Using Geographic Information System (GIs) Software to Predict Blackbird Roosting Locations in North Dakota

Cattail stands provide roosting and staging areas for large congregations of blackbirds in North Dakota in late summer and early fall. Since 1991, the U.S. Depamnent of Agriculture, Ammal and Plant Health Inspection Service, Wildlife Services (WS) program has conducted a cattail management program in North Dakota to alleviate blackbird damage to ripening sunflower. To extend the capabilities of the program, a geographical mformation system (GIS) will be incorporated to help WS personnel find blackbird roosts more effectively. We will use the GIs to construct field maps showing the association between areas of moderate to hgh sunilower damage (\u3e5%) and cattail-dominated wetland basins \u3e2 ha. Buffer distances comparable to the distances blackbirds typically travel to forage will be placed around sunflower planting areas susceptible to high damage. This will lrclp WS ynsu~ult.l Cutiw heir eKurh un locating cattail-dominated wetlands that should be enrolled in the management program and improving current and fuhlre blackbird damage management programs

Tracking system analytic calibration activities for the Mariner Mars 1971 mission

Data covering various planning aspects of Mariner Mars 1971 mission are summarized. Data cover calibrating procedures for tracking stations, radio signal propagation in the troposphere, effects of charged particles on radio transmission, orbit calculation, and data smoothing

Evapotranspiration in the Nile Basin: Identifying Dynamics, Trends, and Drivers 2002-2011

Analysis of the relationship between evapotranspiration (ET) and its natural and anthropogenic drivers is critical in water-limited basins such as the Nile. The spatiotemporal relationships of ET with rainfall and vegetation dynamics in the Nile Basin during 2002–2011 were analyzed using satellite-derived data. Non-parametric statistics were used to quantify ET-rainfall interactions and trends across land cover types and subbasins. We found that 65% of the study area (2.5 million km2) showed significant (p \u3c 0.05) positive correlations between monthly ET and rainfall, whereas 7% showed significant negative correlations. As expected, positive ET-rainfall correlations were observed over natural vegetation, mixed croplands/natural vegetation, and croplands, with a few subbasin-specific exceptions. In particular, irrigated croplands, wetlands and some forests exhibited negative correlations. Trend tests revealed spatial clusters of statistically significant trends in ET (6% of study area was negative; 12% positive), vegetation greenness (24% negative; 12% positive) and rainfall (11% negative; 1% positive) during 2002–2011. The Nile Delta, Ethiopian highlands and central Uganda regions showed decline in ET while central parts of Sudan, South Sudan, southwestern Ethiopia and northeastern Uganda showed increases. Except for a decline in ET in central Uganda, the detected changes in ET (both positive and negative) were not associated with corresponding changes in rainfall. Detected declines in ET in the Nile delta and Ethiopian highlands were found to be attributable to anthropogenic land degradation, while the ET decline in central Uganda is likely caused by rainfall reduction

HAS AN INTEGRATED PEST MANAGEMENT APPROACH REDUCED BLACKBIRD DAMAGE TO SUNFLOWER?

Since the mid- 1970s many new and modified damage abatement methods have been used to reduce blackbird damage to ripening sunflower in the northern Great Plains. To assess the overall impact of these techniques, we analyzed the dynamic relationship between breeding blackbird densities and sunflower damage. Breeding density estimates were made at both the regional and county levels, whereas, sunflower damage estimates were made at the county level only. Periodic regional estimates of breeding densities between 1967 and 1998 for red-winged blackbirds (Agelaius phoeniceus), common grackles (Quiscalus quiscula), and yellow-headed blackbirds (Xanthocephalus xanthocephalus) showed no differences among years. To increase our ability to detect changes in breeding density, we started intensive county-level surveys in 1996. These surveys, in four counties in North Dakota and South Dakota, showed that blackbird densities were greater in 1998 and 1999 than during the previous two years. We surveyed sunflower damage in two of these counties from 1994 to 1998 and found no difference in damage (F= 1.8%) among years. In 1997 and 1998, with the two other counties added to the survey, we found that damage was similar between years, averaging 2.2%. Dollar loss per hectare was trending lower in three of the study counties that had a historical database for comparison. This supports the idea that \u27local\u27 breeding densities are not correlated with damage levels. We will continue to use annual estimates of breeding densities and sunflower damage to assess the effects of an evolving Integrated Pest Management program

Ecological Niche of the 2003 West Nile Virus Epidemic in the Northern Great Plains of the United States

Background: The incidence of West Nile virus (WNv) has remained high in the northern Great Plains compared to the rest of the United States. However, the reasons for the sustained high risk of WNv transmission in this region have not been determined. To assess the environmental drivers of WNv in the northern Great Plains, we analyzed the county-level spatial pattern of human cases during the 2003 epidemic across a seven-state region. Methodology/Principal Findings: County-level data on WNv cases were examined using spatial cluster analysis, and were used to fit statistical models with weather, climate, and land use variables as predictors. In 2003 there was a single large cluster of elevated WNv risk encompassing North Dakota, South Dakota, and Nebraska along with portions of eastern Montana and Wyoming. The relative risk of WNv remained high within the boundaries of this cluster from 2004–2007. WNv incidence during the 2003 epidemic was found to have a stronger relationship with long-term climate patterns than with annual weather in either 2002 or 2003. WNv incidence increased with mean May–July temperature and had a unimodal relationship with total May–July precipitation. WNv incidence also increased with the percentage of irrigated cropland and with the percentage of the human population living in rural areas. Conclusions/Significance: The spatial pattern of WNv cases during the 2003 epidemic in the northern Great Plains was associated with both climatic gradients and land use patterns. These results were interpreted as evidence that environmental conditions across much of the northern Great Plains create a favorable ecological niche for Culex tarsalis, a particularly efficient vector of WNv. Further research is needed to determine the proximal causes of sustained WNv transmission and to enhance strategies for disease prevention

Atomic Structures of the 30S Subunit and Its Complexes with Ligands and Antibiotics

The two subunits that make up the ribosome have both distinct and cooperative functions. The 30S ribosomal subunit binds messenger RNA (mRNA) and is involved in the selection of cognate transfer RNA (tRNA) by monitoring codon–anticodon base-pairing during the decoding process. The 50S subunit catalyzes peptide-bond formation. Both subunits work in concert to move tRNAs and mRNAs relative to the ribosome in translocation, and both are the target of a large number of naturally occurring antibiotics. Thus, useful information about the mechanism of translation can be gleaned from structures of both individual subunits and the intact ribosome. In this paper, we describe our work on the determination of the atomic structure of the 30S ribosomal subunit and its complexes with RNA ligands, antibiotics, and initiation factor IF1. The results provide structural insights into how the ribosome recognizes cognate tRNA and discriminates against near-cognate tRNA. They also provide a structural basis for understanding the action of various antibiotics that target the 30S subunit

Phasing the 30S ribosomal subunit structure

The methods involved in determining the 850 kDa structure of the 30S ribosomal subunit from Thermus thermophilus were in many ways identical to those that are generally used in standard protein crystallography. This paper reviews and analyses the methods that can be used in phasing such large structures and shows that the anomalous signal collected from heavy-atom compounds bound to the RNA is both necessary and sufficient for ab initio structure determination at high resolution. In addition, measures to counter problems with non-isomorphism and radiation decay are described

Phasing the 30S ribosomal subunit structure

The methods involved in determining the 850 kDa structure of the 30S ribosomal subunit from Thermus thermophilus were in many ways identical to those that are generally used in standard protein crystallography. This paper reviews and analyses the methods that can be used in phasing such large structures and shows that the anomalous signal collected from heavy-atom compounds bound to the RNA is both necessary and sufficient for ab initio structure determination at high resolution. In addition, measures to counter problems with non-isomorphism and radiation decay are described

Frequency and isostericity of RNA base pairs

Most of the hairpin, internal and junction loops that appear single-stranded in standard RNA secondary structures form recurrent 3D motifs, where non-Watson–Crick base pairs play a central role. Non-Watson–Crick base pairs also play crucial roles in tertiary contacts in structured RNA molecules. We previously classified RNA base pairs geometrically so as to group together those base pairs that are structurally similar (isosteric) and therefore able to substitute for each other by mutation without disrupting the 3D structure. Here, we introduce a quantitative measure of base pair isostericity, the IsoDiscrepancy Index (IDI), to more accurately determine which base pair substitutions can potentially occur in conserved motifs. We extract and classify base pairs from a reduced-redundancy set of RNA 3D structures from the Protein Data Bank (PDB) and calculate centroids (exemplars) for each base combination and geometric base pair type (family). We use the exemplars and IDI values to update our online Basepair Catalog and the Isostericity Matrices (IM) for each base pair family. From the database of base pairs observed in 3D structures we derive base pair occurrence frequencies for each of the 12 geometric base pair families. In order to improve the statistics from the 3D structures, we also derive base pair occurrence frequencies from rRNA sequence alignments

An Adaptive Fast Multipole Boundary Element Method for Poisson−Boltzmann Electrostatics

The numerical solution of the Poisson−Boltzmann (PB) equation is a useful but a computationally demanding tool for studying electrostatic solvation effects in chemical and biomolecular systems. Recently, we have described a boundary integral equation-based PB solver accelerated by a new version of the fast multipole method (FMM). The overall algorithm shows an order N complexity in both the computational cost and memory usage. Here, we present an updated version of the solver by using an adaptive FMM for accelerating the convolution type matrix-vector multiplications. The adaptive algorithm, when compared to our previous nonadaptive one, not only significantly improves the performance of the overall memory usage but also remarkably speeds the calculation because of an improved load balancing between the local- and far-field calculations. We have also implemented a node-patch discretization scheme that leads to a reduction of unknowns by a factor of 2 relative to the constant element method without sacrificing accuracy. As a result of these improvements, the new solver makes the PB calculation truly feasible for large-scale biomolecular systems such as a 30S ribosome molecule even on a typical 2008 desktop computer