Plant-mediated community structure of spring-fed, coastal rivers

Quantifying ecosystem-level processes that drive community structure and function is key to the development of effective environmental restoration and management programs. To assess the effects of large-scale aquatic vegetation loss on fish and invertebrate communities in Florida estuaries, we quantified and compared the food webs of two adjacent spring-fed rivers that flow into the Gulf of Mexico. We constructed a food web model using field-based estimates of community absolute biomass and trophic interactions of a highly productive vegetated river, and modeled long-term simulations of vascular plant decline coupled with seasonal production of filamentous macroalgae. We then compared ecosystem model predictions to observed community structure of the second river that has undergone extensive vegetative habitat loss, including extirpation of several vascular plant species. Alternative models incorporating bottom-up regulation (decreased primary production resulting from plant loss) versus coupled top-down effects (compensatory predator search efficiency) were ranked by total absolute error of model predictions compared to the empirical community observations. Our best model for predicting community responses to vascular plant loss incorporated coupled effects of decreased primary production (bottom-up), increased prey search efficiency of large-bodied fishes at low vascular plant density (top-down), and decreased prey search efficiency of small-bodied fishes with increased biomass of filamentous macroalgae (bottom-up). The results of this study indicate that the loss of vascular plants from the coastal river ecosystem may alter the food web structure and result in a net decline in the biomass of fishes. These results are highly relevant to ongoing landscape-level restoration programs intended to improve aesthetics and ecosystem function of coastal spring-fed rivers by highlighting how the structure of these communities can be regulated both by resource availability and consumption. Restoration programs will need to acknowledge and incorporate both to be successful.

Characterization of Four Multidrug Resistance Plasmids Captured from the Sediments of an Urban Coastal Wetland

Self-transmissible and mobilizable plasmids contribute to the emergence and spread of multidrug-resistant bacteria by enabling the horizontal transfer of acquired antibiotic resistance. The objective of this study was to capture and characterize self-transmissible and mobilizable resistance plasmids from a coastal wetland impacted by urban stormwater runoff and human wastewater during the rainy season. Four plasmids were captured, two self-transmissible and two mobilizable, using both mating and enrichment approaches. Plasmid genomes, sequenced with either Illumina or PacBio platforms, revealed representatives of incompatibility groups IncP-6, IncR, IncN3, and IncF. The plasmids ranged in size from 36 to 144 kb and encoded known resistance genes for most of the major classes of antibiotics used to treat Gram-negative infections (tetracyclines, sulfonamides, β-lactams, fluoroquinolones, aminoglycosides, and amphenicols). The mobilizable IncP-6 plasmid pLNU-11 was discovered in a strain of Citrobacter freundii enriched from the wetland sediments with tetracycline and nalidixic acid, and encodes a novel AmpC-like β-lactamase (bla_WDC-1), which shares less than 62% amino acid sequence identity with the PDC class of β-lactamases found in Pseudomonas aeruginosa. Although the IncR plasmid pTRE-1611 was captured by mating wetland bacteria with P. putida KT2440 as recipient, it was found to be mobilizable rather than self-transmissible. Two self-transmissible multidrug-resistance plasmids were also captured: the small (48 kb) IncN3 plasmid pTRE-131 was captured by mating wetland bacteria with Escherichia coli HY842 where it is seemed to be maintained at nearly 240 copies per cell, while the large (144 kb) IncF plasmid pTRE-2011, which was isolated from a cefotaxime-resistant environmental strain of E. coli ST744, exists at just a single copy per cell. Furthermore, pTRE-2011 bears the globally epidemic bla_CTX-M-55 extended-spectrum β-lactamase downstream of ISEcp1. Our results indicate that urban coastal wetlands are reservoirs of diverse self-transmissible and mobilizable plasmids of relevance to human health.

Spatio-temporal migration patterns of Pacific salmon smolts in rivers and coastal marine waters

Background

Migrations allow animals to find food resources, rearing habitats, or mates, but often impose considerable predation risk. Several behavioural strategies may reduce this risk, including faster travel speed and taking routes with shorter total distance. Descriptions of the natural range of variation in migration strategies among individuals and populations is necessary before the ecological consequences of such variation can be established.

Methodology/Principal Findings

Movements of tagged juvenile coho, steelhead, sockeye, and Chinook salmon were quantified using a large-scale acoustic tracking array in southern British Columbia, Canada. Smolts from 13 watersheds (49 watershed/species/year combinations) were tagged between 2004–2008 and combined into a mixed-effects model analysis of travel speed. During the downstream migration, steelhead were slower on average than other species, possibly related to freshwater residualization. During the migration through the Strait of Georgia, coho were slower than steelhead and sockeye, likely related to some degree of inshore summer residency. Hatchery-reared smolts were slower than wild smolts during the downstream migration, but after ocean entry, average speeds were similar. In small rivers, downstream travel speed increased with body length, but in the larger Fraser River and during the coastal migration, average speed was independent of body length. Smolts leaving rivers located towards the northern end of the Strait of Georgia ecosystem migrated strictly northwards after ocean entry, but those from rivers towards the southern end displayed split-route migration patterns within populations, with some moving southward.

Conclusions/Significance

Our results reveal a tremendous diversity of behavioural migration strategies used by juvenile salmon, across species, rearing histories, and habitats, as well as within individual populations. During the downstream migration, factors that had strong effects on travel speeds included species, wild or hatchery-rearing history, watershed size and, in smaller rivers, body length. During the coastal migration, travel speeds were only strongly affected by species differences.

Survival of migrating salmon smolts in large rivers with and without dams

The mortality of salmon smolts during their migration out of freshwater and into the ocean has been difficult to measure. In the Columbia River, which has an extensive network of hydroelectric dams, the decline in abundance of adult salmon returning from the ocean since the late 1970s has been ascribed in large measure to the presence of the dams, although the completion of the hydropower system occurred at the same time as large-scale shifts in ocean climate, as measured by climate indices such as the Pacific Decadal Oscillation. We measured the survival of salmon smolts during their migration to sea using elements of the large-scale acoustic telemetry system, the Pacific Ocean Shelf Tracking (POST) array. Survival measurements using acoustic tags were comparable to those obtained independently using the Passive Integrated Transponder (PIT) tag system, which is operational at Columbia and Snake River dams. Because the technology underlying the POST array works in both freshwater and the ocean, it is therefore possible to extend the measurement of survival to large rivers lacking dams, such as the Fraser, and to also extend the measurement of survival to the lower Columbia River and estuary, where there are no dams. Of particular note, survival during the downstream migration of at least some endangered Columbia and Snake River Chinook and steelhead stocks appears to be as high or higher than that of the same species migrating out of the Fraser River in Canada, which lacks dams. Equally surprising, smolt survival during migration through the hydrosystem, when scaled by either the time or distance migrated, is higher than in the lower Columbia River and estuary where dams are absent. Our results raise important questions regarding the factors that are preventing the recovery of salmon stocks in the Columbia and the future health of stocks in the Fraser River.

Miniature electronic technologies now allow researchers to track a salmon's migration from its birthplace in a river's headwaters in the Rocky Mountains to the North Pacific, opening a window on the mysteries of migration and survival. Surprisingly, outward migrating salmon (smolts) have similar survival during migration down dammed and undammed rivers, challenging widely held notions about factors affecting salmon abundance. Elements of the large-scale POST (Pacific Ocean Shelf Tracking) acoustic telemetry array revealed the migrations. Although salmon smolt survival to the Pacific Ocean was comparable in both the dammed Columbia and undammed Fraser rivers, it was higher in the Columbia once distance or travel time was taken into account—and higher within the hydropower system than below the dammed section. There is not yet enough evidence to determine whether (1) the Fraser has a problem that reduces salmon survival to that of a heavily dammed river or (2) factors other than dams play a larger, unsuspected role in salmon survival. Wherever future research leads on those questions, the new fish tagging technology has demonstrated itself as a useful tool for obtaining objective scientific data with important value in a number of public policy arenas.

Electronic tagging of two species of salmon smolts reveals similar survival rates during migration down the dammed Columbia and undammed Fraser Rivers, challenging popular notions about factors affecting salmon abundance.

Is adaptive management helping to solve fisheries problems?

Adaptive management has been widely recommended as a way to deal with extreme uncertainty in natural resource and environmental decision making. The core concept in adaptive management is that policy choices should be treated as deliberate, large-scale experiments; hence, policy choice should be treated at least partly as a problem of scientific experimental design. There have now been upwards of 100 case studies where attempts were made to apply adaptive management to issues ranging from restoration of endangered desert fish species to protection of the Great Barrier Reef. Most of these cases have been failures in the sense that no experimental management program was ever implemented, and there have been serious problems with monitoring programs in the handful of cases where an experimental plan was implemented. Most of the failures can be traced to three main institutional problems: i) lack of management resources for the expanded monitoring needed to carry out large-scale experiments; ii) unwillingness by decision makers to admit and embrace uncertainty in making policy choices; and iii) lack of leadership in the form of individuals willing to do all the hard work needed to plan and implement new and complex management programs.

Towards sustainability in world fisheries

Fisheries have rarely been 'sustainable'. Rather, fishing has induced serial depletions, long masked by improved technology, geographic expansion and exploitation of previously spurned species lower in the food web. With global catches declining since the late 1980s, continuation of present trends will lead to supply shortfall, for which aquaculture cannot be expected to compensate, and may well exacerbate. Reducing fishing capacity to appropriate levels will require strong reductions of subsidies. Zoning the oceans into unfished marine reserves and areas with limited levels of fishing effort would allow sustainable fisheries, based on resources embedded in functional, diverse ecosystems.

Alpha-fetoprotein glycosylation is abnormal in some hepatocellular carcinoma, including white patients with a normal alpha-fetoprotein concentration

Lectin-affinity analyses with Lens culinaris agglutinin (LCA) and other lectins have demonstrated that the glycosylation of alpha-fetoprotein (AFP) secreted by hepatocellular carcinomas (HCC) is frequently altered when the serum AFP concentration is increased. To determine if AFP LCA-binding properties are altered in patients with HCC whose serum AFP concentration is normal, the percentage of LCA-binding AFP in serum from white newborns, white normal adults, white patients with chronic hepatitis and hereditary tyrosinemia and white and black patients with HCC were determined. The serum LCA-binding AFP fraction was low in newborns (1-4%) and normal adults (1-8%). There was a significant increase in LCA-binding AFP in patients with chronic hepatitis (10-24%) and hereditary tyrosinemia (5-35%). The AFP LCA-binding fraction was clearly abnormal (greater than 40%) in three of the white patients with an HCC and a normal serum AFP concentration, and the range of values (10-63%) in these HCC patients was similar to that seen in both white and black patients with HCC accompanied by increased AFP concentrations.

Altered glycosylation of alpha-fetoprotein in hepadnavirus-induced hepatocellular carcinoma of the woodchuck

Altered glycosylation of alpha-fetoprotein (AFP) has been proposed as a marker of hepatocellular carcinoma (HCC) in humans. The lectin-binding properties of woodchuck AFP were investigated to determine if woodchuck hepatitis virus (WHV)-induced HCCs are also accompanied by changes in AFP glycosylation. Ninety-eight to 100% of the AFP from normal, WHV-free woodchucks with physiologic AFP elevations and from WHV-carrier woodchucks with HCC bound to concanavalin A, indicating that virtually all of the AFP was glycosylated. Three percent or less of the serum AFP of normal woodchucks bound to Lens culinaris agglutinin (LCA). In contrast, the AFP from woodchucks with HCC had an increased LCA-binding fraction (range, 8-77%). The increased LCA-binding AFP in WHV-induced HCC is analogous to that which frequently accompanies hepatitis B virus (HBV)-induced HCC in humans. This study corroborates the relationship of altered glycoconjugate synthesis to virus-induced malignant transformation, confirms the importance of AFP glycoforms as markers of HCC, and demonstrates that the WHV-infected woodchuck should be useful in investigating changes in AFP glycosylation during hepadnavirus hepatocarcinogenesis and HCC growth.

Model for Examining Early Ocean Limitation of Pacific Salmon Production

A computer simulation model was used to examine growth and survival of all major British Columbia salmon stocks during their first 6 mo of ocean life. Factors included in the calculations were the space–time distribution of zooplankton production, timing of salmon ocean arrival and migration especially as regards overlaps between stocks, feeding and growth in relation to food availability, and mortality rates in relation to body size. It is concluded that ocean limitation of production is unlikely unless only a small fraction of total zooplankton production is available to the salmon. The model emphasizes several critical uncertainties about the marine biology of salmon: rates of replenishment of near surface zooplankton stocks (where most salmon feeding occurs) from deeper water have not been adequately measured, and the functional response of salmon to prey density is not understood. There is inadequate data on the relationship between body size and mortality rate, and migration patterns of juvenile fish have not been documented precisely enough. Hopefully some of these uncertainties will be resolved through the salmon enhancement programs. Key words: salmon, population limitation, juvenile marine production, simulation model

Differing Goals of Salmon Management on the Skeena River

In this paper we describe the use of a specific decision analysis tool, multiattribute utility analysis, to investigate conflicting goals in the management of salmon on the Skeena River. We used this technique to determine the preferences of 10 individuals representing several interest groups and different management agencies. It is shown how individuals differ in their preferences, how conflicts can be identified, and how decision analysis can be used to refine an individual's understanding of his preferences. Individuals assessed possible outcomes of different alternative enhancement proposals using two techniques, the decision analysis technique and an intuitive approach. These two methods produced different results. The use of these techniques in the management process is discussed.

Catastrophe Theory and Fisheries Regulation

Catastrophe theory is a mathematical approach for analyzing systems that show abrupt changes. This paper attempts to apply the theory to fishery development and collapse, where the key variables are assumed to be stock size, level of economic investment or fleet size, and technological efficiency of the fishery gear. The analysis produces no new predictions about uncontrolled development and its consequences, but it appears to provide a useful way of exploring the implications of regulatory policies involving taxation, development subsidies, and technological improvement.

Adaptive Control of Fishing Systems

This paper discusses some formal techniques for deciding how harvesting policies should be modified in the face of uncertainty. Parameter estimation and dynamic optimization methods are combined for the Ricker stock-recruitment model to show how exploitation rates should be manipulated to give more information about the model parameters; in general, harvesting rates should be lower than would be predicted by the best fitting recruitment curve unless this curve predicts that the stock is very productive. A decision procedure is developed for comparing alternative stock-recruitment models; when applied to the Fraser River sockeye salmon (Oncorhynchus nerka), the procedure indicates that an experimental increase in escapements would be quite worthwhile. It appears that there is considerable promise for extending these methods and procedures to cases where the stock size is unknown and where fishing effort is poorly controlled.

Optimal Harvest Strategies for Salmon in Relation to Environmental Variability and Uncertain Production Parameters

A method is developed for incorporating the effects of environmental variability and judgmental uncertainty about future production parameters into the design of optimal harvest strategies; these are expressed as curves relating stock size and exploitation rate. For the Skeena River sockeye, the method suggests that optimal strategies are insensitive to judgmental uncertainty about the Ricker stock production parameter, but are very sensitive to management objectives related to the mean and variance of catches. Best possible tradeoffs between mean and variance of catches for the Skeena River are developed, and a simplified strategy is suggested for improving mean catch while reducing year to year variation.