Zonation of Central U. S. Earthquake Sources

A variety of analyses are utilized in developing potential earthquake ground shaking at a specific location. Geological procedures for estimating causes of earthquakes are fundamental to the prediction of ground motions. Evaluations of geologic factors compliment mathematical assessments of seismological data. Earthquake potential in the Central United States is predicted using the concept of seismic source zones due to the difficulty of determining active faults. Resolution of these geographic source zones is dependent upon knowledge of historic seismicity, pertinent geologic features, and causative tectonics. Regardless of the method used to delineate source zones, these zones must be geologically and seismologically unique. Statistical testing of historic earthquake catalogues is required for reduction of the data base. The resolution of zones is an iterative process of bounding the zones and determining recurrence rates. Earthquake potential and risk assessment should be understood by the owner and the designer of a facility

Evaluating remote sensing of deciduous forest phenology at multiple spatial scales using PhenoCam imagery

Plant phenology regulates ecosystem services at local and global scales and is a sensitive indicator of global change. Estimates of phenophase transition dates, such as the start of spring or end of autumn, can be derived from sensor-based time series data at the near-surface and remote scales, but must be interpreted in terms of biologically relevant events. We use the PhenoCam archive of digital repeat photography to implement a consistent protocol for visual assessment of canopy phenology at 13 temperate deciduous forest sites throughout eastern North America, as well as to perform digital image analysis for time series-based estimates of phenology dates. We then compare these near-surface results to remote sensing metrics of phenology at the landscape scale, derived from the Moderate Resolution Imaging Spectroradiometer (MODIS) and Advanced Very High Resolution Radiometer (AVHRR) sensors. We present a new type of curve fit, using a generalized sigmoid, to estimate phenology dates. We quantify the statistical uncertainty of phenophase transition dates estimated using this method and show that the generalized sigmoid results in less statistical uncertainty than other curve-fitting methods. Additionally, we find that dates derived from analysis of high-frequency PhenoCam imagery have smaller uncertainties than remote sensing metrics of phenology, and that dates derived from the remotely-sensed enhanced vegetation index (EVI) have smaller uncertainty than those derived from the normalized difference vegetation index (NDVI). Near-surface time series estimates for the start of spring are found to closely match visual assessment of leaf out, as well as remote sensing-derived estimates of the start of spring. However late spring and autumn phenology exhibit larger differences between near-surface and remote scales. Differences in late spring phenology between near-surface and remote scales are found to correlate with a landscape metric of deciduous forest cover. These results quantify the effect of landscape heterogeneity when aggregating to the coarser spatial scales of remote sensing, and demonstrate the importance of accurate curve fitting and vegetation index selection when analyzing and interpreting phenology time series.Organismic and Evolutionary Biolog

Developing and applying heterogeneous phylogenetic models with XRate

Modeling sequence evolution on phylogenetic trees is a useful technique in computational biology. Especially powerful are models which take account of the heterogeneous nature of sequence evolution according to the "grammar" of the encoded gene features. However, beyond a modest level of model complexity, manual coding of models becomes prohibitively labor-intensive. We demonstrate, via a set of case studies, the new built-in model-prototyping capabilities of XRate (macros and Scheme extensions). These features allow rapid implementation of phylogenetic models which would have previously been far more labor-intensive. XRate's new capabilities for lineage-specific models, ancestral sequence reconstruction, and improved annotation output are also discussed. XRate's flexible model-specification capabilities and computational efficiency make it well-suited to developing and prototyping phylogenetic grammar models. XRate is available as part of the DART software package: http://biowiki.org/DART .Comment: 34 pages, 3 figures, glossary of XRate model terminolog

A Database and Evaluation for Classification of RNA Molecules Using Graph Methods

In this paper, we introduce a new graph dataset based on the representation of RNA. The RNA dataset includes 3178 RNA chains which are labelled in 8 classes according to their reported biological functions. The goal of this database is to provide a platform for investigating the classication of RNA using graph-based methods. The molecules are represented by graphs representing the sequence and base-pairs of the RNA, with a number of labelling schemes using base labels and local shape. We report the results of a number of state-of-the-art graph based methods on this dataset as a baseline comparison and investigate how these methods can be used to categorise RNA molecules on their type and functions. The methods applied are Weisfeiler Lehman and optimal assignment kernels, shortest paths kernel and the all paths and cycle methods. We also compare to the standard Needleman-Wunsch algorithm used in bioinformatics for DNA and RNA comparison, and demonstrate the superiority of graph kernels even on a string representation. The highest classication rate is obtained by the WL-OA algorithm using base labels and base-pair connections

Beef cows and calves, 1979: a summary of research

Response of fall-born calves to monensin on orchardgrass / alfalfa or tall fescue / alfalfa pastures / F. M. Byers, C. F. Parker, and R. W. Van Keuren -- Effects of forage system and breed type on the performance of fall calving cows / C. F. Parker and R. W. Van Keuren -- Forage management for beef production / R. W. Van Keuren, C. F. Parker, and E. W. Klosterman -- Breeding and management systems to optimize beef breeding herd productivity / E. W. Klosterman, R. W. Van Keuren, C. F. Parker, and F. M. Byers -- Voluntary feed intake of mature cows as related to breed type, condition, and forage quality / E. W. Klosterman, F. M. Byers, and C. F. Parker -- Weight and condition changes of pregnant beef cows wintered on corn stover stacks / G. R. Wilson, J. G. Gordon, J. H. Cline, K. M. Irvin, and E. W. Klosterman -- Estrus synchronization of beef cows and heifers with prostaglandin F2a under field conditions / G. R. Wilson, T. L. Benecke, K. M. Irvin, T. M. Ludwick, C. E. Marshall, and R. A. Wallac

RNA CoSSMos: Characterization of Secondary Structure Motifs—a searchable database of secondary structure motifs in RNA three-dimensional structures

RNA secondary structure is important for designing therapeutics, understanding protein–RNA binding and predicting tertiary structure of RNA. Several databases and downloadable programs exist that specialize in the three-dimensional (3D) structure of RNA, but none focus specifically on secondary structural motifs such as internal, bulge and hairpin loops. The RNA Characterization of Secondary Structure Motifs (RNA CoSSMos) database is a freely accessible and searchable online database and website of 3D characteristics of secondary structure motifs. To create the RNA CoSSMos database, 2156 Protein Data Bank (PDB) files were searched for internal, bulge and hairpin loops, and each loop's structural information, including sugar pucker, glycosidic linkage, hydrogen bonding patterns and stacking interactions, was included in the database. False positives were defined, identified and reclassified or omitted from the database to ensure the most accurate results possible. Users can search via general PDB information, experimental parameters, sequence and specific motif and by specific structural parameters in the subquery page after the initial search. Returned results for each search can be viewed individually or a complete set can be downloaded into a spreadsheet to allow for easy comparison. The RNA CoSSMos database is automatically updated weekly and is available at http://cossmos.slu.edu

The future for beef

Beef is a fast-growing, multi -billion dollar industry today in the United States. And the outlook for tomorrow is most favorable. Beef consumption has increased by 26 pounds per capita during the past 15 years, hitting an all-time high of 90 pounds per capita in 1962. During the same period quality has improved, and now. beef commands even wider consumer acceptance than in the mid-1940\u27s. New technology has lowered production and marketing costs. But even a strong, healthy industry must be sensitive to change--and take advantage of new opportunities for growth and improvement. The beef industry is no exception.https://lib.dr.iastate.edu/card_reports/1016/thumbnail.jp