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Complex Topographic Feature Ontology Patterns

Semantic ontologies are examined as effective data models for the representation of complex topographic feature types. Complex feature types are viewed as integrated relations between basic features for a basic purpose. In the context of topographic science, such component assemblages are supported by resource systems and found on the local landscape. Ontologies are organized within six thematic modules of a domain ontology called Topography that includes within its sphere basic feature types, resource systems, and landscape types. Context is constructed not only as a spatial and temporal setting, but a setting also based on environmental processes. Types of spatial relations that exist between components include location, generative processes, and description. An example is offered in a complex feature type ‘mine.’ The identification and extraction of complex feature types are an area for future research.

Conference Paper↗

Angler satisfaction in South Dakota

Many industries use satisfaction measures to evaluate performance. The South Dakota Department of Game, Fish and Parks identified satisfaction as one of their performance measures for evaluating fishing in South Dakota. In fisheries management, the perspectives’ of license buyers are valuable to determine if management activities are providing the benefits anticipated by biologists. Surveys of South Dakota anglers are conducted to better understand licensees in order to promote satisfying angling experiences. Internet surveys were distributed to all license buyers providing email addresses in 2011 and 2012. Angler satisfaction was analyzed by angler type (demographics and fishing characteristics) to further clarify performance measures. Most anglers (> 70%) were satisfied with their angling experiences. Nonresidents expressed higher levels of satisfaction with fishing in South Dakota in 2011 and 2012 than residents. Anglers’ rating of fishing quality was more strongly correlated with satisfaction than their reported number of fish harvested, which suggests that strategies to influence angler perceptions and expectations can also be employed to influence satisfaction (in addition to techniques influencing fish populations). This research further integrates sociological data into South Dakota fisheries management processes.

South Dakota↗

Borehole P- and S-wave velocity at thirteen stations in Southern California

The U.S. Geological Survey (USGS), as part of a program to acquire seismic velocity data at locations of strong-ground motion in earthquakes (e.g., Gibbs et al., 2000), has investigated thirteen additional sites in the Southern California region. Of the thirteen sites, twelve are in the vicinity of Whittier, California, and one is located in San Bernardino, California. Several deployments of temporary seismographs were made after the Whittier Narrows, California earthquake of 1 October 1987 (Mueller et al., 1988). A deployment, between 2 October and 9 November 1987, was the motivation for selection of six of the drill sites. Temporary portable seismographs at Hoover School (HOO), Lincoln School (LIN), Corps of Engineers Station (NAR), Olive Junior High School (OLV), Santa Anita Golf Course (SAG), and Southwestern Academy (SWA) recorded significant aftershock data. These portable sites, with the exception of Santa Anita Golf Course, were co-sited with strong-motion recorders. Stations at HOO, Lincoln School Whittier (WLB), Saint Paul High School (STP), Alisos Adult School (EXC), Cerritos College Gymnasium (CGM), Cerritos College Physical Science Building (CPS), and Cerritos College Police Building (CPB) were part of an array of digital strong-motion stations deployed from "bedrock" in Whittier to near the deepest part of the Los Angeles basin in Norwalk. Although development and siting of this new array (partially installed at the time of this writing) was generally motivated by the Whittier Narrows earthquake, these new sites (with the exception of HOO) were not part of any Whittier Narrows aftershock deployments. A similar new digital strong-motion site was installed at the San Bernardino Fire Station during the same time frame. Velocity data were obtained to depths of about 90 meters at two sites, 30 meters at seven sites, and 18 to 25 meters at four sites. Lithology data from the analysis of cuttings and samples was obtained from the two 90-meter deep holes and from five of the shallower holes to supplement the velocity interpretation. The two 90-meter boreholes (SB1, CPB) have been instrumented with borehole seismometers for continuous monitoring of earthquake activity (Rogers et al., 1998). No drill samples or cuttings were obtained from the other six sites, but driller's logs were scanned for major changes noted there. The velocity models at those sites were interpreted using only the measured data and major changes in the driller's log as noted above. The sites are shown in Figure 1 and listed in Table 1, which gives references to information regarding the strong-motion data. Several hundred strong-motion records of the main-shock were written by this moderate size earthquake (ML = 5.9), making it important from a scientific and engineering prospective (Brady et al., 1988; Shakal et al., 1988).

California↗

Water availability for the Western United States--Key scientific challenges

In the Western United States, the availability of water has become a serious concern for many communities and rural areas. Near population centers, surface-water supplies are fully appropriated, and many communities are dependent upon ground water drawn from storage, which is an unsustainable strategy. Water of acceptable quality is increasingly hard to find because local sources are allocated to prior uses, depleted by overpumping, or diminished by drought stress. Some of the inherent characteristics of the West add complexity to the task of securing water supplies. The Western States, including the arid Southwest, have the most rapid population growth in the United States. The climate varies widely in the West, but it is best known for its low precipitation, aridity, and drought. There is evidence that the climate is warming, which will have consequences for Western water supplies, such as increased minimum streamflow and earlier snowmelt events in snow-dominated basins. The potential for departures from average climatic conditions threatens to disrupt society and local to regional economies. The appropriative rights doctrine governs the management of water in most Western States, although some aspects of the riparian doctrine are being incorporated. The 'use it or lose it' provisions of Western water law discourage conservation and make the reallocation of water to instream environmental uses more difficult. The hydrologic sciences have defined the interconnectedness of ground water and surface water, yet these resources are still administered separately by most States. The definition of water availability has been expanded to include sustaining riparian ecosystems and individual endangered species, which are disproportionately represented in the Western States. Federal reserved rights, common in the West because of the large amount of Federal land, exist with quite senior priority dates whether or not water is currently being used. A major challenge for water users in the West is that these reserved rights may supersede other existing users. The minimum amount of water required, however, to sustain native peoples, a riparian system, or an endangered species eventually will need to be known in order to manage the available water supply. Periodic inventory and assessment of the amounts and trends of water available in surface water and ground water are needed to support water management. There is a widespread perception that the amount of available water is diminishing with time. This and other perceptions about water availability should be replaced by objective data and analysis. Some data are presented here for the major Western rivers that show that flows are not decreasing in most streams and rivers in the West. Systematic information is lacking to make broad assessments of ground-water availability, but available data for specific aquifers indicate that these aquifers are being depleted, especially near population centers. The complexity added to the issue of Western water availability by these and other factors gives rise to a significant role of science. Science has played a role in support of Western water development from the beginning, and the role has evolved and changed over time as society's values have changed. In this report, the role of science is discussed in three phases: (1) development and construction, (2) consequences and environmental awareness, and (3) sustainability. The development and construction phase includes some historical accounting of water development in the West and shows how some precedents set in those early days are still applied today.

western United States↗

Developing accurate survey methods for estimating population sizes and trends of the critically endangered Nihoa Millerbird and Nihoa Finch.

This report describes the results of a comparative study of bird survey methods undertaken for the purpose of improving assessments of the conservation status for the two endemic passerines on the Island of Nihoa—Nihoa Millerbird (Sylviidae: Acrocephalus familiaris kingi ) and Nihoa Finch (Fringilidae: Telespiza ultima ; also referred herein as millerbird and finch)—both listed as endangered under the Federal Endangered Species Act (ESA) and Hawai`i Revised Statutes 195D. The current survey protocol, implemented since 1967, has produced a highly variable range of counts for both the millerbird and finch, making difficult assessments of population size and trend. This report details the analyses of bird survey data collected in 2010 and 2011 in which three survey methods were compared―strip-transect, line-transect, and point-transect sampling―and provides recommendations for improved survey methods and protocols. Funding for this research was provided through a Science Support Partnership grant sponsored jointly by the U.S. Geological Survey (USGS) and the U.S. Fish and Wildlife Service (USFWS). Point-transect surveys indicated that millerbirds were more abundant than shown by the striptransect method, and were estimated at 802 birds in 2010 (95%CI = 652 – 964) and 704 birds in 2011 (95%CI = 579 – 837). Point-transect surveys yielded population estimates with improved precision which will permit trends to be detected in shorter time periods and with greater statistical power than is available from strip-transect survey methods. Mean finch population estimates and associated uncertainty were not markedly different among the three survey methods, but the performance of models used to estimate density and population size are expected to improve as the data from additional surveys are incorporated. Using the pointtransect survey, the mean finch population size was estimated at 2,917 birds in 2010 (95%CI = 2,037 – 3,965) and 2,461 birds in 2011 (95%CI = 1,682 – 3,348). Preliminary testing of the line-transect method in 2011 showed that it would not generate sufficient detections to effectively model bird density, and consequently, relatively precise population size estimates. Both species were fairly evenly distributed across Nihoa and appear to occur in all or nearly all available habitat. The time expended and area traversed by observers was similar among survey methods; however, point-transect surveys do not require that observers walk a straight transect line, thereby allowing them to avoid culturally or biologically sensitive areas and minimize the adverse effects of recurrent travel to any particular area. In general, pointtransect surveys detect more birds than strip-survey methods, thereby improving precision and resulting population size and trend estimation. The method is also better suited for the steep and uneven terrain of Nihoa

Hawaii↗

Metadata Wizard: an easy-to-use tool for creating FGDC-CSDGM metadata for geospatial datasets in ESRI ArcGIS Desktop

Creating compliant metadata for scientific data products is mandated for all federal Geographic Information Systems professionals and is a best practice for members of the geospatial data community. However, the complexity of the The Federal Geographic Data Committee’s Content Standards for Digital Geospatial Metadata, the limited availability of easy-to-use tools, and recent changes in the ESRI software environment continue to make metadata creation a challenge. Staff at the U.S. Geological Survey Fort Collins Science Center have developed a Python toolbox for ESRI ArcDesktop to facilitate a semi-automated workflow to create and update metadata records in ESRI’s 10.x software. The U.S. Geological Survey Metadata Wizard tool automatically populates several metadata elements: the spatial reference, spatial extent, geospatial presentation format, vector feature count or raster column/row count, native system/processing environment, and the metadata creation date. Once the software auto-populates these elements, users can easily add attribute definitions and other relevant information in a simple Graphical User Interface. The tool, which offers a simple design free of esoteric metadata language, has the potential to save many government and non-government organizations a significant amount of time and costs by facilitating the development of The Federal Geographic Data Committee’s Content Standards for Digital Geospatial Metadata compliant metadata for ESRI software users. A working version of the tool is now available for ESRI ArcDesktop, version 10.0, 10.1, and 10.2 (downloadable at http:/www.sciencebase.gov/metadatawizard ).

Open-File Report↗

A synthesis of ecosystem management strategies for forests in the face of chronic N deposition

The relative importance of nitrogen (N) deposition as a stressor to global forests is likely to increase in the future, as N deposition increases in Asia and Africa, and as sulfur declines more than nitrogen in Europe, the US, and Canada. Even so, it appears that decreased N deposition may not be sufficient to induce recovery, suggesting that management interventions may be necessary to promote recovery over timescales desired by decision makers. Here we report a meta-analysis of the effectiveness of four remediation approaches (prescribed burning, thinning, liming, carbon addition) on three recovery responses from N deposition (decreased soil N availability, increased soil alkalinity, increased plant biodiversity), focusing on literature from North America. We found 72 publications (with 2156 responses) from the Web of Science that focused on one of these treatments but only 29 (with 408 responses) reported results appropriate for meta-analysis (others examined other end points or did not report sufficient data). We found that carbon addition was the only treatment that decreased N availability (effect size: -1.6 to -1.8), while liming, thinning, and burning all tended to increase N availability (effect sizes: +0.2 to +1.1). Only liming had a significant effect on soil alkalinity (+10% to 80% across metrics). Only prescribed burning and thinning affected plant diversity, but with opposing effects across metrics (i.e. increased richness, decreased Shannon or Simpson diversity) but effects were often statistically marginal. Thus, it appears that no single treatment will be effective in promoting recovery from N deposition for all three responses of interest, and combinations of treatments should be explored (esp. liming in combination with other treatments). These conclusions are based on the limited published data available, underscoring the need for more studies in forested areas and more consistent reporting across studies.

Environmental Pollution↗

Plateaus and sinuous ridges as the fingerprints of lava flow inflation in the Eastern Tharsis Plains of Mars

The Tharsis Montes rift aprons are composed of outpourings of lava from chaotic terrains to the northeast and southwest flank of each volcano. Sinuous and branching channel networks that are present on the rift aprons suggest the possibility of fluvial processes in their development, or erosion by rapidly emplaced lavas, but the style of lava flow emplacement throughout rift apron development is not clearly understood. To better characterize the style of lava emplacement and role of fluvial processes in rift apron development, we conducted morphological mapping of the Pavonis Mons southwest rift apron and the eastern Tharsis plains using images from the High Resolution Imaging Science Experiment (HiRISE), Mars Orbiter Camera (MOC), Context Camera (CTX), Thermal Emission Imaging System (THEMIS), and High Resolution Stereo Camera (HRSC) along with the Mars Orbiter Laser Altimeter (MOLA) Precision Experiment Data Records (PEDRs) and gridded data. Our approach was to: (1) search for depositional fans at the slope break between the rift apron and adjacent low slope plains; (2) determine if there is evidence that previously formed deposits might have been buried by plains units; (3) characterize the Tharsis plains morphologies east of Pavonis Mons; and (4) assess their relationship to the rift apron units. We have not identified topographically significant depositional fans, nor did we observe evidence to suggest that plains units have buried older rift apron units. Flow features associated with the rift apron are observed to continue across the slope break onto the plains. In this area, the plains are composed of a variety of small fissures and low shield vents around which broad channel-fed and tube-fed flows have been identified. We also find broad, flat-topped plateaus and sinuous ridges mixed among the channels, tubes and vents. Flat-topped plateaus and sinuous ridges are morphologies that are analogous to those observed on the coastal plain of Hawai‘i, where lava flows have advanced from the volcano's several degree flank onto the nearly zero degree coastal plain. When local volumetric flow rates are low, flow fronts tend to spread laterally and often thicken via endogenous growth, or inflation, of the sheet-like flow units. If flow advance is restricted by existing topography into narrow pathways, inflation can be focused into sinuous, elongate ridges. The presence of plateaus and ridges—emplaced from the rift zones, across the plains to the east of Pavonis Mons—and a lack of fan-like features, or evidence for their burial, are consistent with rift apron lavas crossing a slope break with low local volumetric flow rates that led to inflation of sheet-like and tube-fed lava flows.

Journal of Volcanology and Geothermal Research↗

Paleomagnetism and geochronology of an Early Proterozoic quartz diorite in the southern Wind River Range, Wyoming, USA

We present geochronologic and paleomagnetic data from a north-trending quartz diorite intrusion that cuts Archean metasedimentary and metaigneous rocks of the South Pass Greenstone Belt of the Wyoming craton. The quartz diorite was previously thought to be either Archean or Early Proterozoic (?) in age and is cut by north and northeast-trending Proterozoic diabase dikes of uncertain age, for which we also report paleomagnetic data. New U-Pb analyses of baddeleyite and zircon from the quartz diorite yield a concordia upper intercept age of 2170 ?? 8 Ma (95% confidence). An 40Ar/39Ar amphibole date from the same sample yields a similar apparent age of about 2124 ?? 30 Ma (2??), thus confirming that the intrusion is Early Proterozoic in age and that it has probably not been thermally disturbed since emplacement. A magmatic event at ca. 2.17 Ga has not previously been documented in the Wyoming craton. The quartz diorite and one of the crosscutting diabase dikes yield essentially identical, well-defined characteristic remanent magnetizations. Results from eight sites in the quartz diorite yield an in situ mean direction of north declination and moderate to steep positive inclination (Dec.=355??, Inc.=65??, k=145, ??95=5??) with a paleomagnetic pole at 84??N, 215??E (??m=6??, ??p=7??). Data from other diabase dike sites are inconsistent with the quartz diorite results, but the importance of these results is uncertain because the age of the dikes is not well known. Interpretation of the quartz diorite remanent magnetization is problematic. The in situ direction is similar to expected directions for magnetizations of Late Cretaceous/early Tertiary age. However, there is no compelling evidence to suggest that these rocks were remagnetized during the late Mesozoic or Cenozoic. Assuming this magnetization to be primary, then the in situ paleomagnetic pole is strongly discordant with poles of 2167, 2214, and 2217 Ma from the Canadian Shield, and is consistent with proposed separation of the Wyoming Craton and Laurentia prior to about 1.8 Ga. Correcting the quartz diorite pole for the possible effects of Laramide-age tilting of the Wind River Range, based on the attitude of nearby overlying Cambrian Flathead Sandstone (dip=20??, N20??E), gives a tilt corrected pole of 75??N, 58??E (??m=4??, ??p=6??), which is also discordant with respect to time-equivalent poles from the Superior Province. Reconstruction of the Superior and Wyoming Province using a rotation similar to that proposed by Roscoe and Card [Can. J. Earth Sci. 46(1993)2475] is problematic, but reconstruction of the Superior and Wyoming Provinces based on restoring them to their correct paleolatitude and orientation using a closest approach fit indicates that the two cratons could have been adjacent at about 2.17 Ga prior to rifting at about 2.15 Ga. The paleomagnetic data presented are consistent with the hypothesis that the Huronian and Snowy Pass Supergroups could have evolved as part of a single epicratonic sedimentary basin during the Early Proterozoic. ?? 2002 Elsevier Science B.V. All rights reserved.

Tectonophysics↗

Aligning USGS senior leadership structure with the USGS science strategy

The U.S. Geological Survey (USGS) is realigning its management and budget structure to further enhance the work of its science programs and their interdisciplinary focus areas related to the USGS Science Strategy as outlined in 'Facing Tomorrow's Challenges-U.S. Geological Survey Science in the Decade 2007-2017' (U.S. Geological Survey, 2007). In 2007, the USGS developed this science strategy outlining major natural-science issues facing the Nation and focusing on areas where natural science can make a substantial contribution to the well being of the Nation and the world. These areas include global climate change, water resources, natural hazards, energy and minerals, ecosystems, and data integration.

Fact Sheet↗

Building groundwater modeling capacity in Mongolia

Ulaanbaatar, the capital city of Mongolia (fig. 1), is dependent on groundwater for its municipal and industrial water supply. The population of Mongolia is about 3 million people, with about one-half the population residing in or near Ulaanbaatar (World Population Review, 2016). Groundwater is drawn from a network of shallow wells in an alluvial aquifer along the Tuul River. Evidence indicates that current water use may not be sustainable from existing water sources, especially when factoring the projected water demand from a rapidly growing urban population (Ministry of Environment and Green Development, 2013). In response, the Government of Mongolia Ministry of Environment, Green Development, and Tourism (MEGDT) and the Freshwater Institute, Mongolia, requested technical assistance on groundwater modeling through the U.S. Army Corps of Engineers (USACE) to the U.S. Geological Survey (USGS). Scientists from the USGS and USACE provided two workshops in 2015 to Mongolian hydrology experts on basic principles of groundwater modeling using the USGS groundwater modeling program MODFLOW-2005 (Harbaugh, 2005). The purpose of the workshops was to bring together representatives from the Government of Mongolia, local universities, technical experts, and other key stakeholders to build in-country capacity in hydrogeology and groundwater modeling. A preliminary steady-state groundwater-flow model was developed as part of the workshops to demonstrate groundwater modeling techniques to simulate groundwater conditions in alluvial deposits along the Tuul River in the vicinity of Ulaanbaatar. ModelMuse (Winston, 2009) was used as the graphical user interface for MODFLOW for training purposes during the workshops. Basic and advanced groundwater modeling concepts included in the workshops were groundwater principles; estimating hydraulic properties; developing model grids, data sets, and MODFLOW input files; and viewing and evaluating MODFLOW output files. A key to success was developing in-country technical capacity and partnerships with the Mongolian University of Science and Technology; Freshwater Institute, Mongolia, a non-profit organization; United Nations Educational, Scientific and Cultural Organization (UNESCO); the Government of Mongolia; and the USACE.

Open-File Report↗

Utilizing multi-sensor fire detections to map fires in the United States

In 2006, the Monitoring Trends in Burn Severity (MTBS) project began a cooperative effort between the US Forest Service (USFS) and the U.S.Geological Survey (USGS) to map and assess burn severity all large fires that have occurred in the United States since 1984. Using Landsat imagery, MTBS is mandated to map wildfire and prescribed fire that meet specific size criteria: greater than 1000 acres in the west and 500 acres in the east, regardless of ownership. Relying mostly on federal and state fire occurrence records, over 15,300 individual fires have been mapped. While mapping recorded fires, an additional 2,700 “unknown” or undocumented fires were discovered and assessed. It has become apparent that there are perhaps thousands of undocumented fires in the US that are yet to be mapped. Fire occurrence records alone are inadequate if MTBS is to provide a comprehensive accounting of fire across the US. Additionally, the sheer number of fires to assess has overwhelmed current manual procedures. To address these problems, the National Aeronautics and Space Administration (NASA) Applied Sciences Program is helping to fund the efforts of the USGS and its MTBS partners (USFS, National Park Service) to develop, and implement a system to automatically identify fires using satellite data. In near real time, USGS will combine active fire satellite detections from MODIS, AVHRR and GOES satellites with Landsat acquisitions. Newly acquired Landsat imagery will be routinely scanned to identify freshly burned area pixels, derive an initial perimeter and tag the burned area with the satellite date and time of detection. Landsat imagery from the early archive will be scanned to identify undocumented fires. Additional automated fire assessment processes will be developed. The USGS will develop these processes using open source software packages in order to provide freely available tools to local land managers providing them with the capability to assess fires at the local level.

Conference Paper↗

Effects of housing density and cage floor space on C57BL/6J mice

The Guide for the Care and Use of Laboratory Animals (the Guide) is widely accepted as the housing standard by most Institutional Animal Care and Use Committees. The recommendations are based on best professional judgment rather than experimental data. Current efforts are directed toward replacing these guidelines with data-driven, species-appropriate standards. Our studies were undertaken to determine the optimum housing density for C57BL/6J mice, the most commonly used inbred mouse strain. Four-week-old mice were housed for 8 weeks at four densities (the recommended ???12 in2 [ca. 77.4 cm 2]/mouse down to 5.6 in2 [ca. 36.1 cm2]/mouse) in three cage types with various amounts of floor space. Housing density did not affect a variety of physiologic parameters but did affect certain micro-environmental parameters, although these remained within accepted ranges. A second study was undertaken housing C57BL/6J mice with as little as 3.2 in2/mouse (ca. 20.6 cm2). The major effect was elevated ammonia concentrations that exceeded limits acceptable in the workplace at increased housing densities; however, the nasal passages and eyeballs of the mice remained microscopically normal. On the basis of these results, we conclude that C57BL/6J mice as large as 29 g may be housed with 5.6 in2 of floor space per mouse. This area is approximately half the floor space recommended in the Guide. The role of the Guide is to ensure that laboratory animals are well treated and housed in a species-appropriate manner. Our data suggest that current policies could be altered in order to provide the optimal habitation conditions matched to this species' social needs. Copyright 2004 by the American Association for Laboratory Animal Science.

Comparative Medicine↗

Remote sensing: a tool for park planning and management

Remote sensing may be defined as the science of imaging or measuring objects from a distance. More commonly, however, the term is used in reference to the acquisition and use of photographs, photo-like images, and other data acquired from aircraft and satellites. Thus, remote sensing includes the use of such diverse materials as photographs taken by hand from a light aircraft, conventional aerial photographs obtained with a precision mapping camera, satellite images acquired with sophisticated scanning devices, radar images, and magnetic and gravimetric data that may not even be in image form. Remotely sensed images may be color or black and white, can vary in scale from those that cover only a few hectares of the earth's surface to those that cover tens of thousands of square kilometers, and they may be interpreted visually or with the assistance of computer systems. This article attempts to describe several of the commonly available types of remotely sensed data, to discuss approaches to data analysis, and to demonstrate (with image examples) typical applications that might interest managers of parks and natural areas.

Parks↗

Ahead of his time: Jacob Lipman's 1930 estimate of atmospheric sulfur deposition for the conterminous United States

A 1936 New Jersey Agricultural Experiment Station Bulletin provided an early quantitative assessment of atmospheric deposition of sulfur for the United States that has been compared in this study with more recent assessments. In the early 20th century, anthropogenic sulfur additions from the atmosphere to the soil by the combustion of fossil fuels were viewed as part of the requisite nutrient supply of crops. Jacob G. Lipman, the founding editor of Soil Science, and his team at Rutgers University, made an inventory of such additions to soils of the conterminous United States during the economic depression of the 1930s as part of a federally funded project looking at nutrient balances in soils. Lipman's team gathered data compiled by the US Bureau of Mines on coal and other fuel consumption by state and calculated the corresponding amounts of sulfur emitted. Their work pioneered a method of assessment that became the norm in the 1970s to 1980s—when acid rain emerged as a national issue. Lipman's estimate of atmospheric sulfur deposition in the 1930 is in reasonable agreement with recent historic reconstructions.

Soil Science↗

Diatoms.org: Supporting taxonomists, connecting communities

Consistent identification of diatoms is a prerequisite for studying their ecology, biogeography, and successful application as environmental indicators. However, taxonomic consistency among observers has been difficult to achieve because taxonomic information is scattered across numerous literature sources, presenting challenges to the diatomist. Firstly, literature is often inaccessible because of cost or its location in journals that are not widely circulated. Secondly, taxonomic revisions of diatoms are taking place faster than floras can be updated. Finally, taxonomic information is often contradictory across literature sources. These issues can be addressed by developing a content creation community dedicated to making taxonomic, ecological, and image-based data freely available for diatom researchers. Diatoms.org represents such a content curation community, providing open, online access to a vast amount of recent and historical information on North American diatom taxonomy and ecology. The content curation community aggregates existing taxonomic information, creates new content, and provides feedback in the form of corrections and notices of literature with nomenclatural changes. The website not only addresses the needs of experienced diatom scientists for consistent identification but is also designed to meet users at their level of expertise, including engaging the lay public in the importance of diatom science. The website now contains over 1000 species pages contributed by over 100 content contributors, from students to established scientists. The project began with the intent to provide accurate information on diatom identification, ecology, and distribution using an approach that incorporates engaging design, user feedback, and advanced data access technology. In retrospect, the project that began as an ‘extended electronic book’ has emerged not only as a means to support taxonomists, but for practitioners to communicate and collaborate, expanding the size of and benefits to the content curation community. In this paper, we outline the development of diatoms.org , document key elements of the project, examine ongoing challenges and consider the unexpected emergent properties, including the value of diatoms.org as a source of data. Ultimately, if the field of diatom taxonomy, ecology, and biodiversity is to be relevant, a new generation of taxonomists needs to be trained and employed using new tools. We propose that diatoms.org is in a key position to serve as a hub of training and continuity for the study of diatom biodiversity and aquatic conditions.

Diatom Research↗

Climate-related variation in plant peak biomass and growth phenology across Pacific Northwest tidal marshes

The interannual variability of tidal marsh plant phenology is largely unknown and may have important ecological consequences. Marsh plants are critical to the biogeomorphic feedback processes that build estuarine soils, maintain marsh elevation relative to sea level, and sequester carbon. We calculated Tasseled Cap Greenness, a metric of plant biomass, using remotely sensed data available in the Landsat archive to assess how recent climate variation has affected biomass production and plant phenology across three maritime tidal marshes in the Pacific Northwest of the United States. First, we used clipped vegetation plots at one of our sites to confirm that tasseled cap greenness provided a useful measure of aboveground biomass (r 2 = 0.72). We then used multiple measures of biomass each growing season over 20–25 years per study site and developed models to test how peak biomass and the date of peak biomass varied with 94 climate and sea-level metrics using generalized linear models and Akaike Information Criterion (AIC) model selection. Peak biomass was positively related to total annual precipitation, while the best predictor for date of peak biomass was average growing season temperature, with the peak 7.2 days earlier per degree C. Our study provides insight into how plants in maritime tidal marshes respond to interannual climate variation and demonstrates the utility of time-series remote sensing data to assess ecological responses to climate stressors.

Oregon, Washington↗

Multivariate analysis of the geochemistry and mineralogy of soils along two continental-scale transects in North America

Soils collected in 2004 along two North American continental-scale transects were subjected to geochemical and mineralogical analyses. In previous interpretations of these analyses, data were expressed in weight percent and parts per million, and thus were subject to the effect of the constant-sum phenomenon. In a new approach to the data, this effect was removed by using centered log-ratio transformations to 'open' the mineralogical and geochemical arrays. Multivariate analyses, including principal component and linear discriminant analyses, of the centered log-ratio data reveal the effects of soil-forming processes, including soil parent material, weathering, and soil age, at the continental-scale of the data arrays that were not readily apparent in the more conventionally presented data. Linear discriminant analysis of the data arrays indicates that the majority of the soil samples collected along the transects can be more successfully classified with Level 1 ecological regional-scale classification by the soil geochemistry than soil mineralogy. A primary objective of this study is to discover and describe, in a parsimonious way, geochemical processes that are both independent and inter-dependent and manifested through compositional data including estimates of the elements and corresponding mineralogy. ?? 2010.

Science of the Total Environment↗