainage, Wyoming

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