Geology topics

Suresh Sethi

Publications and source records attributed to Suresh Sethi.

At least 19 recordsLinked to original sources

USGS2023

Prey ration, temperature, and predator species influence digestion rates of prey DNA inferred from qPCR and metabarcoding

Diet analysis is a vital tool for understanding trophic interactions and is frequently used to inform conservation and management. Molecular approaches can identify diet items that are impossible to distinguish using more traditional visual-based methods. Yet, our understanding of how different variables, such as predator species or prey ration size, influence molecular diet analysis is still incomplete. Here, we conducted a large feeding trial to assess the impact that ration size, predator species, and temperature had on digestion rates estimated with visual identification, qPCR, and metabarcoding. Our trial was conducted by feeding two rations of Chinook salmon ( Oncorhynchus tshawytscha ) to two piscivorous fish species (largemouth bass [ Micropterus salmoides ] and channel catfish [ Ictalurus punctatus ]) held at two different temperatures (15.5 and 18.5°C) and sacrificed at regular intervals up to 120 h from the time of ingestion to quantify the prey contents remaining in the digestive tract. We found that ration size, temperature, and predator species all influenced digestion rate, with some indication that ration size had the largest influence. DNA-based analyses were able to identify salmon smolt prey in predator gut samples for much longer than visual analysis (~12 h for visual analysis vs. ~72 h for molecular analyses). Our study provides evidence that modelling the persistence of prey DNA in predator guts for molecular diet analyses may be feasible using a small set of controlling variables for many fish systems.

Molecular Ecology Resources↗

USGS2023

Parentage-based tagging using mothers balances accuracy and cost for discriminating between natural and stocked recruitment for inland fisheries

Hatchery programmes are frequently used to supplement inland fisheries, yet achieving successful management outcomes often requires information on stocked versus naturally reproduced fish abundance. Parentage-based tagging – genetically assigning offspring to their parents – has potential to be an effective approach for distinguishing stocked and naturally reproduced fish. However, several challenges may limit its application to inland fisheries, including genetic relatedness among populations that can affect identification accuracy and high costs of genotyping large broodstocks. Here, we demonstrate the efficacy of parentage-based tagging based on broodmothers in the Lake Ontario Chinook Salmon fishery, which uses thousands of broodparents and has potential for substantial relatedness between stocked and naturally reproduced fish. Restricting parent sampling to broodmothers reduced costs by two-thirds, was logistically pragmatic, and achieved >95% accuracy in distinguishing stocked from naturally reproduced salmon. Combined, these results highlight the potential wide applicability of parentage-based tagging for assessing stocking programmes in inland waters.

New York, Ontario↗

USGS2023

Elodea mediates juvenile salmon growth by altering physical structure in freshwater habitats

Invasive species introductions in high latitudes are accelerating and elevating the need to address questions of their effects on Subarctic and Arctic ecosystems. As a driver of ecosystem function, submerged aquatic vegetation is one of the most deleterious biological invasions to aquatic food webs. The aquatic plant Elodea spp. has potential to be a widespread invader to Arctic and Subarctic ecosystems and is already established in 19 waterbodies in Alaska, USA. Elodea spp. has been found to alter ecosystem processes through multiple pathways; yet little is known about the impact of Elodea spp. on fish life history. A primary concern is the effect of Elodea spp. on juvenile Pacific salmon ( Oncorhynchus spp.), because this invading plant can form dense stands in littoral zones, potentially impacting important freshwater rearing habitats used by juvenile fish for foraging and refuge from predators. We used a field experiment to test the effect of Elodea spp. on juvenile coho salmon ( O. kisutch ) growth in an infested lake near Cordova, Alaska, USA. We found that Elodea spp. stands result in reduced growth and a lower trophic position for juvenile coho salmon over the summer compared to habitats dominated by a native assemblage of aquatic plants. While infested sites were not associated with significant changes in water condition or primary productivity compared to sites dominated by native vegetation, zooplankton densities were reduced, and Elodea spp. height and vegetation richness increased macroinvertebrate densities. Combined, these results indicate that Elodea spp. may alter the flow of energy to juvenile salmon by restructuring space and affecting prey resources for rearing fish. Furthermore, these results suggest that widespread establishment of Elodea spp. may alter the quality of habitat for juvenile salmon and, by affecting juvenile fish growth, could lead to population-level impacts on salmon returns.

Biological Invasions↗

USGS2022

Juvenile salmon habitat use drives variation in growth and highlights vulnerability to river fragmentation

Widespread stream network fragmentation from dams and culverts has altered habitat connectivity in river ecosystems and presents an acute threat to migratory fish. To support watershed management for an iconic migratory fish group, we assessed juvenile salmon growth outcomes across habitat use strategies and characterized how these life histories may be impacted by stream connectivity loss. Juvenile coho salmon ( Oncorhynchus kisutch ) in the Big Lake drainage, Alaska, USA, were individually tracked over 2012–2013 and categorized into habitat use behaviors, with fish either remaining in streams throughout freshwater residency or migrating seasonally to overwinter in lake habitats. Size, growth rate, and body condition of smolts ( n = 1113) were compared across habitat use strategies. Juvenile coho salmon that moved seasonally to lake overwintering habitats, the most frequently observed strategy, grew faster and were significantly larger as smolts compared to their counterparts who remained in streams exclusively (spring Age 1 fish: 18% larger by weight, 9% faster growth rate; spring Age 2+ fish: 26% heavier, 11% faster growth). Environmental data from a subset of overwinter lakes indicate that greater foraging opportunity and lower energy costs may be implicated in growth advantages conferred by lentic overwintering strategies. Habitat use strategies requiring seasonal migrations, however, increased exposure to stream connectivity loss, and fish blocked from accessing a potential overwinter headwater lake by a culvert and dam had lowest body condition among study groups. Stream network fragmentation restricts access to preferred overwinter habitats, and our findings suggest this may constrain freshwater rearing strategies associated with strong juvenile coho salmon growth. As size at smolt has been implicated as a driver of salmon survival through ocean residency, reduced freshwater habitat connectivity during juvenile stages may have deleterious impacts on later marine life stages. Consequently, conservation of stream connectivity across lentic and lotic habitats represents an important watershed management priority for juvenile salmon.

Alaska↗

USGS2022

Biodiversity underpins fisheries resilience to exploitation in the Amazon River basin.

Inland fisheries feed greater than 150 million people globally, yet their status is rarely assessed due to their socio-ecological complexity and pervasive lack of data. Here, we leverage an unprecedented landings time series from the Amazon, Earth's largest river basin, together with theoretical food web models to examine (i) taxonomic and trait-based signatures of exploitation in inland fish landings and (ii) implications of changing biodiversity for fisheries resilience. In both landings time series and theory, we find that multi-species exploitation of diverse inland fisheries results in a hump-shaped landings evenness curve. Along this trajectory, abundant and large species are sequentially replaced with faster growing and smaller species. Further theoretical analysis indicates that harvests can be maintained for a period of time but that continued biodiversity depletion reduces the pool of compensating species and consequently diminishes fisheries resilience. Critically, higher fisheries biodiversity can delay fishery collapse. Although existing landings data provide an incomplete snapshot of long-term dynamics, our results suggest that multi-species exploitation is affecting freshwater biodiversity and eroding fisheries resilience in the Amazon. More broadly, we conclude that trends in landings evenness could characterize multi-species fisheries development and aid in assessing their sustainability.

Amazon River basin↗

USGS2022

Round Goby captured in a North American estuary: Status and implications in the Hudson River, New York

Round Goby Neogobius melanostomus , a nonnative fish species to North America, has been rapidly expanding through the connected waterways of the Laurentian Great Lakes. Herein, we document the eastward and southern expansion of Round Goby into the Hudson River, New York, an iconic coastal estuary that drains to Long Island Sound and the Atlantic seaboard. In summer and early fall 2021, routine fish monitoring conducted by the New York State Department of Environmental Conservation documented a population of Round Goby in the tidal portion of the Hudson River. Over the course of monitoring in 2021, personnel collected 112 Round Goby between Albany, New York, and Poughkeepsie, New York, with the southernmost collection occurring approximately 140 km downstream of invasion front as reported in 2020 within the New York State Canal System. Although Round Goby previously colonized large rivers and streams in the Great Lakes watershed, there is little information about the invasion success and ecological impacts of Round Goby in estuarine environments in North America. We discuss the distribution and biological characteristics of the Hudson River Round Goby population as well as the potential ecological implications and areas of future research and monitoring for this range expansion.

New York↗

USGS2022

Ecological and social strategies for managing fisheries using the Resist-Accept-Direct (RAD) framework

Fisheries management is a complex task made even more challenging by rapid and unprecedented socioecological transformations associated with climate change. The Resist-Accept-Direct (RAD) framework can be a useful tool to support fisheries management in facing the high uncertainty and variability associated with aquatic ecosystem transformations. Here, RAD strategies are presented to address ecological goals for aquatic ecosystems and social goals for fisheries. These strategies are mapped on a controllability matrix which explores the ability to guide a system's behaviour towards a desired state based on ecological responsiveness and societal receptivity to change. Understanding and improving the controllability of aquatic systems and fisheries can help managers to maintain the broadest suite of available RAD management strategies.

Fisheries Management and Ecology↗

USGS2022

A machine learning approach to identify barriers in stream networks demonstrates high prevalence of unmapped riverine dams

Restoring stream ecosystem integrity by removing unused or derelict dams has become a priority for watershed conservation globally. However, efforts to restore connectivity are constrained by the availability of accurate dam inventories which often overlook smaller unmapped riverine dams. Here we develop and test a machine learning approach to identify unmapped dams using a combination of publicly available topographic and geospatial habitat data. Specifically, we trained a random forest classification algorithm to identify unmapped dams using digitally engineered predictor variables and known dam sites for validation. We applied our algorithm to two subbasins in the Hudson River watershed, USA , and quantified connectivity impacts, as well as evaluated a range of predictor sets to examine tradeoffs between classification accuracy and model parameterization effort. The random forest classifier achieved high accuracy in predicting dam sites (true positive rate = 89%, false positive rate = 1.2%) using a subset of variables related to stream slope and presence of upstream lentic habitats. Unmapped dams were prevalent throughout the two test watersheds. In fact, existing dam inventories underestimated the true number of dams by ∼80–94%. Accounting for previously unmapped dams resulted in a 62–90% decrease in dendritic connectivity indices for migratory fishes. Unmapped dams may be pervasive and can dramatically bias stream connectivity information. However, we find that machine learning approaches can provide an accurate and scalable means of identifying unmapped dams that can guide efforts to develop accurate dam inventories, thereby informing and empowering efforts to better manage them.

New York↗

USGS2022

Contemporary spatial extent and environmental drivers of larval coregonine distributions across Lake Ontario

Coregonine fishes are important to Laurentian Great Lakes food webs and fisheries and are central to basin-wide conservation initiatives. In Lake Ontario, binational management objectives include conserving and restoring spawning stocks of cisco ( Coregonus artedi ) and lake whitefish ( C. clupeaformis ), but the spatial extent of contemporary coregonine spawning habitat and the environmental factors regulating early life success are not well characterized. In Spring 2018, we conducted a binational ichthyoplankton assessment to describe the spatial extent of coregonine spawning habitat across Lake Ontario. We then quantified the relative importance of a suite of biophysical variables hypothesized to influence coregonine early life success using generalized additive mixed models and multimodel inference. Between April 10 and May 14, we conducted 1,092 ichthyoplankton tows and captured 2,350+ coregonine larvae across 17 sampling areas, predominantly within embayments. Although 95% of catches were in the eastern basin, coregonine larvae were also found in historical south shore spawning areas. Most coregonine larvae were cisco; <6% were lake whitefish. Observed catches of both species across sampling areas were strongly and similarly associated with ice cover duration, but the importance of site-specific characteristics varied, such as distance to shore and site depth for cisco and lake whitefish, respectively. These results suggest that regional-scale climatic drivers and local environmental habitat characteristics interact to regulate early life stage success. Furthermore, strong regional and cross-species variation in larval distributions emphasize the importance of lake-wide assessments for monitoring both the current eastern basin populations and potential expansions into western Lake Ontario habitats.

Lake Ontario↗

USGS2022

Balancing prey availability and predator consumption: A multispecies stock assessment for Lake Ontario

Trophic interactions are drivers of ecosystem change and stability, yet are often excluded from fishery assessment models, despite their potential capacity to improve estimates of species dynamics and future fishery sustainability. In Lake Ontario, recreational salmonine fisheries, including Chinook salmon ( Oncorhynchus tshawytscha ) and lake trout ( Salvelinus namaycush ), depend on a single prey species, alewife ( Alosa pseudoharengus ). To accommodate strong trophic interactions among species, we developed a multispecies statistical catch-at-age assessment (MSCAA) model that links the dynamics of the salmonine fisheries and alewife via prey consumption and predator growth. We found that prey availability had declined since 2015 due to decreased alewife recruitment and increased Chinook salmon biomass, leading to higher alewife mortality rates and lower predator growth rates. Forward projections of predator–prey dynamics suggest that Chinook salmon stocking reductions may improve the probability for alewife population growth, but could be counteracted by increased natural Chinook salmon recruitment. Combined with predator- and prey-monitoring efforts, multispecies assessments show promise as models of intermediate complexity to support a transition to ecosystem-based approaches to fisheries management.

Lake Ontario↗

USGS2021

RAD adaptive management for transforming ecosystems

Intensifying global change is propelling many ecosystems toward irreversible transformations. Natural resource managers face the complex task of conserving these important resources under unprecedented conditions and expanding uncertainty. As once familiar ecological conditions disappear, traditional management approaches that assume the future will reflect the past are becoming increasingly untenable. In the present article, we place adaptive management within the resist–accept–direct (RAD) framework to assist informed risk taking for transforming ecosystems. This approach empowers managers to use familiar techniques associated with adaptive management in the unfamiliar territory of ecosystem transformation. By providing a common lexicon, it gives decision makers agency to revisit objectives, consider new system trajectories, and discuss RAD strategies in relation to current system state and direction of change. Operationalizing RAD adaptive management requires periodic review and update of management actions and objectives; monitoring, experimentation, and pilot studies; and bet hedging to better identify and tolerate associated risks.

BioScience↗

USGS2021

Diversity in spawning habitat use among Great Lakes Cisco populations

Cisco ( Coregonus artedi ) once dominated fish communities in the Laurentian Great Lakes. Restoring the abundance and distribution of this species has emerged as a management priority, yet our understanding of Cisco spawning habitat use is insufficient to characterise habitat needs for these populations and assess whether availability of suitable spawning habitat could be a constraint to recovery. We characterised the distribution of incubating Cisco eggs in situ across gradients of depth and substrate types to describe the spawning habitat used by three Great Lakes populations. In Chaumont Bay, Lake Ontario, eggs were concentrated on shallow bedrock shoals and not found on deeper silt or sand substrate. In contrast, eggs in Thunder Bay, Lake Superior, and Elk Rapids, Lake Michigan, were found on deeper fine grain sediments with low utilisation of shallow rocky and cobble habitats. These patterns of egg incubation habitat use suggest a broad spawning habitat niche at the species level but distinct spawning habitat preferences at the population level. While our results indicate some historical diversity in spawning habitat use has been maintained across the species’ range in the Great Lakes, comparisons of contemporary spawning habitat utilisation against historical accounts raise questions as to whether some spawning habitat use behaviours may no longer be prevalent within specific lakes. Thus, characterising the portfolio of spawning strategies remaining within lakes may improve our understanding of habitat needs and identify opportunities to maintain population diversity while supporting Cisco rehabilitation.

Michigan, New York↗

USGS2021

Managing for RADical ecosystem change: Applying the Resist-Accept-Direct (RAD) framework

Ecosystem transformation involves the emergence of persistent ecological or social–ecological systems that diverge, dramatically and irreversibly, from prior ecosystem structure and function. Such transformations are occurring at increasing rates across the planet in response to changes in climate, land use, and other factors. Consequently, a dynamic view of ecosystem processes that accommodates rapid, irreversible change will be critical for effectively conserving fish, wildlife, and other natural resources, and maintaining ecosystem services. However, managing ecosystems toward states with novel structure and function is an inherently unpredictable and difficult task. Managers navigating ecosystem transformation can benefit from considering broader objectives, beyond a traditional focus on resisting ecosystem change, by also considering whether accepting inevitable change or directing it along some desirable pathway is more feasible (that is, practical and appropriate) under some circumstances (the RAD framework). By explicitly acknowledging transformation and implementing an iterative RAD approach, natural resource managers can be deliberate and strategic in addressing profound ecosystem change.

Frontiers in Ecology and the Environment↗

USGS2021

Substitution of inland fisheries with aquaculture and chicken undermines human nutrition in the Peruvian Amazon

With declining capture fisheries production, maintaining nutrient supplies largely hinges on substituting wild fish with economically comparable farmed animals. Although such transitions are increasingly commonplace across global inland and coastal communities, their nutritional consequences are unknown. Here, using human demographic and health information, and fish nutrient composition data from the Peruvian Amazon, we show that substituting wild inland fisheries with chicken and aquaculture has the potential to exacerbate iron deficiencies and limit essential fatty acid supplies in a region already experiencing high prevalence of anaemia and malnutrition. Substituting wild fish with chicken, however, can increase zinc and protein supplies. Chicken and aquaculture production also increase greenhouse gas emissions, agricultural land use and eutrophication. Thus, policies that enable access to wild fisheries and their sustainable management while improving the quality, diversity and environmental impacts of farmed species will be instrumental in ensuring healthy and sustainable food systems.

Peruvian Amazon↗

USGS2021

Connectivity between lentic and lotic freshwater habitats identified as a conservation priority for coho salmon

Juvenile Pacific salmon exhibit diverse habitat use and migration strategies to navigate high environmental variability and predation risk during freshwater residency. Increasingly, urbanization and climate-driven hydrological alterations are affecting the availability and quality of aquatic habitats in salmon catchments. Thus, conservation of freshwater habitat integrity has emerged as an important challenge in supporting salmon life-history diversity as a buffer against continuing ecosystem changes. To inform catchment management for salmon, information on the distribution and movement dynamics of juvenile fish throughout the annual seasonal cycle is needed. A number of studies have assessed the ecology of juvenile coho salmon ( Oncorhynchus kisutch ) during summer and autumn seasons; catchment use by this species throughout the annual cycle is less well characterized, particularly in high-latitude systems. Here, n = 3,792 tagged juvenile coho salmon were tracked throughout two complete annual cycles to assess basin-wide distribution and movement behaviour of this species in a subarctic, ice-bearing catchment. Juvenile coho salmon in the Big Lake basin, Alaska, exhibited multiple habitat use and movement strategies across seasons; however, summer rearing in lotic mainstem environments followed by migration to lentic overwinter habitats was identified as a prominent behaviour, with two-thirds of tracked fish migrating en masse to concentrate in a small subset of upper catchment lakes for the winter. In contrast, the most significant tributary overwintering site (8% of tracked fish) occurred below a culvert and dam, blocking juvenile fish passage to a headwater lake, indicating that these fish may have been restricted from reaching preferred lentic overwinter habitats. These findings emphasize the importance of maintaining aquatic connectivity to lentic habitats as a conservation priority for coho salmon during freshwater residency.

Aquatic Conservation: Marine and Freshwater Ecosys↗

USGS2021

Nuclear eDNA estimates population allele frequencies and abundance in experimental mesocosms

Advances in environmental DNA (eDNA) methodologies have led to improvements in the ability to detect species and communities in aquatic environments, yet the majority of studies emphasize biological diversity at the species level by targeting variable sites within the mitochondrial genome. Here, we demonstrate that eDNA approaches also have the capacity to detect intraspecific diversity in the nuclear genome, allowing for assessments of population-level genetic diversity and estimates of the number of genetic contributors in a sample. Using a panel of microsatellite loci, we evaluated intraspecific genetic diversity in the round goby (Neogobius melanostomus) using eDNA samples from experimental mesocosms. First, we tested the similarity between eDNA and individual tissue-based estimates of allele frequencies. Subsequently, we used a likelihood-based DNA mixture framework to estimate the number of unique genetic contributors in mesocosm eDNA samples and in simulated mixtures of alleles. Allele frequencies from eDNA accurately reflected allele frequencies from genotyped round goby tissue samples, indicating nuclear markers can be reliably amplified from water samples under controlled conditions. DNA mixture analyses were able to estimate the number of genetic contributors from eDNA samples and simulated mixtures of DNA from up to 58 individuals, with the degree of positive or negative bias dependent on the filtering scheme of low-frequency alleles. This study is the first to document the application of eDNA and multiple amplicon-based methods to obtain intraspecific nuclear genetic information and estimate the absolute abundance of a species in mesocosms. With proper validation, this approach has the potential to advance non-invasive survey methods to characterize populations and broadens the application of eDNA methodologies to inform population-level management objectives.

New York↗

USGS2021

Marine ecotourism for small pelagics as a source of alternative income generating activities to fisheries in a tropical community

Overharvest has led to marine ecosystem degradation and declining fishery catches in many tropical communities. To allow stocks to recover and provide increased flows of food and income, reductions in fishing effort are necessary. The development of Alternative Income Generating Activities can help to reduce the economic reliance of coastal communities on fishing, potentially reducing pressure on fish stocks. Here we assess the local conditions which have enabled the creation of Alternative Income Generating Activities to fishing based on marine ecotourism in Moalboal, Philippines. Importantly, while marine ecotourism typically centers around charismatic megafauna, a combination of nearshore fringing reefs, the establishment of nearshore marine protected areas and the occurrence of a massive herring aggregation provide a large tourism draw to this community. Using a combination of regional and local economic statistics and stakeholder surveys, we implement an economic valuation of the Moalboal marine ecotourism for 2018 and compare this valuation to an independent estimate of the extractive value of the herring aggregation. The Moalboal case indicates that a combination of strong community engagement in the governance of the ecotourism resource, a network of locally managed marine protected areas and the retention and distribution of economic benefits within the local community have led to a significant marine ecotourism sector. We contextualize these conditions into a set of potential enabling conditions for marine ecotourism as an Alternative Income Generating Activity to fishing to contribute insights to diversifying livelihood opportunities beyond extractive fishing for coastal communities in the tropics.

Moalboal, Cebu Island↗

USGS2021

Climate change may impair electricity generation and economic viability of future Amazon hydropower

Numerous hydropower facilities are under construction or planned in tropical and subtropical rivers worldwide. While dams are typically designed considering historic river discharge regimes, climate change may induce large-scale alterations in river hydrology. Here we analyze how future climate change will affect river hydrology, electricity generation, and economic viability of > 350 potential hydropower dams across the Amazon, Earth’s largest river basin and a global hotspot for future hydropower development. Midcentury projections for the RCP 4.5 and 8.5 climate change scenarios show basin-wide reductions of river discharge (means, 13 and 16%, respectively) and hydropower generation (19 and 27%). Declines are sharper for dams in Brazil, which harbors 60% of the proposed projects. Climate change will cause more frequent low-discharge interruption of hydropower generation and less frequent full-capacity operation. Consequently, the minimum electricity sale price for projects to break even more than doubles at many proposed dams, rendering much of future Amazon hydropower less competitive than increasingly lower cost renewable sources such as wind and solar. Climate-smart power systems will be fundamental to support environmentally and financially sustainable energy development in hydropower-dependent regions.

Global Environmental Change↗