USGS Science⌕ Search

Geology topics

J.M. Emlen

Publications and source records attributed to J.M. Emlen.

At least 37 records · Page 2Linked to original sources
USGS1999

Characterization of branch complexity by fractal analyses and detect plant functional adaptations

The comparison between complexity in the sense of space occupancy (box-counting fractal dimension Dc and information dimension DI ) and heterogeneity in the sense of space distribution (average evenness index and evenness variation coefficient JCV) were investigated in mathematical fractal objects and natural branch ¯ J structures. In general, increased fractal dimension was paired with low heterogeneity. Comparisons between branch architecture in Anthyllis cytisoides under different slope exposure and grazing impact revealed that branches were more complex and more homogeneously distributed for plants on northern exposures than southern, while grazing had no impact during a wet year. Developmental instability was also investigated by the statistical noise of the allometric relation between internode length and node order. In conclusion, our study demonstrated that fractal dimension of branch structure can be used to analyze the structural organization of plants, especially if we consider not only fractal dimension but also shoot distribution within the canopy (lacunarity). These indexes together with developmental instability analyses are good indicators of growth responses to the environment.

International Journal of Plant Sciences↗
USGS1998

Instability of development and fractal architecture in dryland plants as an index of grazing pressure

Developmental instability has been used to monitor the well-being of natural populations exposed to physical, chemical and biological stressors. Here, we use developmental instability to assess the impact of grazing on Chrysothamnus greenii and Seriphidium novum shrubs, and Oryzopsis hymenoides grass, common in the arid intermountain west of the U.S.A. Statistical noise in allometric relations was used as an indicator of developmental instability arising from grazing-induced stress. Unpalatable species that are not grazed ( Chrysothamnus greenii ) or species that are dormant during the winter–spring grazing period ( Oryzopsis hymenoides ) show lower allometric variability under high grazing pressure. Palatable species ( Seriphidium novum ) exhibit high developmental instability under low and high grazing pressure. Grazing pressure imposed by presumably co-adapted wild herbivores enhances developmental stability in species habituated to moderate grazing, like Oryzopsis hymenoides , but stresses plants such as Chrysothamnus greenii that prefer disturbed environments. These grazing effects are probably due to the impact grazing has on competitive relationships and not to the direct action of the herbivore on the plants.

Journal of Arid Environments↗
USGS1998

How organisms do the right thing: The attractor hypothesis

Neo-Darwinian theory is highly successful at explaining the emergence of adaptive traits over successive generations. However, there are reasons to doubt its efficacy in explaining the observed, impressively detailed adaptive responses of organisms to day-to-day changes in their surroundings. Also, the theory lacks a clear mechanism to account for both plasticity and canalization. In effect, there is a growing sentiment that the neo-Darwinian paradigm is incomplete, that something more than genetic structure, mutation, genetic drift, and the action of natural selection is required to explain organismal behavior. In this paper we extend the view of organisms as complex self-organizing entities by arguing that basic physical laws, coupled with the acquisitive nature of organisms, makes adaptation all but tautological. That is, much adaptation is an unavoidable emergent property of organisms' complexity and, to some a significant degree, occurs quite independently of genomic changes wrought by natural selection. For reasons that will become obvious, we refer to this assertion as the attractor hypothesis. The arguments also clarify the concept of "adaptation." Adaptation across generations, by natural selection, equates to the (game theoretic) maximization of fitness (the success with which one individual produces more individuals), while self-organizing based adaptation, within generations, equates to energetic efficiency and the matching of intake and biosynthesis to need. Finally, we discuss implications of the attractor hypothesis for a wide variety of genetical and physiological phenomena, including genetic architecture, directed mutation, genetic imprinting, paramutation, hormesis, plasticity, optimality theory, genotype-phenotype linkage and puncuated equilibrium, and present suggestions for tests of the hypothesis. ?? 1998 American Institute of Physics.

Chaos↗
USGS1998

Thermally induced chronic developmental stress in coho salmon: Integrating measures of mortality, early growth and fluctuating asymmetry

Developmental stability, or homeostasis, facilitates the production of consistent phenotypes by buffering against stress. Fluctuating asymmetry is produced by developmental instability and is manifested as small random departures from bilateral symmetry. Increased fluctuating asymmetry is thought to parallel compromised fitness, in part, because stress promotes energy dissipation. Compensatory energy expenditures within the organism are required to complete development, thus promoting instability through reductions in homeostasis. Increased heterozygosity may enhance developmental stability by reducing energy dissipation from stress through increased metabolic efficiency, possibly by providing greater flexibility in metabolic pathways. Traditionally, fluctuating asymmetry has been used as a bioindicator of chronic stress, provided that selective mortality of less fit individuals did not reduce stress-mediated increases in fluctuating asymmetry to background levels produced by natural developmental error, or create data inconsistencies such as higher asymmetry in groups exposed to lower stress. Unfortunately, absence of selective mortality and its effects, while often assumed, can be difficult to substantiate. We integrated measures of early growth, mortality, fluctuating asymmetry (mandibular pores, pectoral finrays, pelvic finrays, and gillrakers on the upper and lower arms of the first branchial arch) and directional asymmetry (branchiostegal rays) to assess chronic thermal stress (fluctuating temperatures as opposed to ambient temperatures) in developing eggs from two different coho salmon (Oncorhynchus kisutch) stocks and their reciprocal hybrids. Hybridization provided insight on the capacity of heterozygosity to reduce stress during development. Although egg losses were consistently higher in crosses exposed to fluctuating temperatures, egg mortality was predominantly a function of maternal stock of origin. Post-hatch losses were higher in crosses exposed to ambient temperatures than in crosses exposed to fluctuating temperatures during embryogenesis. Observed patterns of early growth revealed no heterosis, but instead reflected maternal effects, with some crosses slowing growth and yolk utilization when exposed to fluctuating temperatures. Analyses of fluctuating asymmetry also showed no effects from heterosis. While analyses of composite asymmetry scores and branchiostegal rays were inconclusive, analyses of individual characters showed significantly higher fluctuating asymmetry in pelvic finray counts and a marginal change in the numbers of fish asymmetric for this character in crosses exposed to chronic thermal stress. In contrast, the fluctuating asymmetry in lower gillraker counts was significantly higher in crosses exposed to ambient temperatures and there were significantly more fish asymmetric for this character. Data on mortalities and fluctuating asymmetry indicate pelvic finray development was thermally stressed, while the heightened fluctuating asymmetry in lower gillraker counts under ambient temperatures was due to a greater frequency of less fit fish that had not been culled by thermal stress. Changes in early growth patterns in response to developmental stress yielded no parallel responses in meristic characters. We conclude that chronic thermal stress produced both selectively lethal and sublethal effects that directly shaped fluctuating asymmetry and fitness profiles in these crosses. Implicit in this conclusion is that developmental instability analyses can detect more than just chronic sublethal stress, thus providing substantial credence for using instability studies as proactive bioassessment methodologies.

Oikos↗
USGS1997

Developmental instability analysis of BKD-infected spring Chinook salmon (Onchorhynchus tshawytscha) prior to seawater exposure

Stress in organisms results in energy dissipation, making developmental pathways less stable. Effects of chronic stress, manifested as small random departures from phenotypic symmetry, reflect developmental instability, are considered to be epigenetic and an effect produced by compromised fitness. Instability is detectable and effectively interpreted among sites or populations if samples are collected randomly, the stressor is present throughout character development, characters are identified accurately and excessive mortality does not erase the existence of developmental instability. Bacterial kidney disease (BKD) is a chronic systemic disease in salmonids that, after vertical transmission from parent to egg, persists and spreads throughout ontogeny, potentially affecting developmental processes. Because levels of progeny infection reflect parental infection levels, groups of offspring from parents with high and low levels of BKD infection can be compared to assess the effects of disease-mediated developmental stress. Analyses of fluctuating asymmetry in five bilateral characters were inconclusive, but significant reductions in the proportion of unusable scales, in the number of circulus errors, and in the directional asymmetry of branchiostegal rays were observed in fish from the high-BKD group. This group also contained individuals of significantly larger size. These results are opposite to those expected from traditional developmental instability theory in suggesting that surviving high-BKD fish have greater developmental stability. This reversal appears to be produced by selective mortality having a greater effect than sublethal stress in altering developmental instability patterns. These results are discussed with respect to size selectivity, heterosis and the assumptions supporting developmental instability as a tool for detecting chronic sublethal stress.

Oikos↗
USGS1996

Fractal structure of sequential behaviour patterns: an indicator of stress

The detection of stress arising from parasitic infection by Sarcoptes scabieis and from pregnancy is explored, using a fractal analysis of head lifting behaviour and feeding–non-feeding activity sequences in female Spanish ibex, Capra pyrenaica , under natural conditions. Because organisms under stress increase their metabolic rate and, in consequence, energy consumption, it follows that stress will, generally, lead to a reduction in complexity (fractal dimension) of exploratory behaviour. In the present study the fractal dimension of the three measures of complexity used declined with stress, both from pregnancy and from parasitic infection. This observation provides a new and effective way to assess the general state of animals’ health in the field, without the need for capture and handling.

Animal Behaviour↗
USGS1995

Developmental instability in the Pacific Hake parasitized by the Myxosporean Kudoa spp.

A morphometric study of the otoliths of a population of Pacific hake Merluccius productus was conducted to detect developmental instability (DI) related to parasitism by Myxosporeans, Kudoa spp. We report a link between parasitism and DI, which we measured as fluctuating asymmetry by comparing the right–left differences in otolith shape, width, and weight in the same fish. Otolith shape provided the most sensitive measurement of DI asymmetry. Results suggest that Kudoa spp. could be a strong agent of selection in the Pacific hake.

Transactions of the American Fisheries Society↗
USGS1995

Fractal structures and fractal functions as disease indicators

Developmental instability is an early indicator of stress, and has been used to monitor the impacts of human disturbance on natural ecosystems. Here we investigate the use of different measures of developmental instability on two species, green peppers (Capsicum annuum), a plant, and Spanish ibex (Capra pyrenaica), an animal. For green peppers we compared the variance in allometric relationship between control plants, and a treatment group infected with the tomato spotted wilt virus. The results show that infected plants have a greater variance about the allometric regression line than the control plants. We also observed a reduction in complexity of branch structure in green pepper with a viral infection. Box-counting fractal dimension of branch architecture declined under stress infection. We also tested the reduction in complexity of behavioral patterns under stress situations in Spanish ibex (Capra pyrenaica). Fractal dimension of head-lift frequency distribution measures predator detection efficiency. This dimension decreased under stressful conditions, such as advanced pregnancy and parasitic infection. Feeding distribution activities reflect food searching efficiency. Power spectral analysis proves to be the most powerful tool for character- izing fractal behavior, revealing a reduction in complexity of time distribution activity under parasitic infection.

Oikos↗
USGS1994

Developmental instability as an indicator of natural stress on the Pacific Hake (Merlussius productus)

Developmental lnstability (DI) has been proposed as an inexpensive, quickly applied, and sensitive indicator of stress that can be utilized in early warning and in monitoring anthropogenic impacts on fish and other animals and plants. A problem arises, however, to the extent that natural stressors confound the effects of human-induced disturbances. Our objective in this work was to investigate whether a natural stressor, in the form of EI Nino conditions, contributed to DI in the Pacific hake. Right-left (fluctuating> asymmetry of otolith length, width, growth rate, and weight, as well as right-left otolith shape differences, were used as measures of DI. Results show that indeed EI Nino disrupts development, indicating stress. This outcome suggests that DI, as an early warning and monitoring tool for stress, must be used with caution.

Fishery Bulletin↗
USGS1994

Biological monitoring of environmental quality: The use of developmental instability

Distributed robustness is thought to influence the buffering of random phenotypic variation through the scale-free topology of gene regulatory, metabolic, and protein-protein interaction networks. If this hypothesis is true, then the phenotypic response to the perturbation of particular nodes in such a network should be proportional to the number of links those nodes make with neighboring nodes. This suggests a probability distribution approximating an inverse power-law of random phenotypic variation. Zero phenotypic variation, however, is impossible, because random molecular and cellular processes are essential to normal development. Consequently, a more realistic distribution should have a y-intercept close to zero in the lower tail, a mode greater than zero, and a long (fat) upper tail. The double Pareto-lognormal (DPLN) distribution is an ideal candidate distribution. It consists of a mixture of a lognormal body and upper and lower power-law tails.

Journal of Environmental Engineering↗
USGS1993

Nonlinear growth dynamics and the origin of fluctuating asymmetry

The nonlinear, complex nature of biosynthesis magnifies the impacts of small, random perturbations on organism growth, leading to distortions in adaptive allometries and, in particular, to fluctuating asymmetry. These distortions can be partly checked by cell-cell and inter-body part feedback during growth and development, though the latter mechanism also may lead to complex patterns in right-left asymmetry. Stress can be expected to increase the degree to which random growth perturbations are magnified and may also result in disruption of the check mechanisms, thus exaggerating fluctuating asymmetry. The processes described not only provide one explanation for the existence of fluctuating asymmetry and its augmentation under stress, but suggest additional effects of stress as well. Specifically, stress is predicted to lead to decreased fractal dimension of bone sutures and branching structures in animals, and in increased dimension of growth trace patterns such as those found in mollusc shells and fish otoliths and scales. A basic yet broad primer on fractals and chaos is provided as background for the theoretical development in this manuscript.

Genetica↗
USGS1990

Density-dependence at sea for coho salmon (Oncorhynchus kisutch)

The success of expanded salmon hatchery programs will depend strongly on the degree of density-induced diminishing returns per smolt released. Several authors have addressed the question of density-dependent mortality at sea in coho salmon ( Oncorhynchus kisutch ), but have come to conflicting conclusions. We believe there are compelling reasons to reinvestigate the data, and have done so for public hatchery fish, using a variety of approaches. The results provide evidence that survival of these public hatchery fish is negatively affected, directly by the number of public hatchery smolts and indirectly by the number of private hatchery smolts. These results are weak, statistically, and should be considered primarily as a caution to those who, on the basis of other published work, believe that density-dependence does not exist. The results reported here also re-emphasize the often overlooked point that inferences drawn from data are strongly biased by investigators' views of how the systems of interest work and by the statistical assumptions they make preparatory to the analysis of those data.

Canadian Journal of Fisheries and Aquatic Sciences↗
USGS1989

Terrestrial population models for ecological risk assessment: A state-of-the-art review

Few attempts have been made to formulate models for predicting impacts of xenobiotic chemicals on wildlife populations. However, considerable effort has been invested in wildlife optimal exploitation models. Because death from intoxication has a similar effect on population dynamics as death by harvesting, these management models are applicable to ecological risk assessment. An underlying Leslie-matrix bookkeeping formulation is widely applicable to vertebrate wildlife populations. Unfortunately, however, the various submodels that track birth, death, and dispersal rates as functions of the physical, chemical, and biotic environment are by their nature almost inevitably highly species- and locale-specific. Short-term prediction of one-time chemical applications requires only information on mortality before and after contamination. In such cases a simple matrix formulation may be adequate for risk assessment. But generally, risk must be projected over periods of a generation or more. This precludes generic protocols for risk assessment and also the ready and inexpensive predictions of a chemical's influence on a given population. When designing and applying models for ecological risk assessment at the population level, the endpoints (output) of concern must be carefully and rigorously defined. The most easily accessible and appropriate endpoints are (1) pseudoextinction (the frequency or probability of a population falling below a prespecified density), and (2) temporal mean population density. Spatial and temporal extent of predicted changes must be clearly specified a priori to avoid apparent contradictions and confusion.

Environmental Toxicology and Chemistry↗