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USGS2018

Sewage loading and microbial risk in urban waters of the Great Lakes

Despite modern sewer system infrastructure, the release of sewage from deteriorating pipes and sewer overflows is a major water pollution problem in US cities, particularly in coastal watersheds that are highly developed with large human populations. We quantified fecal pollution sources and loads entering Lake Michigan from a large watershed of mixed land use using host-associated indicators. Wastewater treatment plant influent had stable concentrations of human Bacteroides and human Lachnospiraceae with geometric mean concentrations of 2.77 × 10 7 and 5.94 × 10 7 copy number (by quantitative PCR) per 100 ml, respectively. Human-associated indicator levels were four orders of magnitude higher than norovirus concentrations, suggesting that these human-associated bacteria could be sensitive indicators of pathogen risk. Norovirus concentrations in these same samples were used in calculations for quantitative microbial risk assessment. Assuming a typical recreational exposure to untreated sewage in water, concentrations of 7,800 copy number of human Bacteroides per 100 mL or 14,000 copy number of human Lachnospiraceae per 100 mL corresponded to an illness risk of 0.03. These levels were exceeded in estuarine waters during storm events with greater than 5 cm of rainfall. Following overflows from combined sewer systems (which must accommodate both sewage and stormwater), concentrations were 10-fold higher than under rainfall conditions. Automated high frequency sampling allowed for loads of human-associated markers to be determined, which could then be related back to equivalent volumes of untreated sewage that were released. Evidence of sewage contamination decreased as ruminant-associated indicators increased approximately one day post-storm, demonstrating the delayed impact of upstream agricultural sources on the estuary. These results demonstrate that urban areas are a diffuse source of sewage contamination to urban waters and that storm-driven release of sewage, particularly when sewage overflows occur, creates a serious though transient human health risk.

Wisconsin↗

USGS2019

De novo assembly and annotation from parental and F1 puma genomes of the Florida panther genetic restoration program

In the mid-1990s, the population size of Florida panthers became so small that many individuals manifested traits associated with inbreeding depression ( e.g. , heart defects, cryptorchidism, high pathogen-parasite load). To mitigate these effects, pumas from Texas were introduced into South Florida to augment genetic variation in Florida panthers. In this study, we report a de novo puma genome assembly and annotation after resequencing 10 individual genomes from partial Florida-Texas-F 1 trios. The final genome assembly consisted of ∼2.6 Gb and 20,561 functionally annotated protein-coding genes. Foremost, expanded gene families were associated with neuronal and embryological development, whereas contracted gene families were associated with olfactory receptors. Despite the latter, we characterized 17 positively selected genes related to the refinement of multiple sensory perceptions, most notably to visual capabilities. Furthermore, genes under positive selection were enriched for the targeting of proteins to the endoplasmic reticulum, degradation of mRNAs, and transcription of viral genomes. Nearly half (48.5%) of ∼6.2 million SNPs analyzed in the total sample set contained putative unique Texas alleles. Most of these alleles were likely inherited to subsequent F 1 Florida panthers, as these individuals manifested a threefold increase in observed heterozygosity with respect to their immediate, canonical Florida panther predecessors. Demographic simulations were consistent with a recent colonization event in North America by a small number of founders from South America during the last glacial period. In conclusion, we provide an extensive set of genomic resources for pumas and elucidate the genomic effects of genetic rescue on this iconic conservation success story.

G3 Genes|Genomes|Genetics↗

USGS2019

Review of and recommendations for monitoring contaminants and their effects in the San Francisco Bay−Delta

Legacy and current-use contaminants enter into and accumulate throughout the San Francisco Bay−Delta (Bay−Delta), and are present at concentrations with known effects on species important to this diverse watershed. There remains major uncertainty and a lack of focused research able to address and provide understanding of effects across multiple biological scales, despite previous and ongoing emphasis on the need for it. These needs are challenging specifically because of the established regulatory programs that often monitor on a chemical- by-chemical basis, or in which decisions are grounded in lethality-based endpoints. To best address issues of contaminants in the Bay−Delta, monitoring efforts should consider effects of environmentally relevant mixtures and sub- lethal impacts that can affect ecosystem health. These efforts need to consider the complex environment in the Bay−Delta including variable abiotic (e.g., temperature, salinity) and biotic (e.g., pathogens) factors. This calls for controlled and focused research, and the development of a multi-disciplinary contaminant monitoring and assessment program that provides information across biological scales. Information gained in this manner will contribute toward evaluating parameters that could alleviate ecologically detrimental outcomes. This review is a result of a Special Symposium convened at the University of California−Davis (UCD) on January 31, 2017 to address critical information needed on how contaminants affect the Bay−Delta. The UCD Symposium focused on new tools and approaches for assessing multiple stressor effects to freshwater and estuarine systems. Our approach is similar to the recently proposed framework laid out by the U.S. Environmental Protection Agency (USEPA) that uses weight of evidence to scale toxicological responses to chemical contaminants in a laboratory, and to guide the conservation of priority species and habitats. As such, we also aimed to recommend multiple endpoints that could be used to promote a multi-disciplinary understanding of contaminant risks in Bay−Delta while supporting management needs.

California↗

USGS2020

Paired stated preference methods for valuing management of white pine blister rust: order effects and outcome uncertainty

The literature on nonmarket valuation includes many examples of stated and revealed preference comparisons. However, comparisons within stated preference methods are sparse. Specifically, the literature provides few examples of pairing both a discrete choice experiment (CE) and a contingent valuation (CV) question within a single survey. This paper presents results of a nonmarket valuation study that employs both methods to elicit public preferences over uncertainty of outcomes and over management strategies. The two methods were employed to examine public support for the proactive management of the invasive pathogen, Cronartium ribicola, that causes the lethal disease white pine blister rust in high-elevation forests in North America. By addressing three related questions, this study finds the following main results: First, both methods suggest the importance of presenting outcome uncertainty to respondents. Second, the results provide no evidence that preferences vary over the means taken for pursuing the given ends, which in this case is long term forest health. Third, the paired inclusion of both methods results in order effects for CE results but not for CV results. Results and discussion provide insight into the most appropriate stated preference approach for informing different types of decisions about the efficient management of public lands.

Journal of Forest Economics↗

USGS1969

Studies of certain sulfonamide drugs for use in juvenile chinook salmon

Sulfamethazine, introduced to fishery medicine by Snieszko and Friddle in 1950, has been widely accepted for treatment of systemic bacterial infections of fish. When administered to fish in their diet, this drug is effective against susceptible bacteria but has the disadvantages of being slowly absorbed (Snieszko and Friddle, 1951) and relatively toxic (Wood, Yasutake, and Johnson, 1957). Today there are many sulfonamides which are more efficacious than sulfamethazine. In domestic animals, sulfisoxazole and sulfadimethoine are absorbed quickly from the gastrointestinal tract and have fewer toxic side reactions, a wider antibacterial spectrum, and better bacteriostatic activity. In the work described in this paper, the efficacies of sulfisoxazole and sulfadimethoxine were compared to the efficacy of sulfamethazine. Experiments were designed to determine the rate of intestinal absorption, the rate of elimination from the blood, the effect on growth, and the toxicity of each drug in juvenile chinook salmon ( Oncorhynchus tshawytscha ). The comparative bacteriostatic activity against two common fish pathogens was also determined for each drug.

Progressive Fish-Culturist↗

USGS1988

Water reuse systems: A review of the principal components

Principal components of water reuse systems include ammonia removal, disease control, temperature control, aeration, and particulate filtration. Effective ammonia removal techniques include air stripping, ion exchange, and biofiltration. Selection of a particular technique largely depends on site-specific requirements (e.g., space, existing water quality, and fish densities). Disease control, although often overlooked, is a major problem in reuse systems. Pathogens can be controlled most effectively with ultraviolet radiation, ozone, or chlorine. Simple and inexpensive methods are available to increase oxygen concentration and eliminate gas supersaturation, these include commercial aerators, air injectors, and packed columns. Temperature control is a major advantage of reuse systems, but the equipment required can be expensive, particularly if water temperature must be rigidly controlled and ambient air temperature fluctuates. Filtration can be readily accomplished with a hydrocyclone or sand filter that increases overall system efficiency. Based on criteria of adaptability, efficiency, and reasonable cost, we recommend components for a small water reuse system.

Progressive Fish-Culturist↗

USGS1994

Duration of protection against Aeromonas salmonicida brook trout immunostimulated with glucan or chitosan by injection or immersion

Brook trout ( Salvelinus fontinalis ) were given the immunostimulants glucan or chitosan by single injections or by a 30‐min immersion to induce protection against the fish disease furunculosis. At 1, 2, 3, 7, 14, 21, and 28 d after immunostimulation, sublots from these groups were challenged by a 1‐min bath exposure to a 48‐h culture of Aeromonas salmonicida . All four groups showed high levels of protection against challenges given 1, 2, and 3 d after immunostimulants were administered. The groups injected with the immunostimulants showed a higher degree of protection than the immersed fish. They also retained a higher degree of protection against the pathogen challenge. However, by 14 d after immunostimulation, protection in both groups was greatly reduced. No significant differences in protection levels were noted between the glucan and chitosan immunostimulants. The effective short‐term protection induced by these immunostimulants demonstrates the importance of nonspecific defenses in fish and how, under certain conditions, these immunostimulants could be used for the prevention of diseases in fish culture.

Progressive Fish-Culturist↗

USGS1945

Columnaris as a disease of cold-water fishes

A natural outbreak of columnaris disease among wild adult and hatchery-reared fingerling salmon in the State of Washington is described. The disease is identified by the recovery of the causative organism, Bacillus columnaris Davis, which may be readily identified by its characteristic action in forming columns on the surfaces of infected material held in a water mount on a microscope slide. The gross lesions vary in appearance according to the particular organ affected but are formed, essentially, by the progressive necrosis and disintegration of the tissues. The tissues primarily affected are skin, body musculature, and the gills. Cultivation of the causative organism in tryptone solutions is recorded. Controlled, laboratory-induced infections indicate that among the cold-water fishes, columnaris disease is of little consequence to fingerlings at water temperatures below 55° F., but becomes highly pathogenic at temperatures in excess of 70° F. Between these temperature thresholds, the degree and severity of the infection is markedly influenced by factors adverse to the host. No effective control measures have been found.

Washington↗

USGS1957

Acute sulfamethazine toxicity in young salmon

Adverse effects from the medication of fish diseases with sulfonamides have been reported by several workers. A decreased growth rate (Gutsell and Snieszko 1949, Snieszko and Wood 1955), the production of drug resistant strains of pathogens (Snieszko 1952), sterility and kidney damage (Wood et al., 1955), and mortalities (Johnson and Brice 1953) have been described. Recently, increased mortalities and tissue damage were observed in young silver salmon after a single day's treatment with sulfamethazine. Subsequently an attempt to reproduce the conditions experimentally was made. The purpose of this paper is to describe the pathology of acute sulfamethazine toxicity and to discuss certain factors of possible importance in the etiology of losses among fish treated with sulfonamides.

Progressive Fish-Culturist↗

USGS1958

A possible cause of sunburn in fish

A LESION DESCRIBED AS A GRAY ΡATCH GENERALLY LOCATED ΑΝΤΕRIOR TO THE DORSAL FIN has been associated with high mortality of fish on numerous occasions in production hatcheries throughout the United States. This lesion has been called "sunburn" or "backpeel." No bacteria or other pathogens have been found in fish with these symptoms. For example, at a Montana hatchery in April 1956, mortality of 10 to 15 percent occurred daily and this lesion was the only syndrome found. On occasion, shade has prevented this condition and even restored affected fish to an apparent normal condition; thus there has seemed to be a correlation between sunshine and the condition in fish. To our knowledge, this has been the only therapy attempted.

Progressive Fish-Culturist↗

USGS1980

Handling as a factor in mortality of trout with or without furunculosis

Mortalities of brook trout ( Salvelinus fontinalis ), brown trout ( Salmo trutta ), and rainbow trout ( Salmo gairdneri ) in 1978 and 1979 were significantly higher in clinically diseased than in subclinically diseased or healthy fish in both years. Mortalities in diseased fish within 24 h after sampling were not statistically different from those in specific-pathogen-free controls; however, the crowding offish lots for stocking resulted in significantly higher mortalities in furunculosis -infected brown trout in 1979. Crowding and handling for stocking thus caused higher mortality in diseased fish than just sampling. Healthy trout were able to tolerate more handling stress.

Progressive Fish-Culturist↗

USGS1986

Pathology caused by the bacterium Edwardsiella tarda in striped bass

Edwardsiella tarda was isolated from moribund age‐0 hatchery‐reared striped bass Morone saxatilis for the first time. Pathogenicity was confirmed by contact infection. Characteristic histopathology consisted of epithelial hyperplasia and necrosis associated with the lateral line canals, and abscess formation in the anterior kidney and other internal organs

Transactions of the American Fisheries Society↗

USGS1991

Infectious hematopoietic necrosis (IHN) and viral hemorrhagic septicemia (VHS): Detection of the trout antibodies to the causative viruses by means of plaque neutralization, immunofluorescence, and enzyme-linked immunosorbent assay

Sera collected from cultured rainbow trout Oncorhynchus mykiss surviving outbreaks of infectious hematopoietic necrosis (IHN) or viral hemorrhagic septicemia (VHS) were examined for the presence of antibodies to both of the causative viruses, infectious hematopoietic necrosis virus (IHNV) and Egtved virus (viral hemorrhagic septicemia virus: VHSV). Sera were screened with three serological tests: 50% plaque neutralization test (PNT), immunofluorescence (IF), and enzyme-linked immunosorbent assay (ELISA). In sera from 20 rainbow trout surviving IHN, antibodies to IHNV were detected in 9 fish by PNT, in 12 fish by IF, and in 9 fish by ELISA. In these sera, antibodies cross-reacting with VHSV were rare (detected in 0 fish by PNT, in 1 by IF, and in 1 by ELISA). In sera from 20 rainbow trout surviving VHS, antibodies to VHSV were detected in 9 fish by PNT, in 16 fish by IF, and in 18 fish by ELISA. A considerable percentage of the VHS-survivor sera contained antibodies that cross-reacted with IHNV, as detected by ELISA (16 fish) and 1F (7 fish) but not by PNT (0 fish). The three serological tests appear to be useful tools for IHNV and VHSV epidemiology; however, the presence of cross-reacting antibodies in some sera suggests caution when farms require specific pathogen-free certification for one of the viruses in the presence of the other.

Journal of Aquatic Animal Health↗

USGS1992

Physiological and hematological changes in Chum Salmon artificially infected with Erythrocytic Necrosis virus

Chum salmon Oncorhynchus keta were injected with erythrocytic necrosis virus (ENV) to study the physiological and hematological consequences of ENV infection. Infected and control fish were held in pathogen-free seawater and sampled for 5 weeks. Physiological tests included measures of plasma cortisol, glucose, protein, and osmolality; blood lactic acid; and liver glycogen. In general, ENV-infected fish had lower plasma glucose and blood lactic acid, and higher liver glycogen concentrations than did control fish. Hematological tests included red and white blood cell (RBC and WBC) counts, hematocrit, measurement of blood hemoglobin concentration, and a determination of erythrocyte fragility. Infected fish had lower RBC counts, hematocrits, and hemoglobin concentrations; higher WBC counts; and less fragile erythrocytes than did control fish. The hematology data indicated that erythrocytes of infected fish had higher mean corpuscular volume, depressed mean corpuscular hemoglobin concentration, and slightly lower mean corpuscular hemoglobin. Erythrocytic inclusions were observed in the cytoplasm of RBCs from infected fish. The infection progressed steadily through week 4, after which the fish appeared to begin recovering. In a second study, fish were infected with ENV for 3 weeks, and recovery from a stress challenge test was measured. Plasma glucose concentrations and osmclality were higher in infected fish, whereas plasma cortisol and blood lactate were only slightly elevated. These studies indicate that chum salmon withstood the effects of ENV infection without in-eversible physiological consequences. However, when subjected to a stress challenge test, infected fish recovered more slowly than control fish and had increased osmoregulatory difficulties.

Journal of Aquatic Animal Health↗

USGS1995

Pathological and behavioral manifestations of the “Cayuga syndrome,” a thiamine deficiency in larval landlocked Atlantic salmon

The “Cayuga syndrome” is a maternally transmitted, naturally occurring thiamine deficiency that causes 100% mortality of larval landlocked Atlantic salmon Salmo salar in several of New York's Finger Lakes, Results of multiyear studies to qualify and quantify the neurobehavioral and gross pathological signs of this condition are described, Affected sac fry became weak and ataxic and responded atypically to stimuli 1–2 weeks before death. Quantitative assays of stimulus-provoked swimming revealed a significant neuropathy whereby the sac fry exhibited abnormal thigmotactic and phototactic behaviors. Gross lesions observed in Cayuga sac fry included yolk-sac opacities, subcutaneous edema, vitelline hemorrhage or congestion, pericardial edema, retrobulbar edema, branchial congestion, foreshortened maxillae, hydrocephalus, and occasional caudal fin deformities, Lesion frequency in progeny differed significantly between dam source. Yolk conversion efficiency was decreased at least 1 week before death, suggesting that the bioenergetics of the fish was compromised and thereby supporting the thiamine residue and treatment data reported elsewhere, Comparisons with coagulated-yolk, blue-sac and swim-up syndromes are presented, The pathological signs of the Cayuga syndrome represent a unique departure from the lesions induced by toxicants or pathogens in other piscine models, and for the first time profile the profound effects of thiamine deficiency on cardiovascular and neurological systems of larval fish.

Journal of Aquatic Animal Health↗

USGS1997

Differences in detection of Aeromonas salmonicida in covertly infected salmonid fishes by the stress-inducible furunculosis test and culture-based assays

Accurate detection of Aeromonas salmonicida subsp. salmonicida (the cause of furunculosis disease) in covertly infected salmonids is difficult and is a cause of concern for those involved in fish health inspection and resource management programs. In this study, we examined populations of brook trout Salvelinus fontinalis , Atlantic salmon Salmo salar , and lake trout Salvelinus namaycush that previously sustained natural episodes of furunculosis. Consequently, the sampled fish were presumed to harbor latent infections. Mucus, gill, liver, kidney, heart, spleen, and intestine samples ( N = 100 fish per group sampled) were processed and examined by (1) direct dilution counts and (2) quadrant streaking after a 48‐h pre‐enrichment in trypticase soy broth (TSB). Another subsample of fish from each group was then subjected to stress‐inducible furunculosis tests. Stress tests detected A. salmonicida in three of four groups of fish that were examined whereas the pathogen was detected in only two of the groups analyzed with culture‐based assays. Although pre‐enrichment in TSB enhanced detection within internal sampling sites including the liver, heart, spleen, and kidney, enrichment did not enhance detection from mucus, gill, or intestinal samples.

Journal of Aquatic Animal Health↗

USGS1998

Isolation of Acholeplasma laidlawii from centrarchids in a Central Florida Lake

In 1991, the poor physical condition of largemouth bass Micropterus salmoides from Lake Harris, Florida, was associated with the decline of the lake's fishery. The swim bladders of emaciated bass had mild inflammation and ecchymotic hemorrhages. A mycoplasma-like organism isolated from swim bladders was initially believed to be the causative agent. The organism was later identified as Acholeplasma laidlawii by using a fluorescent antibody procedure and was demonstrated to be nonpathogenic. Parenteral injection of the organism into healthy largemouth bass fingerlings produced no signs of disease or difference in growth rate compared with control fish during a 16-month period. Field studies resulted in isolation of A. laidlawii from black crappies Pomoxis nigromaculatus , bluegills Lepomis macrochirus , and redear sunfish L. microlophus , but not from noncentrarchids in Lake Harris or from any fish species in a control fishery (Lake Holly, Florida). The absence of organisms in all emaciated bass, our inability to reproduce the disease, and isolation of the organism from seemingly healthy fish suggest this organism was not pathogenic.

Journal of Aquatic Animal Health↗

USGS1999

Aphanomyces as a cause of ulcerative skin lesions of menhaden from Chesapeake Bay Tributaries

During the summer and fall of 1997, an unusually high prevalence of skin lesions in fishes from Chesapeake Bay tributaries as well as two fish kills in the Pocomoke River stimulated significant public concern. Atlantic menhaden Brevoortia tyrannus were the most frequent target of the acute fish kills and displayed skin lesions that were attributed to the presence of the toxic dinoflagellate Pfiesteria piscicida. Hence, the penetrating skin ulcers so commonly found in this species are now widely viewed by the general public and some scientists as Pfiesteria -related and to be caused by exposure to Pfiesteria toxin. We examined, histologically, 121 menhaden with these ulcers collected from both Maryland and Virginia waters of the Chesapeake Bay in 1997 and 31 from the Pocomoke and Wicomico rivers in 1998. All of the deeply penetrating ulcers, as well as raised lesions (with or without eroded epithelium), were characterized by deeply penetrating fungal hyphae surrounded by chronic, granulomatous inflammation. These lesions had an appearance identical or similar to epizootic ulcerative syndrome (EUS), an ulcerative mycotic syndrome of fishes in other parts of the world caused by the fungal pathogen Aphanomyces invadans. They were also identical to ulcerative mycosis of menhaden previously reported along the Atlantic coast of the USA as associated with Aphanomyces spp. In 1998, using methods for isolation of A. invadans , we were able to culture from affected menhaden an Aphanomyces sp. that by preliminary tests is similar or identical to A. invadans. We believe these findings suggest that factors other than Pfiesteria toxin need to be considered as the cause or initiator of these lesions.

Journal of Aquatic Animal Health↗