Digital Commons Network^™

Rinded Iron-Oxide Concretions: Hallmarks Of Altered Siderite Masses Of Both Early And Late Diagenetic Origin, David Loope, Richard Kettler, Karrie A. Weber, Nathan L. Hinrichs, Derek T. Burgess

Department of Earth and Atmospheric Sciences: Faculty Publications

Iron-bearing concretions are valuable records of oxidation states of subsurface waters, but the first concretions to form can be altered drastically during later diagenetic events. Distinctive concretions composed of heavy rinds of iron oxide that surround iron-poor, mud-rich cores are common along bases of fluvial cross-bed sets of the Cretaceous Dakota Formation, Nebraska, USA. Concretion rinds thicken inward and cores contain 46 to 89% void space. Millimeter-scale spherosiderites are abundant in palaeosols that developed in floodplain facies. Evolution of rinded concretions began when intraformational clasts were eroded from sideritic soils, transported, abraded and deposited in river channels. Alteration of siderite …

Genetic Population Substructure In Bison At Yellowstone National Park, Natalie D. Halbert, Peter J. P. Gogan, Philip W. Hedrick, Jacquelyn M. Wahl, James N. Derr

United States Geological Survey: Staff Publications

The Yellowstone National Park bison herd is 1 of only 2 populations known to have continually persisted on their current landscape since pre-Columbian times. Over the last century, the census size of this herd has fluctuated from around 100 individuals to over 3000 animals. Previous studies involving radiotelemetry, tooth wear, and parturition timing provide evidence of at least 2 distinct groups of bison within Yellowstone National Park. To better understand the biology of Yellowstone bison, we investigated the potential for limited gene flow across this population using multilocus Bayesian clustering analysis. Two genetically distinct and clearly defined subpopulations were identified …

Effects Of Biotic Disturbances On Forest Carbon Cycling In The United States And Canada, Jeffrey A. Hicke, Craig D. Allen, Ankur R. Desai, Michael C. Dietze, Ronald J. Hall, Edward (Ted) H. Hogg, Daniel M. Kashian, David Moore, Kenneth F. Raffa, Rona N. Sturrock, James Vogelmann

United States Geological Survey: Staff Publications

Forest insects and pathogens are major disturbance agents that have affected millions of hectares in North America in recent decades, implying significant impacts to the carbon (C) cycle. Here, we review and synthesize published studies of the effects of biotic disturbances on forest C cycling in the United States and Canada. Primary productivity in stands was reduced, sometimes considerably, immediately following insect or pathogen attack. After repeated growth reductions caused by some insects or pathogens or a single infestation by some bark beetle species, tree mortality occurred, altering productivity and decomposition. In the years following disturbance, primary productivity in some …

Landscape Controls On The Timing Of Spring, Autumn, And Growing Season Length In Mid-Atlantic Forests, Andrew J. Elmore, Steven M. Guinn, Burke J. Minsley, Andrew Richardson

United States Geological Survey: Staff Publications

The timing of spring leaf development, trajectories of summer leaf area, and the timing of autumn senescence have profound impacts to the water, carbon, and energy balance of ecosystems, and are likely influenced by global climate change. Limited field-based and remote-sensing observations have suggested complex spatial patterns related to geographic features that influence climate. However, much of this variability occurs at spatial scales that inhibit a detailed understanding of even the dominant drivers. Recognizing these limitations, we used nonlinear inverse modeling of medium-resolution remote sensing data, organized by day of year, to explore the influence of climate-related landscape factors on …

Gene Transcription In Sea Otters (Enhydra Lutris); Development Of A Diagnostic Tool For Sea Otter And Ecosystem Health, Lizabeth Bowen, A. Keith Miles, Michael Murray, Martin Haulena, Judy Tuttle, William Van Bonn, Lance Adams, James L. Bodkin, Brenda Ballachey, James A. Estes, M. Tim Tinker, Robin Keister, Jeffrey L. Stott

United States Geological Survey: Staff Publications

Gene transcription analysis for diagnosing or monitoring wildlife health requires the ability to distinguish pathophysiological change from natural variation. Herein, we describe methodology for the development of quantitative real-time polymerase chain reaction (qPCR) assays to measure differential transcript levels of multiple immune function genes in the sea otter (Enhydra lutris); sea otter-specific qPCR primer sequences for the genes of interest are defined. We establish a ‘reference’ range of transcripts for each gene in a group of clinically healthy captive and free-ranging sea otters. The 10 genes of interest represent multiple physiological systems that play a role in immuno-modulation, …

Do Bioclimate Variables Improve Performance Of Climate Envelope Models?, James I. Watling, Stephanie S. Romanach, David N. Bucklin, Carolina Speroterra, Laura A. Brandt, Leonard G. Pearlstine, Frank J. Mazzotti

United States Geological Survey: Staff Publications

Climate envelope models are widely used to forecast potential effects of climate change on species distributions. A key issue in climate envelope modeling is the selection of predictor variables that most directly influence species. To determine whether model performance and spatial predictions were related to the selection of predictor variables, we compared models using bioclimate variables with models constructed from monthly climate data for twelve terrestrial vertebrate species in the southeastern USA using two different algorithms (random forests or generalized linear models), and two model selection techniques (using uncorrelated predictors or a subset of user-defined biologically relevant predictor variables). There …

Gonadal Abnormalities In Frogs (Lithobates Spp.) Collected From Managed Wetlands In An Agricultural Region Of Nebraska, Usa, Diana M. Papoulias, Matt S. Schwarz, Lourdes Mena

United States Geological Survey: Staff Publications

Nebraska’s Rainwater Basin (RWB) provides important wetland habitat for North American migratory birds. Concern exists that pesticide and nutrient runoff from surrounding row-crops enters wetlands degrading water quality and adversely affecting birds and wildlife. Frogs may be especially vulnerable. Plains leopard (Lithobates blairi) metamorphs from RWB wetlands with varying concentrations of pesticides were evaluated for a suite of biomarkers of exposure to endocrine active chemicals. Froglets had ovarian dysgenesis, high rates of testicular oocytes, and female-biased sex ratios however, there was no clear statistical association between pesticide concentrations and biomarkers. Data interpretation was hindered because timing and duration …

Development And Application Of Methods Used To Source Prehistoric Southwestern Maize: A Review, Larry Benson

United States Geological Survey: Staff Publications

Archaeological cobs free of mineral contaminants should be used to source the soils in which they were grown. Mineral contaminants often contain much higher concentrations of metals than vegetal materials and can alter a cob’s apparent metal and heavy-isotope content. Cleaning a cob via immersion in an acid solution for more than a few minutes will result in the incongruent and sometimes complete leaching of metals, including strontium (Sr), from the cob. When using ⁸⁷Sr/⁸⁶Sr to determine the location of potential agriculture fields, it is best to either integrate several depth-integrated soil samples or to integrate several …

Spatially Explicit Models For Inference About Density In Unmarked Or Partially Marked Populations, Richard B. Chandler, J. Andrew Royle

United States Geological Survey: Staff Publications

Recently developed spatial capture-recapture (SCR) models represent a major advance over traditional capture-recapture (CR) models because they yield explicit estimates of animal density instead of population size within an unknown area. Futhermore, unlike nonspatial CR methods, SCR models account for heterogeneity in capture probability arising from the juxtaposition of animal activity centers and sample locations. Although the utility of SCR methods is gaining recognition, the requirement that all individuals can be uniquely identified exludes their use in many contexts. In this paper, we develop models for situations in which individual recognition is not possible, thereby allowing SCR concepts to be …

An Environmental Systems Analysis Of Hydropower And Its Effects Upon Indigenous Settlements In Karnataka, India, Amy Joens

Honors Program Theses

Hydroelectricity is a very common method of energy production. Large dams are constantly being introduced to the river landscape in areas all over the world. There are definite benefits to hydropower, but the drawbacks may be even more evident. As modernization and development expand across developing nations like India, indigenous populations are often subject to the highest ration of negative impacts and consequences. This research explores both the costs and benefits of hydroelectricity, while using specific examples of dam construction projects to analyze aspects of the cumulative effects of a hydropower project. The Kabini Dam in southern Karnataka, India is …

Landscape-Level Controls On Dissolved Carbon Flux From Diverse Catchments Of The Circumboreal, Suzanne E. Tank, Karen E. Frey, Robert G. Striegl, Peter A. Raymond, Robert M. Holmes, James W. Mcclelland, Bruce J. Peterson

Geography

While much of the dissolved organic carbon (DOC) within rivers is destined for mineralization to CO2, a substantial fraction of riverine bicarbonate (HCO3-) flux represents a CO2 sink, as a result of weathering processes that sequester CO2 as HCO 3-. We explored landscape-level controls on DOC and HCO3- flux in subcatchments of the boreal, with a specific focus on the effect of permafrost on riverine dissolved C flux. To do this, we undertook a multivariate analysis that partitioned the variance attributable to known, key regulators of dissolved C flux (runoff, lithology, and vegetation) prior to examining the effect of permafrost, …

New Science, Synthesis, Scholarship, And Strategic Vision For Society, David R. Foster, Emery Boose, Elizabeth A. Colburn, Elizabeth E. Crone, Aaron M. Ellison, Clarisse Hart, Kathy Fallon Lambert, David A. Orwig, Julie Pallant, Pamela M. Snow, Kristina A. Stinson, Dianna L. Doucette, Paul R. Moorcroft, Andrew D. Richardson, J. William Munger, Adrien C. Finzi, Lucy Hutyra, Anne Short, Brian Donahue, Christopher A. Williams, William V. Sobczak, W. Wyatt Oswald, Edward K. Faison, Jerry M. Melillo, Jonathan R. Thompson, Jeffrey L. Blanchard, Elizabeth S. Chilton, Kristen M. Deangelis, Stephen Destefano, David B. Kittredge, Serita D. Frey, Scott V. Ollinger, Eric A. Davidson

Faculty Publications

Harvard Forest LTER (HFR) is a two decade-strong, integrated research and educational program investigating responses of forest dynamics to natural and human disturbances and environmental changes over broad spatial and temporal scales. HFR engages >30 researchers, >200 graduate and undergraduate students, and dozens of institutions in research into fundamental and applied ecological questions of national and international relevance. Through LTER I–IV, HFR has added historical perspectives, expanded its scope to the New England region, integrated social, biological, and physical sciences, and developed education and outreach programs for K-12, undergraduate, and graduate students, along with managers, decision-makers, and media professionals.

The Distribution And Diversity Of Functional Gene Pathways Controlling Sulfur Speciation In Lower Kane Cave, Wyoming, Audrey Tarlton Paterson

LSU Master's Theses

Defining the linkages between microbial metabolic activity and environmental geochemistry can be used to understand how carbonate dissolution in sulfidic karst systems proceeds. In Lower Kane Cave, Wyoming, sulfidic springs support taxonomically distinct microbial communities that are also associated with putative sulfur metabolisms (e.g., oxidation of reduced sulfur compounds, sulfate reduction, and sulfur disproportionation) that influence carbonate dissolution. The distribution of diverse microbial groups in other terrestrial subsurface environments is not well understood, making Lower Kane Cave ideal for study. Molecular genetics techniques were used to uncover diversity of 16S rRNA genes and bacterial soxB and aprA functional genes. Aqueous …

A Large Cervidae Holocene Accumulation In Eastern Brazil: An Example Of Extreme Taphonomical Control In A Cave Environment, Alex Hubbe, Augusto S. Auler

International Journal of Speleology

A remarkable cervid bone accumulation occurs at a single passage (named Cervid Passage; CP) at Lapa Nova, a maze cave in eastern Brazil. CP lies away from cave entrances, is a typical pitfall passage and contains bone remains of at least 121 cervids, besides few bats, peccaries and rodents remains. There is no evidence of water (or sediment) flow at the site and in general bones lack post depositional alterations and display anatomical proximity, suggesting that the majority of the remains found inside CP (mainly cervids) are due to animals that after entering the cave got trapped in the site. …

Selective Capture Of Transcribed Sequences: A Promising Approach For Investigating Bacterium-Insect Interactions, Ruisheng An, Parwinder Grewal

School of Earth, Environmental, & Marine Sciences Faculty Publications

Bacterial interactions with eukaryotic hosts are complex processes which vary from pathogenic to mutualistic. Identification of bacterial genes differentially expressed in the host, promises to unravel molecular mechanisms driving and maintaining such interactions. Several techniques have been developed in the past 20 years to investigate bacterial gene expression within their hosts. The most commonly used techniques include in-vivo expression technology, signature-tagged mutagenesis, differential fluorescence induction, and cDNA microarrays. However, the limitations of these techniques in analyzing bacterial in-vivo gene expression indicate the need to develop alternative tools. With many advantages over the other methods for analyzing bacterial in-vivo gene expression, …

Effects Of Hypoxia Exposure On Hepatic Cytochrome P450 1a (Cyp1a) Expression In Atlantic Croaker: Molecular Mechanisms Of Cyp1a Down-Regulation, Md. Saydur Rahman, Peter Thomas

School of Earth, Environmental, & Marine Sciences Faculty Publications

Hypoxia-inducible factor-α (HIF-α) and cytochrome P450 1A (CYP1A) are biomarkers of environmental exposure to hypoxia and organic xenobiotic chemicals that act through the aryl hydrocarbon receptor, respectively. Many aquatic environments heavily contaminated with organic chemicals, such as harbors, are also hypoxic. Recently, we and other scientists reported HIF-α genes are upregulated by hypoxia exposure in aquatic organisms, but the molecular mechanisms of hypoxia regulation of CYP1A expression have not been investigated in teleost fishes. As a first step in understanding the molecular mechanisms of hypoxia modulation of CYP1A expression in fish, we characterized CYP1A cDNA from croaker liver. Hypoxia exposure …

Would Predatory Drillhole Frequency On Chione Spp. Increase Under The Suggested Climate Change Scenario? Comparing Pleistocene And Modern Rhodolith Beds, Carlos E. Cintra-Buenrostro

School of Earth, Environmental, & Marine Sciences Faculty Publications

The analysis of predatory drillholes allow paleontologists to reconstruct trophic relationships of ancient systems. To evaluate the potential effects of climate and sea level change on predation frequency by gastropods on bivalves, species of the genus Chione from the Gulf of California were selected because they are a commercially exploited resource - at least locally - and abundant in both modern and Pleistocene (sea level high stand of oxygen substage 5e) samples from rhodolith beds. The present study focused to answer a practical question: would predation on Chione spp. increase under the suggested climate - warming - change scenario? A …

Climate Change At The Pleistocene-Holocene Boundary In The Pacific Northwest: A Comparison Of Proxy Datasets And The Archaeologicial Record, Tiffany J. Fulkerson

EWU Masters Thesis Collection

"The relationship between climate change at the Pleistocene-Holocene Boundary (ca. 12,600-10,200 cal B.P.) and cultural responses to attendant shifts in the environment remains a vexing issue for archaeologists. This study compiles and analyzes glacial, palynological, faunal, and stratigraphic/geomorphological proxy datasets for climate change in the Pacific Northwest of North America and compares them to the coeval archaeological record. The primary purpose of this exercise is to consider the potential ways in which climate change at the Pleistocene-Holocene Boundary affected cultural development for Late Paleoindian-Early Archaic peoples in the Pacific Northwest. Results indicate that climatic and environmental change at this interval …

Comparative Microbial Sampling From Eutrophic Caves In Slovenia And Slovakia Using Rida ®Count Test Kits, Janez Mulec, Václav Krištůfek, Alica Chroňáková

International Journal of Speleology

RIDA®COUNT test plates were used as an easy-to-handle and rapid indicator of microbial counts in karst ecosystems of several caves in Slovakia and Slovenia. All of the caves had a high organic input from water streams, tourists, roosting bat colonies or terrestrial surroundings. We sampled swabs, water and air samples to test robustness and universality of the RIDA®COUNT test kit (R-Biopharm AG, Germany, http://www.r-biopharm.com/) for quantification of total bacteria, coliforms, yeast and mold. Using data from swabs (colony-forming units per cm²) we proposed a scale for description of biocontamination level or superficial microbial load of cave niches. Based …

Relationship Between Carbon Dioxide In Balcarka Cave And Adjacent Soils In The Moravian Karst Region Of The Czech Republic, Jiří Faimon, Monika Ličbinská, Petr Zajíček

International Journal of Speleology

Carbon dioxide concentration, air temperature, and humidity were monitored at (1) two cave sites and (2) three adjacent karst soils. The data over a one-year period are supported by dripwater chemistry and cave visiting frequency. The results indicate that the sources of cave CO2 are anthropogenic and epikarstic ones in addition to ordinary soils. Epikarstic CO2 produced under almost stationary conditions probably control dripwater chemistry and cave’s CO2 maxima. Based on breathing and door opening, anthropogenic activity affects instantaneous cave CO2 levels, depending on site volume/position and visitor number. A conceptual model of the CO2 dynamics of the soil-cave system …

Diversity And Community Assembly Patterns Of Epigean Vs. Troglobiont Spiders In The Iberian Peninsula, Pedro Cardoso

International Journal of Speleology

Cave-obligate organisms usually have smaller ranges and their assemblages have higher beta diversity than their epigean counterparts. Phylogenetic and functional diversity is usually low in cave communities, leading to taxonomic and functional disharmony, with entire groups missing from the subterranean realm. The objective of this work is to compare range, beta diversity, phylogenetic and functional diversity, taxonomic and functional disharmony of epigean versus troglobiont spiders in the Iberian Peninsula.

The median extent of occurrence was found to be 33 times higher for epigean than for cave species. Beta diversity was significantly higher for troglobiont assemblages. Cave assemblages present lower phylogenetic …

Table Of Contents

International Journal of Speleology

No abstract provided.

A New Karren Feature: Hummocky Karren, Lukas Plan, Christa Renetzeder, Rudolf Pavuza, Wilfried Körner

International Journal of Speleology

Karren are small-scale landforms on karst surfaces and many types have been described so far. Here we present an apparently new feature which was found on the Hochschwab karst massive in the Northern Calcareous Alps of Austria. So far only few outcrops each having less than 1 m² within a very restricted area have been found. Morphometric analysis reveals that the karren consist of a randomly distributed, dispersed assemblage of small hummocks and depressions in between. The mean distance between neighbouring hummocks is 4 to 5 cm and the mean height is 0.85 cm. Longitudinal sections are gently sinuous. The …

Book Review: Mundus Subterraneus, Arthur N. Palmer

International Journal of Speleology

No abstract provided.

Book Review: South China Karst Ii, Arrigo A. Cigna

International Journal of Speleology

No abstract provided.

Organic Matter Of Fossil Origin In The Amberine Speleothems From El Soplao Cave (Cantabria, Northern Spain), Fernando Gázquez, Jose Maria Calaforra, Fernando Rull, Paolo Forti, Antonio García-Casco

International Journal of Speleology

Unusual amberine-coloured speleothems were recently found in El Soplao Cave (Cantabria, Spain). Chromophore elements such as Fe, Mn, Cd, Co or Ti were not present in significant quantities. Rather, our data show that their colour comes from leachates of fossilized organic material hosted in the carbonaceous Urgonian facies of the host rock. These leachates are related to the Cretaceous amber deposit that has been recently discovered in the vicinity of El Soplao Cave. The presence of humic and fulvic acids of fossil origin were confirmed by IR and Raman spectroscopic analysis of the carbonaceous strata and the speleothems. In addition, …

Swimming Performance Of Epigeal And Hypogeal Species Of Characidae, With An Emphasis On The Troglobiotic Stygichthys Typhlops Brittan & Böhlke, 1965, Francisco Alexandre Costa Sampaio, Paolo Santos Pompeu, Hersília De Andrade E Santos, Rodrigo Lopes Ferreira

International Journal of Speleology

Swimming performance of fish constitutes a good ecophysiological tool to evaluate the ability of species to use different types of habitats. In order to understand how the swimming performance is related to the hydraulic environment, we compared the critical velocity of five fish (Characidae): Stygichthys typhlops (groundwater troglobiotic); Piabina argentea and Bryconamericus stramineus (riverine); Hemigrammus marginatus (generalist, found in rivers and floodplains) and Psellogrammus kennedyi (lacustrine). Swimming speed tests were performed in a respirometer-type apparatus. Total body length was the variable that best explained the maximum speed attained by all species under study. The critical swimming speed values (in body …

Book Review: South China Karst I, Arrigo A. Cigna

International Journal of Speleology

No abstract provided.

Volcanic Caves: Priorities For Conserving The Azorean Endemic Troglobiont Species, Paulo A.V. Borges Prof., Pedro Cardoso, Isabel R. Amorim, Fernando Pereira, João P. Constância, João C. Nunes, Paulo Barcelos, Paulino Costa, Rosalina Gabriel, Maria L. Dapkevicius

International Journal of Speleology

Azorean lava-tubes and volcanic pits adequately sampled for arthropod fauna were evaluated for species diversity and rarity. An iterative partial multiple regression analysis was performed to produce a multi-criteria index (Importance Value for Cave Conservation, IV-CC) incorporating arthropod species diversity indices but also including indices qualifying cave geological and management features (e.g., the diversity of geological structures, threats, accessibility). Additionally, we calculated complementarity solutions (irreplaceability and Fraction-of-Spare measures) for each cave with different targets per species, i.e., the minimum number of caves needed for each species to be represented either once or twice. Our results clearly show that to preserve …

World Karst Science Reviews

International Journal of Speleology

No abstract provided.