Indirect Effects of Impoundment on Migrating Fish: Temperature Gradients in Fish Ladders Slow Dam Passage by Adult Chinook Salmon and Steelhead

Thermal layering in reservoirs upstream from hydroelectric dams can create temperature gradients in fishways used by upstream migrating adults. In the Snake River, Washington, federally-protected adult salmonids (Oncorhynchus spp.) often encounter relatively cool water in dam tailraces and lower ladder sections and warmer water in the upstream portions of ladders. Using radiotelemetry, we examined relationships between fish passage behavior and the temperature difference between the top and bottom of ladders (∆T) at four dams over four years. Some spring Chinook salmon (O. tshawytscha) experienced ∆T ≥ 0.5 °C. Many summer and fall Chinook salmon and summer steelhead (O. mykiss) experienced ∆T ≥ 1.0 °C, and some individuals encountered ΔT > 4.0°C. As ΔT increased, migrants were consistently more likely to move down fish ladders and exit into dam tailraces, resulting in upstream passage delays that ranged from hours to days. Fish body temperatures equilibrated to ladder temperatures and often exceeded 20°C, indicating potential negative physiological and fitness effects. Collectively, the results suggest that gradients in fishway water temperatures present a migration obstacle to many anadromous migrants. Unfavorable temperature gradients may be common at reservoir-fed fish passage facilities, especially those with seasonal thermal layering or stratification. Understanding and managing thermal heterogeneity at such sites may be important for ensuring efficient upstream passage and minimizing stress for migratory, temperature-sensitive species.     

Electrophysiological properties of isthmic neurons in frogs revealed by in vitro and in vivo studies

The frog nucleus isthmi (parabigeminal nucleus in mammals) is a visually responsive, cholinergic and anatomically well-defined group of neurons in the midbrain. It shares reciprocal topographic projections with the ipsilateral optic tectum (superior colliculus in mammals) and strongly influences visual processing. Anatomical and biochemical information indicates the existence of distinct neural populations within the frog nucleus isthmi, which raises the question: are there electrophysiological distinctions between neurons that are putatively classified by their anatomical and biochemical properties? To address this question, we measured frog nucleus isthmi neuron cellular properties in vitro and visual response properties in vivo. No evidence for distinct electrophysiological classes of neurons was found. We thus conclude that, despite the anatomical and biochemical differences, the cells of the frog nucleus isthmi respond homogeneously to both current injections and simple visual stimuli.     

Molecular Phylogeography and Evolutionary History of the Estuarine Copepod, Acartia Tonsa, on the Northwest Atlantic Coast

Coastal estuaries are useful model systems to study the ecological and evolutionary responses of organisms to highly variable, discontinuous habitats. For this study, the molecular population genetic diversity of the planktonic calanoid copepod Acartia tonsa (Dana, 1849) was described based on DNA sequence variation for a 183 base-pair region of the mitochondrial 16S rRNA gene. Samples of A. tonsa were collected from four estuaries on the Atlantic coast of the USA during 1993 and 1994, one estuary on the Gulf of Mexico coast in 1994, and one site on the Pacific coast of the USA in 1994. Dispersal of A. tonsa was shown to be restricted, with significant population genetic structuring between different estuaries. For all but the closely-adjacent MA and RI samples, frequencies of haplotypes and/or length polymorphisms within one haplotype (caused by insertion/deletion mutations) revealed highly significant genetic differentiation and geographic isolation. Mt16S haplotypes of A. tonsa from Atlantic and Gulf of Mexico estuaries were assorted among four deeply-diverged clades. Haplotypes within each clade differed by <2%, while differences among clades of 10% to 14% approached those between described Acartia species (e.g., 19% to 28% among A. clausi, A. hudsonica, and A. longiremis). Atlantic and Pacific coast samples identified as A. tonsa had no haplotypes in common and genetic differences between haplotypes ranged from 18% to 29%; phylogenetic analysis supported the separation of Pacific coast A. tonsa as a distinct species. We hypothesize that the observed patterns of molecular genetic diversity and structure of A. tonsa resulted from responses to historical climatic variation, including episodic range compression and displacement, and alteration of NW Atlantic coastal and estuarine environments.     

Design of a gas chromatograph with parallel radioactivity and mass spectrometric detection : Application to the identification of the major metabolite of d-limonene associated with α2u-globulin

A Perkin Elmer 3920 gas chromatograph, equipped with a versatile inlet system (i.e. an injector/trap), was interfaced to a radioactivity detector and a mass-selective detector (H/P 5970B) to identify ¹⁴C-labeled compounds. The use of a pre-trap as a demountable, programmable-temperature injector, in conjunction with the injector/trap, allowed the introduction of 0.5-ml samples of rat kidney cytosol extracts to 0.32 mm I.D. capillary columns. The instrumentation greatly facilitated the identification of the major radiolabeled metabolite of d-limonene associated with the male rat-specific protein α2u-globulin as 1,2-cis-d-limonene oxide.     

A Mathematical Model of the Inflammatory Response to Pathogen Challenge

The human body’s immune response to bacterial challenge, even when successful in controlling the infection, can result in negative consequences for the host, including reduced functionality of associated tissues. We present and analyze a low-dimensional mathematical model of this immune response to pathogen invasion, incorporating the coordinated actions of active immune cells, and both pro- and anti-inflammatory cytokines. The model simulates both the positive (pathogen reduction) and negative (local tissue dysfunction) effects of the immune response and includes the important role of immunologic memory in the process of a return to stasis. This differential equation-based model is sufficiently general to be applicable to a wide range of human tissues and organs.     

Diversity of juvenile Chinook salmon life history pathways

Life history variability includes phenotypic variation in morphology, age, and size at key stage transitions and arises from genotypic, environmental, and genotype-by-environment effects. Life history variation contributes to population abundance, productivity, and resilience, and management units often reflect life history classes. Recent evidence suggests that past Chinook salmon (Oncorhynchus tshawytscha) classifications (e.g., ‘stream’ and ‘ocean’ types) are not distinct evolutionary lineages, do not capture the phenotypic variation present within or among populations, and are poorly aligned with underlying ecological and developmental processes. Here we review recently reported variation in juvenile Chinook salmon life history traits and provide a refined conceptual framework for understanding the causes and consequences of the observed variability. The review reveals a broad continuum of individual juvenile life history pathways, defined primarily by transitions among developmental stages and habitat types used during freshwater rearing and emigration. Life history types emerge from discontinuities in expressed pathways when viewed at the population scale. We synthesize recent research that examines how genetic, conditional, and environmental mechanisms likely influence Chinook salmon life history pathways. We suggest that threshold models hold promise for understanding how genetic and environmental factors influence juvenile salmon life history transitions. Operational life history classifications will likely differ regionally, but should benefit from an expanded lexicon that captures the temporally variable, multi-stage life history pathways that occur in many Chinook salmon populations. An increased mechanistic awareness of life history diversity, and how it affects population fitness and resilience, should improve management, conservation, and restoration of this iconic species.     

Homing and straying by anadromous salmonids: a review of mechanisms and rates

There is a long research history addressing olfactory imprinting, natal homing, and non-natal straying by anadromous salmon and trout (Salmonidae). In undisturbed populations, adult straying is a fundamental component of metapopulation biology, facilitating genetic resilience, demographic stability, recolonization, and range expansion into unexploited habitats. Unfortunately, salmonid hatcheries and other human actions worldwide have affected straying in ways that can negatively affect wild populations through competitive interactions, reduced productivity and resiliency, hybridization and domestication effects, and outbreeding depression. Reduced adult straying is therefore an objective for many managed populations. Currently, there is considerable uncertainty about the range of ‘natural’ stray rates and about which mechanisms precipitate straying in either wild or human-influenced fish. Research in several disciplines indicates that adult straying is affected by endocrine physiology and neurological processes in juveniles, incomplete or interrupted imprinting during rearing and emigration, and by complex interactions among adult maturation processes, reproductive behaviors, olfactory memory, environmental conditions during migration, and senescence physiology. Reported salmonid stray rates indicate that the behavior varies among species, among life-history types, and among populations within species. Most strays enter sites near natal areas, but long-distance straying also occurs, especially in hatchery populations that were outplanted or transported as juveniles. A majority of past studies has estimated straying as demographic losses from donor populations, but some have estimated straying into recipient populations. Most recipient-based estimates have substantiated concerns that wild populations are vulnerable to swamping by abundant hatchery and farm-raised strays.     

A Hybrid DNA Extraction Method for the Qualitative and Quantitative Assessment of Bacterial Communities from Poultry Production Samples

The efficacy of DNA extraction protocols can be highly dependent upon both the type of sample being investigated and the types of downstream analyses performed. Considering that the use of new bacterial community analysis techniques (e.g., microbiomics, metagenomics) is becoming more prevalent in the agricultural and environmental sciences and many environmental samples within these disciplines can be physiochemically and microbiologically unique (e.g., fecal and litter/bedding samples from the poultry production spectrum), appropriate and effective DNA extraction methods need to be carefully chosen. Therefore, a novel semi-automated hybrid DNA extraction method was developed specifically for use with environmental poultry production samples. This method is a combination of the two major types of DNA extraction: mechanical and enzymatic. A two-step intense mechanical homogenization step (using bead-beating specifically formulated for environmental samples) was added to the beginning of the “gold standard” enzymatic DNA extraction method for fecal samples to enhance the removal of bacteria and DNA from the sample matrix and improve the recovery of Gram-positive bacterial community members. Once the enzymatic extraction portion of the hybrid method was initiated, the remaining purification process was automated using a robotic workstation to increase sample throughput and decrease sample processing error. In comparison to the strict mechanical and enzymatic DNA extraction methods, this novel hybrid method provided the best overall combined performance when considering quantitative (using 16S rRNA qPCR) and qualitative (using microbiomics) estimates of the total bacterial communities when processing poultry feces and litter samples.     

Hydrologic and behavioral constraints on oviposition of stream insects: implications for adult dispersal

The supply of recruits plays an important role in plant and animal population dynamics, and may be governed by environmental and behavioral constraints on animals. Mated females of the mayfly genus Baetis alight on rocks protruding from streams, crawl under water and deposit a single egg mass under a rock. We surveyed oviposition and emergence of a bivoltine population of B. bicaudatus in multiple stream reaches in one high-altitude watershed in western Colorado over 3 years to establish qualitative patterns at a regional scale (entire watershed), and quantitative patterns over six generations at a local scale (one stream reach). We also measured characteristics of preferred oviposition substrates, performed experiments to test hypotheses about cues used by females to select oviposition sites, and measured mortality of egg masses in the field. Our goals were to determine whether: (1) hydrologic variation necessitated dispersal of females to find suitable oviposition sites; (2) the local supply of females could provide the supply of local recruits; and (3) local recruitment determined the local production of adults. The onset of oviposition corresponded with the decline of spring run-off, which differed dramatically among years and among sites within years. However, eggs appeared before any adults had emerged in 8 of 22 site-years, and adults emerged 2-3 weeks before any eggs were oviposited in 3 site-years. Furthermore, the size distribution of egg masses differed from that predicted by the size distribution of females that emerged from seven of nine stream reaches. Protruding rocks and eggs appeared earlier each summer in smaller tributaries than in larger mainstream reaches, suggesting that hydrologic and behavioral constraints on oviposition may force females to disperse away from their natal reach to oviposit, and possibly explain the predominantly upstream flight of Baetis females reported in other studies. Local oviposition rates in one third-order stream-reach increased rapidly as soon as substrates protruded from the water surface, and females preferred large rocks that became available early in the flight season. However, females oviposited on <10% of all available rocks, and <65% of preferred rocks as determined by an empirical model. These data indicated that the timing of appearance of suitable oviposition sites determined the phenology of local recruitment, but that preferred oviposition sites were not saturated. Thus, the magnitude of local recruitment was not limited by the absolute abundance of preferred oviposition sites. Only 22% of egg masses observed in the field suffered mortality during their embryonic development, and per capita Baetis egg mass mortality was significantly lower on rocks with higher densities of egg masses. Thus, we suspect that specialized oviposition behavior may reduce the probability of egg mortality, potentially compensating for the costs of dispersal necessary to locate suitable oviposition sites. Finally, the number of adults that emerged at one stream reach was independent of the number of egg masses oviposited over six generations of Baetis; and local recruitment was not a function of the number of adults of the previous generation that emerged locally. The patterns of oviposition and emergence of Baetis found in this study are consistent with the following hypotheses. Recruitment of eggs in a stream reach is not limited by the local supply of adults, but is a function of the regional supply of dispersing adults, which are constrained by the spatial and temporal distribution of preferred oviposition habitat. Furthermore, subsequent local production of adults is not a function of the supply of recruits, arguing for post-recruitment control of local populations by processes operating in the larval stage (e.g., predation, competition, dispersal, disturbance). Processes affecting larval and adult stages of Baetis act independently and at different scales, thereby decoupling local population dynamics of successive generations.