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USGS2009

Methods for Estimating Water Withdrawals for Aquaculture in the United States, 2005

Aquaculture water use is associated with raising organisms that live in water - such as finfish and shellfish - for food, restoration, conservation, or sport. Aquaculture production occurs under controlled feeding, sanitation, and harvesting procedures primarily in ponds, flow-through raceways, and, to a lesser extent, cages, net pens, and tanks. Aquaculture ponds, raceways, and tanks usually require the withdrawal or diversion of water from a ground or surface source. Most water withdrawn or diverted for aquaculture production is used to maintain pond levels and/or water quality. Water typically is added for maintenance of levels, oxygenation, temperature control, and flushing of wastes. This report documents methods used to estimate withdrawals of fresh ground water and surface water for aqua-culture in 2005 for each county and county-equivalent in the United States, Puerto Rico, and the U.S. Virgin Islands by using aquaculture statistics and estimated water-use coefficients and water-replacement rates. County-level data for commercial and noncommercial operations compiled for the 2005 Census of Aquaculture were obtained from the National Agricultural Statistics Service. Withdrawals of water used at commercial and noncommercial operations for aquaculture ponds, raceways, tanks, egg incubators, and pens and cages for alligators were estimated and totaled by ground-water or surface-water source for each county and county equivalent. Use of the methods described in this report, when measured or reported data are unavailable, could result in more consistent water-withdrawal estimates for aquaculture that can be used by water managers and planners to determine water needs and trends across the United States. The results of this study were distributed to U.S. Geological Survey water-use personnel in each State during 2007. Water-use personnel are required to submit estimated withdrawals for all categories of use in their State to the U.S. Geological Survey National Water-Use Information Program for inclusion in a national report describing water use in the United States during 2005. Water-use personnel had the option of submitting the estimates determined by using the methods described in this report, a modified version of these estimates, their own set of estimates, or reported data for the aquaculture category. Estimated withdrawals resulting from the method described in this report are not presented herein to avoid potential inconsistencies with estimated withdrawals for aquaculture that will be presented in the national report, as different methods used by water-use personnel may result in different withdrawal estimates. Estimated withdrawals also are not presented to avoid potential disclosure of confidential information for individual aquaculture operations.

Scientific Investigations Report↗

USGS2025

Local perceptions of marine conservation aquaculture for the restoration of native Atlantic salmon (Salmo salar) in Downeast, Maine

The entities responsible for the management of the endangered Gulf of Maine Distinct Population Segment of Atlantic salmon ( Salmo salar ) have partnered with a commercial aquaculture company to apply a novel conservation aquaculture program. This effort marks a major shift in management and has garnered mixed public reactions. Recent expansion of aquaculture in Maine has been a point of controversy as people and systems grapple with the social, environmental, and legal aspects of this burgeoning industry. Still, the use of aquaculture for conservation has shown some promise. In 2021, a questionnaire was administered to 850 households (response rate 27 %) in Maine via the Drop-off and Pick-up method. We examined differences and similarities in attitudes, beliefs, and knowledge about Atlantic salmon, hatcheries, and aquaculture between property owners in the town where the proposed net pens would be located (Cutler; n=73), and those in neighboring towns (n=152). The Potential for Conflict Index (PCI 2 ) was used to examine differences between the groups. Both groups held similar positive attitudes toward Atlantic salmon, endangered species conservation, freshwater hatcheries, and both commercial and conservation aquaculture. Both groups believe that “ Atlantic salmon should be protected, ” and that freshwater hatcheries and marine conservation aquaculture “ should be used for conservation. ” However, Cutler residents had less consensus and supported the use of freshwater hatcheries and marine conservation aquaculture less than other respondents. Community concerns have stalled efforts to move the project forward. Our research indicates there are several social concepts which may help to explain localized opposition to the project.

Maine↗

USGS2018

Intensive oyster aquaculture can reduce disease impacts on sympatric wild oysters

Risks associated with disease spread from fish and shellfish farming have plagued the growth and public perception of aquaculture worldwide. However, by processing nutrients and organic material from the water column, the culture of many suspension-feeding bivalves has been proposed as a novel solution toward mitigating problems facing coastal water quality, including the removal of disease-causing parasites. Here we developed and simulated an epidemiological model describing sympatric oyster Crassostrea virginica populations in aquaculture and the wild impacted by the protozoan parasite Perkinsus marinus . Our model captured the indirect interaction between wild and cultured populations that occurs through sharing water-borne P. marinus transmission stages, and we hypothesized that oyster aquaculture can enhance wild oyster populations through reduced parasitism as long as cultured oysters are harvested prior to spreading disease. We found that the density of oysters in aquaculture, which is commonly thought to lead to the spread of disease through farms and out to nearby populations in the wild, has only indirect effects on P. marinus transmission through its interaction with the rate of aquaculture harvests. Sufficient aquaculture harvest, which varies with the susceptibility of farmed oysters to P. marinus infection and their lifespan once infected, reduces disease by diluting parasites in the environment. Our modeling results offer new insights toward the broader epidemiological implications of oyster aquaculture and effective disease management.

Aquaculture Environment Interactions↗

USGS2022

Modeling protected species distributions and habitats to inform siting and management of pioneering ocean industries: A case study for Gulf of Mexico aquaculture

Marine Spatial Planning (MSP) provides a process that uses spatial data and models to evaluate environmental, social, economic, cultural, and management trade-offs when siting (i.e., strategically locating) ocean industries. Aquaculture is the fastest-growing food sector in the world. The United States (U.S.) has substantial opportunity for offshore aquaculture development given the size of its exclusive economic zone, habitat diversity, and variety of candidate species for cultivation. However, promising aquaculture areas overlap many protected species habitats. Aquaculture siting surveys, construction, operations, and decommissioning can alter protected species habitat and behavior. Additionally, aquaculture-associated vessel activity, underwater noise, and physical interactions between protected species and farms can increase the risk of injury and mortality. In 2020, the U.S. Gulf of Mexico was identified as one of the first regions to be evaluated for offshore aquaculture opportunities as directed by a Presidential Executive Order. We developed a transparent and repeatable method to identify aquaculture opportunity areas (AOAs) with the least conflict with protected species. First, we developed a generalized scoring approach for protected species that captures their vulnerability to adverse effects from anthropogenic activities using conservation status and demographic information. Next, we applied this approach to data layers for eight species listed under the Endangered Species Act, including five species of sea turtles, Rice’s whale, smalltooth sawfish, and giant manta ray. Next, we evaluated four methods for mathematically combining scores (i.e., Arithmetic mean, Geometric mean, Product, Lowest Scoring layer) to generate a combined protected species data layer. The Product approach provided the most logical ordering of, and the greatest contrast in, site suitability scores. Finally, we integrated the combined protected species data layer into a multi-criteria decision-making modeling framework for MSP. This process identified AOAs with reduced potential for protected species conflict. These modeling methods are transferable to other regions, to other sensitive or protected species, and for spatial planning for other ocean-uses.

PLoS ONE↗

USGS2015

Effects of geoduck (Panopea generosa) aquaculture on resident and transient macrofauna communities of Puget Sound, Washington, USA

In Washington state, commercial culture of geoducks ( Panopea generosa ) involves large-scale out-planting of juveniles to intertidal habitats, and installation of PVC tubes and netting to exclude predators and increase early survival. Structures associated with this nascent aquaculture method are examined to determine whether they affect patterns of use by resident and transient macrofauna. Results are summarized from regular surveys of aquaculture operations and reference beaches in 2009 to 2011 at three sites during three phases of culture: (1) pregear (-geoducks, -structure), (2) gear present (+geoducks, +structures), and (3) postgear (+geoducks, -structures). Resident macroinvertebrates (infauna and epifauna) were sampled monthly (in most cases) using coring methods at low tide during all three phases. Differences in community composition between culture plots and reference areas were examined with permutational analysis of variance and homogeneity of multivariate dispersion tests. Scuba and shoreline transect surveys were used to examine habitat use by transient fish and macroinvertebrates. Analysis of similarity and complementary nonmetric multidimensional scaling were used to compare differences between species functional groups and habitat type during different aquaculture phases. Results suggest that resident and transient macrofauna respond differently to structures associated with geoduck aquaculture. No consistent differences in the community of resident macrofauna were observed at culture plots or reference areas at the three sites during any year. Conversely, total abundance of transient fish and macroinvertebrates were more than two times greater at culture plots than reference areas when aquaculture structures were in place. Community composition differed (analysis of similarity) between culture and reference plots during the gear-present phase, but did not persist to the next farming stage (postgear). Habitat complexity associated with shellfish aquaculture may attract some structure-associated transient species observed infrequently on reference beaches, and may displace other species that typically occur in areas lacking epibenthic structure. This study provides a first look at the effects of multiple phases of geoduck farming on macrofauna, and has important implications for the management of a rapidly expanding sector of the aquaculture industry.

Washington↗

USGS2009

The effects of aquaculture production noise on the growth, condition factor, feed conversion, and survival of rainbow trout, Oncorhynchus mykiss

Intensive aquaculture systems, particularly recirculating systems, utilize equipment such as aerators, air and water pumps, blowers, and filtration systems that inadvertently increase noise levels in fish culture tanks. Sound levels and frequencies measured within intensive aquaculture systems are within the range of fish hearing, but species-specific effects of aquaculture production noise are not well defined. Field and laboratory studies have shown that fish behavior and physiology can be negatively impacted by intense sound. Therefore, chronic exposure to aquaculture production noise could cause increased stress, reduced growth rates and feed conversion efficiency, and decreased survival. The objective of this study was to provide an in-depth evaluation of the long term effects of aquaculture production noise on the growth, condition factor, feed conversion efficiency, and survival of cultured rainbow trout, Oncorhynchus mykiss. Rainbow trout were cultured in replicated tanks using two sound treatments: 117??dB re 1????Pa RMS which represented sound levels lower than those recorded in an intensive recycle system and 149??dB re 1????Pa RMS, representing sound levels near the upper limits known to occur in recycle systems. To begin the study mean fish weights in the 117 and 149??dB tanks were 40 and 39??g, respectively. After five months of exposure no significant differences were identified between treatments for mean weight, length, specific growth rates, condition factor, feed conversion, or survival (n = 4). Mean final weights for the 117 and 149??dB treatments were 641 ?? 3 and 631 ?? 10??g, respectively. Overall specific growth rates were equal, i.e. 1.84 ?? 0.00 and 1.84 ?? 0.01%/day. Analysis of growth rates of individually tagged rainbow trout indicated that fish from the 149??dB tanks grew slower during the first month of noise exposure (p < 0.05); however, fish acclimated to the noise thereafter. This study further suggests that rainbow trout growth and survival are unlikely to be affected over the long term by noise levels common to intensive aquaculture systems. ?? 2008 Elsevier B.V.

Aquaculture↗

USGS2016

Potential drivers of virulence evolution in aquaculture

Infectious diseases are economically detrimental to aquaculture, and with continued expansion and intensification of aquaculture, the importance of managing infectious diseases will likely increase in the future. Here, we use evolution of virulence theory, along with examples, to identify aquaculture practices that might lead to the evolution of increased pathogen virulence. We identify eight practices common in aquaculture that theory predicts may favor evolution toward higher pathogen virulence. Four are related to intensive aquaculture operations, and four others are related specifically to infectious disease control. Our intention is to make aquaculture managers aware of these risks, such that with increased vigilance, they might be able to detect and prevent the emergence and spread of increasingly troublesome pathogen strains in the future.

Evolutionary Applications↗

USGS2025

Freshwater turtle assemblages and densities in agricultural ditches and aquaculture ponds of eastern Arkansas

The Mississippi Alluvial Plain (MAP) of Arkansas is a landscape where many wetlands have been altered for use as aquaculture ponds or agricultural ditches. Commercial harvest of freshwater turtles within the MAP is not restricted or limited, with reported harvest numbers for 2019 alone exceeding 4000 for spiny softshell turtles ( Apalone spinifera ) and 39,000 for red-eared sliders ( Trachemys scripta elegans ). Herein, we attempt to provide baseline estimates of freshwater turtle densities and community composition in aquaculture ponds and agricultural ditches of eastern Arkansas, the habitat types most frequently trapped by commercial harvesters. We used a capture–mark–recapture approach over 3 summers (2019–2021) to evaluate population densities and community composition of freshwater turtles in these anthropogenic aquatic habitats. We captured > 4000 individuals of 9 species of turtle. One species, the red-eared slider, dominated the turtle community in both anthropogenic aquatic habitats, comprising 66% (± 22% SD) of all captures in agricultural ditches and 63% (± 32% SD) in aquaculture ponds. Diversity and richness did not differ between aquaculture ponds and agricultural ditches. We estimated densities of the 2 most commonly captured species, the red-eared slider and spiny softshell turtle. Density of red-eared sliders ranged from 0 turtles/unit area (linear kilometers in ditches or hectares in ponds) to 500 turtles/unit area, with a median of 37 turtles/unit area. The spiny softshell turtle was more frequently captured in ponds than ditches and attained average densities of 25 (± 19) turtles/ha and 7 (± 4) turtles/linear km, respectively. Our mean density estimates were lower than those in reported literature, including estimates from similar habitats, such as urban ditches and farm ponds, which resemble our study sites in structure, use, and geographical placement. We estimate the region contains 22,317 ha of aquaculture ponds and 18,350 linear km of agricultural ditches. By extrapolating our density estimates to each anthropogenic aquatic habitat type, we estimated 2 million red-eared sliders and 427,000 spiny softshell turtles occurred in aquaculture ponds and agricultural ditches across eastern Arkansas. Our results suggest that these altered wetlands provide abundant habitat for only a few generalist turtle species.

Arkansas↗

USGS2022

Defining oyster resource zones across coastal Louisiana for restoration and aquaculture

Eastern oysters ( Crassostrea virginica ) are a critical ecological and commercial resource in the northern Gulf of Mexico facing changing environmental conditions from river management and climate change. In Louisiana, USA, development of restored reefs, and off-bottom aquaculture would benefit from the identification of locations supportive of sustainable oyster populations ( i.e., metapopulations) and high consistent production. This study defines four oyster resource zones across coastal Louisiana based on environmental conditions known to affect oyster survival, growth, and reproduction. Daily data from 2015 to 2019 were interpolated to generate salinity and temperature profiles across Louisiana's estuaries, which were then used to classify zones based on monthly and annual salinity mean and variance. Zones were classified as supportive of (1) broodstock sanctuary reefs (i.e., support reproductive populations), (2) productive reefs during dry (salty) years, (3) productive reefs during wet (fresh) years, and (4) off-bottom aquaculture development. Of the 38,000 km 2 investigated, over 11,000 km 2 of potential oyster zone area was identified across the Louisiana coast. The Broodstock Sanctuary Zone was the smallest (∼540 km 2 ), as salinity variance limited this zone in many areas, as it is driven largely by riverine inputs across many estuaries. Located up-estuary (Dry Restoration Zone) and down-estuary (Wet Restoration Zone) of the Broodstock Sanctuary Zone, Dry and Wet Restoration Zone areas covered ∼2400 km 2 and ∼3900 km 2 , respectively. Mapped reefs in Louisiana currently exist largely within the Dry Restoration zones, suggesting a potential strategy to focus reef development in Wet Restoration zones to ensure reef network sustainability through years with high precipitation and river inflow. The off-bottom Aquaculture Zone was the largest (∼6400 km 2 ) zone identified, with much of this area located more down-estuary and off-shore. Accounting for variable water quality conditions enables the development of a network of reefs resilient to environmental variability, and more stable areas for consistent off-bottom aquaculture production. Spatial planning and identification of oyster resource zones reduces focus on individual reef success and supports management of oyster metapopulation outcomes, while identifying zones supportive of off-bottom aquaculture.

Louisiana↗

USGS2024

Shellfish aquaculture farms as foraging habitat for nearshore fishes and crabs

Objective Oyster reefs across North America have declined precipitously over the past 140 years. In Washington State, Olympia oyster Ostrea lurida reefs historically provided water filtration and nearshore structural habitat for fishes and invertebrates, but this species is now functionally extinct across its historical range. In place of these naturally occurring reefs, shellfish farms consisting mainly of nonnative Pacific oysters Magallana gigas now occupy patches of nearshore habitat across Washington. These farms modify intertidal substrate by adding structural habitat via suspended oyster grow bags, predator exclusion nets, loose oyster beds, and other shellfish grow-out gear. As interest and investment in shellfish aquaculture have expanded both locally and globally, so has interest in how these farms modify intertidal habitat and whether the complex structure created by the shellfish and shellfish growing gear provides ecosystem services that are comparable to those of unfarmed areas, such as mudflats and eelgrass meadows. Methods In this study, we sought to quantify how shellfish farms are used as foraging habitat for several common nearshore species of fish and crabs in Puget Sound, Washington. We used direct observations of species-specific behaviors from underwater video to model how habitat type affected observed foraging rates. Result We obtained a total of 393 crab observations, 431 demersal fish observations, and 1856 pelagic fish observations across all seven farm sites. Several common species of pelagic fish (e.g., surfperch [Embiotocidae]) used aquaculture-growing gear more frequently than unfarmed areas as foraging habitat, but Metacarcinus spp. crabs displayed higher foraging frequency in unfarmed mudflats. Species groups such as sculpins (Cottidae) and small flatfish (Pleuronectidae) clearly used specific aquaculture-growing gear and mudflats in roughly equal proportion. Conclusion Our results indicate that shellfish farms within a larger nearshore habitat mosaic of eelgrass meadows, mudflats, bivalve aquaculture gear, and edge habitat can provide foraging habitat for several species of nearshore fish.

Washington↗

USGS1988

Water use for aquaculture in Minnesota, 1984

Aquaculture supports a large sportfishing industry in Minnesota. Licensed fish farms that hatch and (or) harvest minnows or gamefish are located throughout the State. The volume of water used in these operations can be expressed as the minimum capacity per pound of fish, total water consumed, total water dedicated to the farming operation, or total water withdrawn. In expressing water dedicated to the farming operation, the total surface area of water bodies dedicated to aquaculture in Minnesota in 1984 was about 141,500 acres, based on interpretation of data reported in license applications. Water withdrawals to fish holding tanks amounted to 0.73 million gallons per day in 1984. Water-use calculations address the possibility of errors in reporting. About 15 percent of the licensees use municipally supplied water for their holding tanks. One thermoelectric powerplant recently began reusing the heated water from its cooling towers to raise catfish. Little change in the number of licensees since 1980 -indicates that aquaculture is a viable segment of the Minnesota economy. Trout farming has grown from 10 farms in 1978, to 23 in 1984; most use dug ponds sustained by ground-water inflow. Withdrawals for aquaculture are nonconsumptive and are small compared to other water-use categories in Minnesota.

Minnesota↗

USGS2012

Hydrocyclonic separation of invasive New Zealand mudsnails from an aquaculture water source

Invasive New Zealand mudsnails ( Potamopyrgus antipodarum , NZMS) have infested freshwater aquaculture facilities in the western United States and disrupted stocking or fish transportation activities because of the risk of transporting NZMS to naive locations. We tested the efficacy of a gravity-fed, hydrocyclonicseparation system to remove NZMS from an aquaculture water source at two design flows: 367 L/min and 257 L/min. The hydrocyclone effectively filtered all sizes of snails (including newly emerged neonates) from inflows. We modeled cumulative recovery of three sizes of snails, and determined that both juvenile and adult sized snails were transported similarly through the filtration system, but the transit of neonates was faster and similar to the transport of water particles. We found that transit times through the filtration system were different between the two flows regardless of snail size, and the hydrocyclone filter operated more as a plug flow system with dispersion, especially when transporting and removing the larger sized adult and juvenile sized snails. Our study supports hydrocyclonic filtration as an important tool to provide snail free water for aquaculture operations that require uninfested water sources.

Aquaculture↗

USGS2007

Minimizing noise in fiberglass aquaculture tanks: Noise reduction potential of various retrofits

Equipment used in intensive aquaculture systems, such as pumps and blowers can produce underwater sound levels and frequencies within the range of fish hearing. The impacts of underwater noise on fish are not well known, but limited research suggests that subjecting fish to noise could result in impairment of the auditory system, reduced growth rates, and increased stress. Consequently, reducing sound in fish tanks could result in advantages for cultured species and increased productivity for the aquaculture industry. The objective of this study was to evaluate the noise reduction potential of various retrofits to fiberglass fish culture tanks. The following structural changes were applied to tanks to reduce underwater noise: (1) inlet piping was suspended to avoid contact with the tank, (2) effluent piping was disconnected from a common drain line, (3) effluent piping was insulated beneath tanks, and (4) tanks were elevated on cement blocks and seated on insulated padding. Four combinations of the aforementioned structural changes were evaluated in duplicate and two tanks were left unchanged as controls. Control tanks had sound levels of 120.6 dB re 1 ??Pa. Each retrofit contributed to a reduction of underwater sound. As structural changes were combined, a cumulative reduction in sound level was observed. Tanks designed with a combination of retrofits had sound levels of 108.6 dB re 1 ??Pa, a four-fold reduction in sound pressure level. Sound frequency spectra indicated that the greatest sound reductions occurred between 2 and 100 Hz and demonstrated that nearby pumps and blowers created tonal frequencies that were transmitted into the tanks. The tank modifications used during this study were simple and inexpensive and could be applied to existing systems or considered when designing aquaculture facilities. ?? 2007 Elsevier B.V. All rights reserved.

Aquacultural Engineering↗

USGS2011

Comparative performance of CO 2 measuring methods: marine aquaculture recirculation system application

Many methods are available for the measurement of dissolved carbon dioxide in an aqueous environment. Standard titration is the typical field method for measuring dissolved CO 2 in aquaculture systems. However, titrimetric determination of dissolved CO 2 in marine water aquaculture systems is unsuitable because of the high dissolved solids, silicates, and other dissolved minerals that interfere with the determination. Other methods used to measure dissolved carbon dioxide in an aquaculture water included use of a wetted CO 2 probe analyzer, standard nomographic methods, and calculation by direct measurements of the water's pH, temperature, and alkalinity. The determination of dissolved CO 2 in saltwater based on partial pressure measurements and non-dispersive infra-red (NDIR) techniques with a CO 2 gas analyzer are widely employed for oceanic surveys of surface ocean CO 2 flux and are similar to the techniques employed with the head space unit (HSU) in this study. Dissolved carbon dioxide (DC) determination with the HSU using a infra-red gas analyzer (IRGA) was compared with titrimetric, nomographic, calculated, and probe measurements of CO 2 in freshwater and in saltwater with a salinity ranging from 5.0 to 30 ppt, and a CO 2 range from 8 to 50 mg/L. Differences in CO 2 measurements between duplicate HSUs (0.1–0.2 mg/L) were not statistically significant different. The coefficient of variation for the HSU readings averaged 1.85% which was better than the CO 2 probe (4.09%) and that for the titrimetric method (5.84%). In all low, medium and high salinity level trials HSU precision was good, averaging 3.39%. Differences existed between comparison testing of the CO 2 probe and HSU measurements with the CO 2 probe readings, on average, providing DC estimates that were higher than HSU estimates. Differences between HSU and titration based estimates of DC increased with salinity and reached a maximum at 32.2 ppt. These differences were statistically significant (P < 0.05) at all salinity levels greater than 0.3 ppt. Results indicated reliable replicated results from the head space unit with varying salinity and dissolved carbon dioxide concentrations.

Aquacultural Engineering↗

USGS2019

Establishing genome sizes of focal fishery and aquaculture species along Baja California, Mexico

Genome size—the total haploid content of nuclear DNA— is constant in all cells in individuals within a species, but differs among species. Consequently, the genome size is a quantifiable genetic signature that not only characterizes a species, but it can reflect chromatin modifications, which play fundamental roles in most biological processes that are involved in the manipulation and expression of DNA. This characteristic makes the genome size a crucial parameter for genetic research on endemic aquatic species and for genetic manipulations in aquaculture species. Technologies for genetic assessments and improvements applied to fishery and aquaculture species use genome size values as a means by which hybrids, polyploids, and sex can be identified, when sex chromosomes exist. The objectives of this study were to determine genome sizes of aquatic species with economic and biological importance along the Pacific coast of Mexico, as well as to identify the appropriate reference standards for use in this study. Blood, hemolymph or milt were collected from 10 species occurring along the coast of Baja California: Sablefish Anoplopoma fimbria , Black Snapper Lutjanus novemfasciatus , California Halibut Paralichthys californicus , Pacific Sardine Sardinops sagax , Flag Rockfish Sebastes rubrivinctus , Starry Rockfish Sebastes constellatus, Totoaba Totoaba macdonaldi , Whiteleg Shrimp Litopenaeus vannamei and two Yellowtail Seriola lalandi and S. dorsalis . Nuclear DNA was stained with propidium iodide solution and the genome size was determined by flow cytometry, with results ranging from 0.61 pg (1.22 pg/diploid cell) to 2.59 pg (5.18 pg/diploid cell), with the smallest value in Sablefish and the largest in the Whiteleg Shrimp. No significant differences were detected ( P ≤ 0.05) among individuals of the same species; the likely reason behind any dissimilar DNA content values with those from the literature were differences in methodologies or variations in genetics. Red-ear Slider Turtle Trachemys scripta elegans 2.65 pg (5.30 pg/diploid cell) and Red Junglefowl Gallus gallus 1.27 pg (2.54 pg/diploid cell) were chosen as the standards for reference values. These results establish the basis for the Mexican National Aquatic Genetic Resources project supporting genetic improvements for aquaculture and conservation status parameters for fisheries species.

Baja California↗

USGS2015

Hydroecological condition and potential for aquaculture in lakes of the arid region of Khorezm, Uzbekistan

With >400 small (<1 ha) lakes, the arid Khorezm Province in Uzbekistan may be well-suited for aquaculture production. Developing water resources to provide a local food supply could increase fish consumption while improving the rural economy. Hydroecological (biological and physical) and chemical characteristics (including legacy pesticides ΣDDT and ΣHCH) of four representative drainage lakes in Khorezm from 2006 to 2008 were analyzed for the lakes’ capability to support healthy fish populations. Lake characteristics were categorized as “optimal” (having little or no effect on growth and development), “tolerable” (corresponding to chronic or sub-lethal toxicity) and “lethal” (corresponding to acute toxicity). Results indicate that three lakes are likely well-suited for raising fish species, with water quality meeting World Bank aquaculture guidelines. However, the fourth lake often had salinity concentrations > optimal levels for local fish species. Pesticide concentrations in water of all four lakes were within tolerable aquaculture ranges. Although water ΣDDT concentrations were >optimal limits, results from chemical analysis of fish tissues and semi-permeable membrane devices indicated that study lake ΣDDT concentrations were not accumulating in fish or posing a human health threat. Land and water management to maintain adequate lake water quality are imperative for sustaining fish populations for human consumption.

Khorezm↗

USGS2021

Aquaculture and Irrigation Water-Use Model (AIWUM) version 1.0—An agricultural water-use model developed for the Mississippi Alluvial Plain, 1999–2017

Water use is a critical and often uncertain component of quantifying any water budget and securing reliable and sustainable water supplies. Recent water-level declines in the Mississippi Alluvial Plain (MAP), especially in the central part of the Mississippi Delta, pose a threat to water sustainability. Aquaculture and Irrigation Water-Use Model (AIWUM) 1.0, one of the first national agricultural water-use models that provides water use at the scale of most groundwater models, was developed and compared to other reported and estimated aquaculture and irrigation water-use values within the MAP study area for 1999 through 2017 to improve water-use estimates needed as input to a hydrologic decision-support system in the MAP. Results indicate annual total water-use estimates from 1999 through 2017 ranged from about 5 to 13 billion gallons per day and, on average, a majority of the water use was applied to rice (about 51 percent), followed by soybeans (about 26 percent), and less than (<) 10 percent each was applied to aquaculture, corn, cotton, and other crops. Comparisons indicated that annual total water-use estimates from AIWUM 1.0 were smaller than or comparable to all other sources of water-use data. Although there is disagreement at the monthly timescale in estimates in the Mississippi Delta within each part of the growing season, the annual total water use is comparable between AIWUM 1.0 and the Mississippi Embayment Regional Aquifer Study groundwater model 2.1. Estimates from AIWUM 1.0 could be used in models at all scales (for example, local, regional, national) and could provide a nationally consistent methodology in estimating water use driven by regional crop-specific withdrawal rates.

Arkansas, Illinois, Kentucky, Louisiana, Mississip↗

USGS2024

Genome-wide association analysis of the resistance to infectious hematopoietic necrosis virus in two rainbow trout aquaculture lines confirms oligogenic architecture with several moderate effect quantitative trait loci

Infectious hematopoietic necrosis (IHN) is a disease of salmonid fish that is caused by the IHN virus (IHNV), which can cause substantial mortality and economic losses in rainbow trout aquaculture and fisheries enhancement hatchery programs. In a previous study on a commercial rainbow trout breeding line that has undergone selection, we found that genetic resistance to IHNV is controlled by the oligogenic inheritance of several moderate and many small effect quantitative trait loci (QTL). Here we used genome wide association analyses in two different commercial aquaculture lines that were naïve to previous exposure to IHNV to determine whether QTL were shared across lines, and to investigate whether there were major effect loci that were still segregating in the naïve lines. A total of 1,859 and 1,768 offspring from two commercial aquaculture strains were phenotyped for resistance to IHNV and genotyped with the rainbow trout Axiom 57K SNP array. Moderate heritability values (0.15–0.25) were estimated. Two statistical methods were used for genome wide association analyses in the two populations. No major QTL were detected despite the naïve status of the two lines. Further, our analyses confirmed an oligogenic architecture for genetic resistance to IHNV in rainbow trout. Overall, 17 QTL with notable effect (≥1.9% of the additive genetic variance) were detected in at least one of the two rainbow trout lines with at least one of the two statistical methods. Five of those QTL were mapped to overlapping or adjacent chromosomal regions in both lines, suggesting that some loci may be shared across commercial lines. Although some of the loci detected in this GWAS merit further investigation to better understand the biological basis of IHNV disease resistance across populations, the overall genetic architecture of IHNV resistance in the two rainbow trout lines suggests that genomic selection may be a more effective strategy for genetic improvement in this trait.

Frontiers in Genetics↗