Clemson University

About: Clemson University is a education organization based out in Clemson, South Carolina, United States. It is known for research contribution in the topics: Population & Control theory. The organization has 20556 authors who have published 42518 publications receiving 1170779 citations. The organization is also known as: Clemson Agricultural College of South Carolina.

A bacterial artificial chromosome library for barley (Hordeum vulgare L.) and the identification of clones containing putative resistance genes

Abstract: Modern cultivated barley is an important cereal crop with an estimated genome size of 5000 Mb. To develop the resources for positional cloning and structural genomic analyses in barley, we constructed a bacterial artificial chromosome (BAC) library for the cultivar Morex using the cloning enzyme HindIII. The library contains 313344 clones (816 384-well plates). A random sampling of 504 clones indicated an average insert size of 106 kbp (range=30–195 kbp) and 3.4% empty vectors. Screening the colony filters for chloroplast DNA content indicated an exceptionally low 1.5% contamination with chloroplast DNA. Thus, the library provides 6.3 haploid genome equivalents allowing a >99% probability of recovering any specific sequence of interest. High-density filters were gridded robotically using a Genetix Q-BOT in a 4×4 double-spotted array on 22.5-cm2 filters. Each set of 17 filters allows the entire library to be screened with 18432 clones represented per filter. Screening the library with 40 single copy probes identified an average 6.4 clones per probe, with a range of 1–13 clones per probe. A set of resistance-gene analog (RGA) sequences identified 121 RGA-containing BAC clones representing 20 different regions of the genome with an average of 6.1 clones per locus. Additional screening of the library with a P-loop disease resistance primer probe identified 459 positive BAC clones. These data indicate that this library is a valuable resource for structural genomic applications in barley.

Expert system-based selection of the preferred direction of build for rapid prototyping processes

Abstract: Current commercial rapid prototyping technologies are based on a layered additive process to build parts. The layer-based process results in a stairstepping effect, which can be apparent on curved and sloped surfaces. The selection of the build orientation, whether based on experience, trial and error, or not even considered, is one critical factor that affects the quality of the surface finish. Furthermore, it influences other important aspects, such as the build time and the amount of support structure needed. The authors propose an expert system tool that considers the various parameters that affect the production of the prototype and interacts with the user to recommend the best direction to build. The recommendation is based both on the user's input and on a decision matrix based on the result of interviews with experts, which is implemented within the expert system. If an optimal orientation is not possible, the tool helps the user to select an acceptable build direction. The expert system can also draw attention to issues such as trapped volumes, which can be detrimental to the build process. It helps to reduce the design time, to automate the build process and to minimize the cost of the prototype. The results of this work form a base for ongoing research to complete a tool that considers all major issues for a preferred orientation.

Preserving accuracy in GenBank

Abstract: GenBank, the public repository for nucleotide and protein sequences, is a critical resource for molecular biology, evolutionary biology, and ecology. While some attention has been drawn to sequence errors ([1][1]), common annotation errors also reduce the value of this database. In fact, for

Microbiological Safety of Chicken Litter or Chicken Litter-Based Organic Fertilizers: A Review

Abstract: Chicken litter or chicken litter-based organic fertilizers are usually recycled into the soil to improve the structure and fertility of agricultural land. As an important source of nutrients for crop production, chicken litter may also contain a variety of human pathogens that can threaten humans who consume the contaminated food or water. Composting can inactivate pathogens while creating a soil amendment beneficial for application to arable agricultural land. Some foodborne pathogens may have the potential to survive for long periods of time in raw chicken litter or its composted products after land application, and a small population of pathogenic cells may even regrow to high levels when the conditions are favorable for growth. Thermal processing is a good choice for inactivating pathogens in chicken litter or chicken litter-based organic fertilizers prior to land application. However, some populations may become acclimatized to a hostile environment during build-up or composting and develop heat resistance through cross-protection during subsequent high temperature treatment. Therefore, this paper reviews currently available information on the microbiological safety of chicken litter or chicken litter-based organic fertilizers, and discusses about further research on developing novel and effective disinfection techniques, including physical, chemical, and biological treatments, as an alternative to current methods.