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At least 919 records · Page 51Linked to original sources
USGS2014

Barcodes are a useful tool for labeling and tracking ecological samples

Barcodes are used to label and track just about everything these days. Look around your office, in your medicine cabinet, at the package you just received in the mail, or on the shelves of any shop in town, and you will immediately grasp the ubiquity of their use. Interestingly, railroads and supermarkets were the early pioneers of barcode development: the former needing a way to track railway car location and ownership on a national scale, the latter needing a way to track a diverse array of products and to decrease checkout times (Nelson 1997). Barcodes first came to use in the sciences via the field of medicine, and the medical literature contains hundreds of publications describing how this technology has reduced errors in patient specimen identification and handling, where error mitigation is crucial. In short, barcodes have been adopted by many industries, and in many fields they are now synonymous with asset tracking. In spite of their potential to efficiently organize “assets” (i.e., samples) and minimize human error, the use of barcodes has yet to gain widespread application in ecology. In an age where students take notes on laptops instead of paper, and where “text messaging” involves a smartphone rather than a ball‐point pen, why do otherwise tech‐savvy ecologists persist in hand‐labeling samples? Why do we repeatedly transcribe long and unique identifiers at each step in the process of sample analysis, thereby wasting time and creating opportunities for transcription errors and data loss? Why are most sample storage areas only successfully navigable by the lab manager who personally shelved the samples? In the case of our large ecology lab—and, we suspect, in many others as well—the answer to these questions was perpetually, “bar‐coding won't be worth the trouble.” Recently, however, we realized this was no longer a sufficient answer when we started a new research project that involved collecting an additional thousands of samples each year; we decided to embrace the tangible benefits of an electronic labeling system, and implemented barcoding in our lab. To be clear, the use of barcoding in ecology is not completely novel, and there have been early adopters of this technology. For example, the Cedar Creek Long Term Ecological Research (LTER) site has been using barcodes since at least the mid‐1990s to track the large number of samples collected in their long‐term experimental grasslands (T. A. Kennedy, personal observation ). Overall, however, Cedar Creek is an outlier: in informal e‐mail surveys of LTER sites, only two of eight respondents used barcodes for sample identification or tracking, and even then their use was generally limited to certain samples or certain stages of sample analysis. Our objective in this article is to use our lab as a case study to highlight the potential of barcodes to simplify numerous aspects of sample collection and processing.

Arizona↗
USGS2009

Perturbation analysis for patch occupancy dynamics

Perturbation analysis is a powerful tool to study population and community dynamics. This article describes expressions for sensitivity metrics reflecting changes in equilibrium occupancy resulting from small changes in the vital rates of patch occupancy dynamics (i.e., probabilities of local patch colonization and extinction). We illustrate our approach with a case study of occupancy dynamics of Golden Eagle ( Aquila chrysaetos ) nesting territories. Examination of the hypothesis of system equilibrium suggests that the system satisfies equilibrium conditions. Estimates of vital rates obtained using patch occupancy models are used to estimate equilibrium patch occupancy of eagles. We then compute estimates of sensitivity metrics and discuss their implications for eagle population ecology and management. Finally, we discuss the intuition underlying our sensitivity metrics and then provide examples of ecological questions that can be addressed using perturbation analyses. For instance, the sensitivity metrics lead to predictions about the relative importance of local colonization and local extinction probabilities in influencing equilibrium occupancy for rare and common species.

Ecology↗
USGS2015

A guide to Bayesian model selection for ecologists

The steady upward trend in the use of model selection and Bayesian methods in ecological research has made it clear that both approaches to inference are important for modern analysis of models and data. However, in teaching Bayesian methods and in working with our research colleagues, we have noticed a general dissatisfaction with the available literature on Bayesian model selection and multimodel inference. Students and researchers new to Bayesian methods quickly find that the published advice on model selection is often preferential in its treatment of options for analysis, frequently advocating one particular method above others. The recent appearance of many articles and textbooks on Bayesian modeling has provided welcome background on relevant approaches to model selection in the Bayesian framework, but most of these are either very narrowly focused in scope or inaccessible to ecologists. Moreover, the methodological details of Bayesian model selection approaches are spread thinly throughout the literature, appearing in journals from many different fields. Our aim with this guide is to condense the large body of literature on Bayesian approaches to model selection and multimodel inference and present it specifically for quantitative ecologists as neutrally as possible. We also bring to light a few important and fundamental concepts relating directly to model selection that seem to have gone unnoticed in the ecological literature. Throughout, we provide only a minimal discussion of philosophy, preferring instead to examine the breadth of approaches as well as their practical advantages and disadvantages. This guide serves as a reference for ecologists using Bayesian methods, so that they can better understand their options and can make an informed choice that is best aligned with their goals for inference.

Ecological Monographs↗
USGS2010

BRIDGES: Evolution of basic and applied linkages in benthic science

Growing awareness of environmental degradation resulted in stricter environmental regulations and laws for aquatic ecosystems. These regulations were followed by an increase in applied research and monitoring beginning in the early 1970s. The number of applied scientists who were members of the North American Benthological Society grew at a commensurate rate. The editors of J-NABS recognized that, despite these increases, submitted manuscripts mostly addressed basic science. In response, the BRIDGES section of J-NABS was created in 1994 to provide a forum for linking basic ecological principles to applied science problems and issues. We examined the emergence of applied science topics in J-NABS and its predecessor, Freshwater Invertebrate Biology , from their beginning in 1982 to 2009. We classified papers among 11 categories that included a basic/applied science linkage. In the 1980s, applied papers were predominantly on effects of eutrophication/pollution and landuse changes. When BRIDGES was established in 1994, papers were solicited by editors and BRIDGES sections usually included >1 paper on a common theme to express complementary or alternate viewpoints. Forty-two papers appeared in BRIDGES between 1994 and 2009, but the number per issue declined after 2001. The total number of applied science papers in J-NABS has increased since ∼1994. Citation analysis of BRIDGES papers illustrates how information is being cited, but applied papers often are used in ways that might not lead to citations. BRIDGES transitioned to a new format in September 2009 to address new types of complex, multifaceted linkages. All new BRIDGES articles will be open access, and authors will be encouraged to produce lay-language fact sheets and to post them on the web.

Journal of the North American Benthological Societ↗
USGS2024

New approaches to wildlife health

Recent environmental change and biodiversity loss have modified ecosystems, altering disease dynamics. For wildlife health, this trend has translated into increased potential for disease transmission and reduced capacity to overcome significant population-level impacts, which may place species at risk of extinction. Thus, current approaches to wildlife health focus not on the absence of disease but rather on the concept of health promotion. That is, wildlife populations will be more resilient to disease if they have the basic requirements for survival, as well as functioning ecosystems, within an enabling socio-economic environment. In this context, animal health programmes must adapt to design and implement wildlife health programmes that bridge knowledge gaps and fully integrate conservation goals. This article proposes new pathways and additions to the animal health management toolbox, including new approaches to surveillance and information management, partnerships and new wildlife health management practices. Solely because of risks to domesticated animals and human health, the traditional approach to disease surveillance in wild animals has now been replaced by a drive to recognise the intrinsic value of wildlife and the extended benefits of actively pursuing ecosystem health and associated life-sustaining ecosystem services. In this context, it is paramount to transition to holistic health programmes that embrace One Health as a pathway to set the health of all on equal footing.

Scientific and Technical Review↗
USGS2009

Historical and modern disturbance regimes, stand structures, and landscape dynamics in piñon-juniper vegetation of the western United States

Piñon–juniper is a major vegetation type in western North America. Effective management of these ecosystems has been hindered by inadequate understanding of 1) the variability in ecosystem structure and ecological processes that exists among the diverse combinations of piñons, junipers, and associated shrubs, herbs, and soil organisms; 2) the prehistoric and historic disturbance regimes; and 3) the mechanisms driving changes in vegetation structure and composition during the past 150 yr. This article summarizes what we know (and don't know) about three fundamentally different kinds of piñon–juniper vegetation. Persistent woodlands are found where local soils, climate, and disturbance regimes are favorable for piñon, juniper, or a mix of both; fires have always been infrequent in these woodlands. Piñon–juniper savannas are found where local soils and climate are suitable for both trees and grasses; it is logical that low-severity fires may have maintained low tree densities before disruption of fire regimes following Euro-American settlement, but information is insufficient to support any confident statements about historical disturbance regimes in these savannas. Wooded shrublands are found where local soils and climate support a shrub community, but trees can increase during moist climatic conditions and periods without disturbance and decrease during droughts and following disturbance. Dramatic increases in tree density have occurred in portions of all three types of piñon–juniper vegetation, although equally dramatic mortality events have also occurred in some areas. The potential mechanisms driving increases in tree density—such as recovery from past disturbance, natural range expansion, livestock grazing, fire exclusion, climatic variability, and CO 2 fertilization—generally have not received enough empirical or experimental investigation to predict which is most important in any given location. The intent of this synthesis is 1) to provide a source of information for managers and policy makers; and 2) to stimulate researchers to address the most important unanswered questions.

Rangeland Ecology and Management↗
USGS2011

A simple graphical approach to quantitative monitoring of rangelands

The article reviews graphical interpretation of the four monitoring methods that can be used to generate a variety of indicators of rangeland ecosystem function. Data for all four of the monitoring methods can be recorded on a single data sheet that is designed to be usable by somebody with minimal literacy. Indicators of plant and ground cover are central to most long-term monitoring systems. Plant and ground-cover data inform managers about forage availability, plant community composition and structure, and risk of runoff and erosion. The spatial arrangement of plants at a site in addition to the percent of the ground that is covered by plants is an important determinant of erosion potential. Vertical vegetation structure can be monitored by capturing data on maximum plant height at each stick location. Plant density method can provide an early indicator of future changes in plant cover, forage, quality, and habitat structure.

Rangelands↗
USGS2012

Revolutionary land use change in the 21st century: Is (rangeland) science relevant?

Rapidly increasing demand for food, fiber, and fuel together with new technologies and the mobility of global capital are driving revolutionary changes in land use throughout the world. Efforts to increase land productivity include conversion of millions of hectares of rangelands to crop production, including many marginal lands with low resistance and resilience to degradation. Sustaining the productivity of these lands requires careful land use planning and innovative management systems. Historically, this responsibility has been left to agronomists and others with expertise in crop production. In this article, we argue that the revolutionary land use changes necessary to support national and global food security potentially make rangeland science more relevant now than ever. Maintaining and increasing relevance will require a revolutionary change in range science from a discipline that focuses on a particular land use or land cover to one that addresses the challenge of managing all lands that, at one time, were considered to be marginal for crop production. We propose four strategies to increase the relevance of rangeland science to global land management: 1) expand our awareness and understanding of local to global economic, social, and technological trends in order to anticipate and identify drivers and patterns of conversion; 2) emphasize empirical studies and modeling that anticipate the biophysical (ecosystem services) and societal consequences of large-scale changes in land cover and use; 3) significantly increase communication and collaboration with the disciplines and sectors of society currently responsible for managing the new land uses; and 4) develop and adopt a dynamic and flexible resilience-based land classification system and data-supported conceptual models (e.g., state-and-transition models) that represent all lands, regardless of use and the consequences of land conversion to various uses instead of changes in state or condition that are focused on a single land use.

Rangeland Ecology and Management↗
USGS2013

Possible return of Acropora cervicornis at Pulaski Shoal, Dry Tortugas National Park, Florida

Seabed classification is essential to assessing environmental associations and physical status in coral reef ecosystems. At Pulaski Shoal in Dry Tortugas National Park, Florida, nearly continuous underwater-image coverage was acquired in 15.5 hours in 2009 along 70.2 km of transect lines spanning ~0.2 km 2 . The Along-Track Reef-Imaging System (ATRIS), a boat-based, high-speed, digital imaging system, was used. ATRIS-derived benthic classes were merged with a QuickBird satellite image to create a habitat map that defines areas of senile coral reef, carbonate sand, seagrasses, and coral rubble. This atypical approach of starting with extensive, high-resolution in situ imagery and extrapolating between transect lines using satellite imagery leverages the strengths of each remote-sensing modality. The ATRIS images also captured the spatial distribution of two species once common on now-degraded Florida-Caribbean coral reefs: the stony staghorn coral Acropora cervicornis , a designated threatened species, and the long-spined urchin Diadema antillarum . This article documents the utility of ATRIS imagery for quantifying number and estimating age of A. cervicornis colonies ( n = 400, age range, 5–11 y) since the severe hypothermic die-off in the Dry Tortugas in 1976–77. This study is also the first to document the largest number of new colonies of A. cervicornis tabulated in an area of the park where coral-monitoring stations maintained by the Fish and Wildlife Research Institute have not been established. The elevated numbers provide an updated baseline for tracking revival of this species at Pulaski Shoal.

Florida↗
USGS2009

The emerging role of lidar remote sensing in coastal research and resource management

Knowledge of coastal elevation is an essential requirement for resource management and scientific research. Recognizing the vast potential of lidar remote sensing in coastal studies, this Special Issue includes a collection of articles intended to represent the state-of-the-art for lidar investigations of nearshore submerged and emergent ecosystems, coastal morphodynamics, and hazards due to sea-level rise and severe storms. Some current applications for lidar remote sensing described in this Special Issue include bluegreen wavelength lidar used for submarine coastal benthic environments such as coral reef ecosystems, airborne lidar used for shoreline mapping and coastal change detection, and temporal waveform-resolving lidar used for vegetation mapping.

Journal of Coastal Research↗
USGS2009

Review of the geologic history of the Pontchartrain Basin, northern Gulf of Mexico

The Pontchartrain Basin extends over 44,000 km² from northern Mississippi to the Gulf of Mexico and includes one of the largest and most important estuarine systems in the United States. The basin supports a variety of environments, from woodlands in the north to wetlands in the south, and a growing socioeconomic infrastructure that has led to rapid development of the southern half of the basin over the past two centuries. To properly administer this infrastructure, managers need to understand the complex geologic framework of the basin and how it will respond to continued sea-level rise, variable rates and magnitudes of land subsidence, and human alteration of the landscape. This article summarizes the body of work that describes the regional evolution and stratigraphic architecture of the Pontchartrain Basin. The northern two-thirds of the basin is underlain by a stratigraphy of undifferentiated sands and clays deposited throughout the Plio-Pleistocene by glacially influenced rivers. These deposits were weathered and incised by rivers during sea-level low stands, forming a series of terraces that increase with age from south to north. The southern third of the basin is composed of estuaries formed during the Holocene, while shoreline processes created a series of sandy barriers that restricted communication to the Gulf of Mexico. The Mississippi River completed the geologic development of the basin by building a sequence of subdelta lobes along this southern margin over the past 5000 years, further sealing it from the open Gulf of Mexico. Presently, the modern Mississippi River bypasses the estuarine environment and only contributes sediments during flood events when the river overtops the levee system. Sea-level rise, subsidence within the Holocene delta-plain deposits, and movement along numerous fault systems are the active natural processes that continue to affect basin geomorphology.

Louisiana, Mississippi↗
USGS2015

Book review: Rare earth elements—A new approach to the nexus of supply, demand and use: exemplified along the use of neodymium in permanent magnets

This book is part of the “Springer Theses” published by Springer, a book series designed to highlight and share outstanding Ph.D. research. As explained by Springer (on the second page), this series “brings together a selection of the very best Ph.D. theses from around the world and across the physical sciences.” I admire Springer for this endeavor because a large number of exceptional theses are never published, and thus are difficult to obtain, while most of those that are published are presented only in highly condensed form as journal articles. Review info: Rare Earth Elements—A New Approach to the Nexus of Supply, Demand and Use: Exemplified Along the Use of Neodymium in Permanent Magnets . By Volker Zerf. 2013. ISBN 978-3-642-35457-1. 157 pp.

Economic Geology↗
USGS2000

Using an analytical geometry method to improve tiltmeter data presentation

The tiltmeter is a useful tool for geologic and geotechnical applications. To obtain full benefit from the tiltmeter, easy and accurate data presentations should be used. Unfortunately, the most commonly used method for tilt data reduction now may yield inaccurate and low-resolution results. This article describes a simple, accurate, and high-resolution approach developed at the Illinois State Geological Survey for data reduction and presentation. The orientation of tiltplates is determined first by using a trigonometric relationship, followed by a matrix transformation, to obtain the true amount of rotation change of the tiltplate at any given time. The mathematical derivations used for the determination and transformation are then coded into an integrated PC application by adapting the capabilities of commercial spreadsheet, database, and graphics software. Examples of data presentation from tiltmeter applications in studies of landfill covers, characterizations of mine subsidence, and investigations of slope stability are also discussed.

Environmental & Engineering Geoscience↗
USGS2007

Tapping methane hydrates for unconventional natural gas

Methane hydrate is an icelike form of concentrated methane and water found in the sediments of permafrost regions and marine continental margins at depths far shallower than conventional oil and gas. Despite their relative accessibility and widespread occurrence, methane hydrates have never been tapped to meet increasing global energy demands. With rising natural gas prices, production from these unconventional gas deposits is becoming economically viable, particularly in permafrost areas already being exploited for conventional oil and gas. This article provides an overview of gas hydrate occurrence, resource assessment, exploration, production technologies, renewability, and future challenges.

Elements↗
USGS1999

Calibration of paired basins prior to streambank fencing of pasture land

Streambank fencing is a best management practice that is targeted to reduce suspended sediment and nutrient inputs to streams by reducing direct inputs from animals, eliminating streambank trampling, and promoting streambank revegetalion. A paired basin study is being conducted in two small adjacent basins to determine the waler quality effects of streambank fencing. This article documents the 3-yr calibration period between control and treatment basins prior to fence installation. Approximately 70% of land adjacent to streambanks in the study area is used as pasture. Nutrient quantities applied as manure, benthic-macroinvertebrate communities, and the physical habitat of each stream were similar in both basins. Total N, P, and suspended sediment yields measured at the outlet of each basin averaged about 56, 2.8, and 2650 kg ha −1 on an annual basis. For both basins, about 90% of the total N yield was attributable to dissolved NO 3 -N and about 90% of the total N yield occurred during nonstormflow; conversely, about 90% of the total P yield was attributable to stormflow and 60 to 65% of the total P yield was suspended. Regression equations developed between both basins for low flow and stormflow samples for nutrients, suspended sediment, and discharge indicated a significant relation for most constituents. Pretreatment relation between basins for low flow and stormflow samples would need to change by 6 and 14% for total N concentrations and 24 and 9% for total P concentrations in order for streambank fencing to significantly affect water quality in the treatment basin.

Journal of Environmental Quality↗
USGS2015

Case 3693 Cryptodacus Hendel, 1914 (Insecta: Diptera: Tephritidae): Proposed suppression of Cryptodacus Gundlach, 1862 (Reptilia, Serpentes, Colubridae)

The purpose of this application, under Article 23.9.3, is to conserve current usage of the well-established genus-group name Cryptodacus Hendel, 1914 for a genus of Neotropical fruit flies by suppression of the earlier, unused name Cryptodacus Gundlach, 1862 , currently a junior synonym of Arrhyton Günther, 1858, a genus of snakes, under the plenary power of the Commission, in the interest of nomenclatural stability. Cryptodacus Gundlach has not been used as a valid name since 1883, whereas Cryptodacus Hendel has been used in a significant body of literature relating to fruit fly systematics, morphology and phylogeny and is the currently used name in various name and molecular databases.

Bulletin of Zoological Nomenclature↗
USGS2021

Case 3853 – Eumeces niger Hombron & Jacquinot, 1853 (currently Emoia nigra) (Reptilia, Scincidae): proposed conservation of prevailing usage by setting aside a lectotype designation for Gongylus (Eumeces) freycineti Duméril & Bibron, 1839 (currently Emoia atrocostata freycineti)

The purpose of the present application, under Articles 74.1.1 and 81.1 of the Code, is to maintain consistent usage of the commonly used name Emoia nigra (Hombron & Jacquinot, 1853 ) by setting aside a lectotype designation for Gongylus ( Eumeces ) freycineti Duméril & Bibron, 1839 by Wells & Wellington in 1985 in favour of a later lectotype designation by Brown in 1991 .

The Bulletin of Zoological Nomenclature↗
USGS2012

Gray Wolf (Canis lupus) movements and behavior around a kill site and implications for GPS collar studies

Global Positioning System (GPS) radio-collars are increasingly used to estimate Gray Wolf ( Canis lupus ) kill rates. In interpreting results from this technology, researchers make various assumptions about wolf behavior around kills, yet no detailed description of this behavior has been published. This article describes the behavior of six wolves in an area of constant daylight during 30 hours, from when the pack killed a Muskox ( Ovibos moschatus ) calf and yearling on Ellesmere Island, Nunavut, Canada, to when they abandoned the kill remains. Although this is only a single incident, it demonstrates one possible scenario of pack behavior around a kill. Combined with the literature, this observation supports placing a radio-collar on the breeding male to maximize finding kills via GPS collars and qualifying results depending on whatever other information is available about the collared wolf’s pack.

Ellesmere Island, Nunavut↗