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Analysis Of Mirna Modifications, Bin Yu, Xuemei Chen 2010 University of Nebraska-Lincoln

Analysis Of Mirna Modifications, Bin Yu, Xuemei Chen

Faculty Publications in the Biological Sciences

After transcription, a large number of cellular RNAs employ modifications to increase their diversity and functional potential. Modifications can occur on the base, ribose, or both, and are important steps in the maturation of many RNAs. Our lab recently showed that plant microRNAs (miRNAs) possess a 2′-O-methyl group on the ribose of the 3′ terminal nucleotide, and that this methyl group is added after miRNA/miRNA* formation. One function of this modification is to protect miRNAs from 3′ terminal uridylation by an unknown enzymatic activity. It is possible that uridylation of miRNAs triggers their degradation. Here we describe ...


The Polypeptide Syn67 Interacts Physically With Human Holocarboxylase Synthetase, But Is Not A Target For Biotinylation, Yousef I. Hassan, Hideaki Moriyama, Janos Zempleni 2010 University of Nebraska at Lincoln

The Polypeptide Syn67 Interacts Physically With Human Holocarboxylase Synthetase, But Is Not A Target For Biotinylation, Yousef I. Hassan, Hideaki Moriyama, Janos Zempleni

Faculty Publications in the Biological Sciences

Holocarboxylase synthetase (HCS) catalyzes the binding of biotin to lysines in carboxylases and histones in two steps. First, HCS catalyzes the synthesis of biotinyl-5′-AMP; second, the biotinyl moiety is ligated to lysine residues. It has been proposed that step two is fairly promiscuous, and that protein biotinylation may occur in the absence of HCS as long as sufficient exogenous biotinyl-5′- AMP is provided. Here, we identified a novel polypeptide (Syn67) with a basic patch of lysines and arginines. Yeast-two-hybrid assays and limited proteolysis assays revealed that both N- and C-termini of HCS interact with Syn67. A potential target lysine ...


Mitochondrial Physiology Of Diapausing And Developing Embryos Of The Annual Killifish Austrofundulus Limnaeus: Implications For Extreme Anoxia Tolerance, Jeffrey M. Duerr, Jason E. Podrabsky 2010 George Fox University

Mitochondrial Physiology Of Diapausing And Developing Embryos Of The Annual Killifish Austrofundulus Limnaeus: Implications For Extreme Anoxia Tolerance, Jeffrey M. Duerr, Jason E. Podrabsky

Biology Faculty Publications and Presentations

Diapausing embryos of the annual killifish Austrofundulus limnaeus have the highest reported anoxia tolerance of any vertebrate and previous studies indicate modified mitochondrial physiology likely supports anoxic metabolism. Functional mitochondria isolated from diapausing and developing embryos of the annual killifish exhibited VO2, respiratory control ratios (RCR), and P:O ratios consistent with those obtained from other ectothermic vertebrate species. Reduced oxygen consumption associated with dormancy in whole animal respiration rates are correlated with maximal respiration rates of mitochondria isolated from diapausing versus developing embryos. P:O ratios for developing embryos were similar to those obtained from adult liver, but were ...


Genome3d: A Viewer-Model Framework For Integrating And Visualizing Multi-Scale Epigenomic Information Within A Three-Dimensional Genome, Thomas M. Asbury, Matt Mitman, Jijun Tang, W. Jim Zheng 2010 University of South Carolina - Columbia

Genome3d: A Viewer-Model Framework For Integrating And Visualizing Multi-Scale Epigenomic Information Within A Three-Dimensional Genome, Thomas M. Asbury, Matt Mitman, Jijun Tang, W. Jim Zheng

Faculty Publications

Background
New technologies are enabling the measurement of many types of genomic and epigenomic information at scales ranging from the atomic to nuclear. Much of this new data is increasingly structural in nature, and is often difficult to coordinate with other data sets. There is a legitimate need for integrating and visualizing these disparate data sets to reveal structural relationships not apparent when looking at these data in isolation.

Results
We have applied object-oriented technology to develop a downloadable visualization tool, Genome3D, for integrating and displaying epigenomic data within a prescribed three-dimensional physical model of the human genome. In order ...


Using Jackknife To Assess The Quality Of Gene Order Phylogenies, Jian Shi, Yiwei Zhang, Haiwei Luo, Jijun Tang 2010 University of South Carolina - Columbia

Using Jackknife To Assess The Quality Of Gene Order Phylogenies, Jian Shi, Yiwei Zhang, Haiwei Luo, Jijun Tang

Faculty Publications

Background
In recent years, gene order data has attracted increasing attention from both biologists and computer scientists as a new type of data for phylogenetic analysis. If gene orders are viewed as one character with a large number of states, traditional bootstrap procedures cannot be applied. Researchers began to use a jackknife resampling method to assess the quality of gene order phylogenies.

Results
In this paper, we design and conduct a set of experiments to validate the performance of this jackknife procedure and provide discussions on how to conduct it properly. Our results show that jackknife is very useful to ...


Bayesmotif: De Novo Protein Sorting Motif Discovery From Impure Datasets, Jianjun Hu, F. Zhang 2010 University of South Carolina - Columbia

Bayesmotif: De Novo Protein Sorting Motif Discovery From Impure Datasets, Jianjun Hu, F. Zhang

Faculty Publications

Background

Protein sorting is the process that newly synthesized proteins are transported to their target locations within or outside of the cell. This process is precisely regulated by protein sorting signals in different forms. A major category of sorting signals are amino acid sub-sequences usually located at the N-terminals or C-terminals of protein sequences. Genome-wide experimental identification of protein sorting signals is extremely time-consuming and costly. Effective computational algorithms for de novo discovery of protein sorting signals is needed to improve the understanding of protein sorting mechanisms.

Methods

We formulated the protein sorting motif discovery problem as a classification problem ...


Full Issue: Volume 3, Number 1, 2010 Touro College and University System

Full Issue: Volume 3, Number 1

The Science Journal of the Lander College of Arts and Sciences

No abstract provided.


Potential Applications Of Randomised Graph Sampling To Invasive Species Surveillance And Monitoring., Mark J. Ducey, Kathleen M. O'Brien 2010 University of New Hampshire

Potential Applications Of Randomised Graph Sampling To Invasive Species Surveillance And Monitoring., Mark J. Ducey, Kathleen M. O'Brien

Natural Resources and the Environment Scholarship

Abstract

Many invasive plants and animals disperse preferentially through linear networks in the landscape, including road networks, riparian corridors, and power transmission lines. Unless the network of interest is small, or the budget for surveillance is large, it may be necessary to draw inferences from a sample rather than a complete census on the network. Desired features of a surveillance system to detect and quantify invasion include: (1) the ability to make unbiased statements about the spatial extent of invasion, the abundance of the invading organism, and the degree of impact; (2) the ability to quantify the uncertainty associated with ...


Evaluating And Regulating Lead In Artificial Turf, Gregory Van Ulirsch, Kevin Gleason, Shawn Gerstenberger, Deaphne B. Moffett, Glenn Pulliam, Tariq Ahmed, Jerald Fagliano 2010 Agency for Toxic Substances and Disease Registry

Evaluating And Regulating Lead In Artificial Turf, Gregory Van Ulirsch, Kevin Gleason, Shawn Gerstenberger, Deaphne B. Moffett, Glenn Pulliam, Tariq Ahmed, Jerald Fagliano

Environmental & Occupational Health Faculty Publications

Background: In 2007, a synthetic turf recreational field in Newark, New Jersey, was closed because lead was found in synthetic turf fibers and in surface dust at concentrations exceeding hazard criteria. Consequently, public health professionals across the country began testing synthetic turf to determine whether it represented a lead hazard. Currently, no standardized methods exist to test for lead in synthetic turf or to assess lead hazards.

Objectives: Our objectives were to increase awareness of potential lead exposure from synthetic turf by presenting data showing elevated lead in fibers and turf-derived dust; identify risk assessment uncertainties; recommend that federal and ...


A Candidate Subspecies Discrimination System Involving A Vomeronasal Receptor Gene With Different Alleles Fixed In M. M. Domesticus And M. M. Musculus, Robert C. Karn, Janet M. Young, Christina M. Laukaitis 2010 Butler University

A Candidate Subspecies Discrimination System Involving A Vomeronasal Receptor Gene With Different Alleles Fixed In M. M. Domesticus And M. M. Musculus, Robert C. Karn, Janet M. Young, Christina M. Laukaitis

Scholarship and Professional Work - LAS

Assortative mating, a potentially efficient prezygotic reproductive barrier, may prevent loss of genetic potential by avoiding the production of unfit hybrids (i.e., because of hybrid infertility or hybrid breakdown) that occur at regions of secondary contact between incipient species. In the case of the mouse hybrid zone, where two subspecies of Mus musculus (M. m. domesticus and M. m. musculus) meet and exchange genes to a limited extent, assortative mating requires a means of subspecies recognition. We based the work reported here on the hypothesis that, if there is a pheromone sufficiently diverged between M. m. domesticus and M ...


Cockroaches, Ryan S. Davis 2010 Utah State University

Cockroaches, Ryan S. Davis

All Current Publications

Cockroaches are one of the most difficult structural pests to eradicate because of their ability to hide, rapid reproduction, and resistance to and avoidance of many commonly used insecticide sprays and baits. Using an integrated pest management (IPM) program can greatly increase the possibility of successful control. There are 4 cockroach species that commonly infest structures in Utah, each with a specific biology; identify invading cockroaches before you develop an IPM plan. Proper identification of any pest will allow you to understand its biology, and use it against itself!


Toxin-Nutrient Interactions Influence Diet Selection, USU Extension 2010 Utah State University

Toxin-Nutrient Interactions Influence Diet Selection, Usu Extension

All Current Publications

Given a choice herbivores prefer foods that are high in nutrients and low in toxins. Nevertheless, plants high in toxins are common on rangelands.


Toxins Reduce Palatability, USU Extension 2010 Utah State University

Toxins Reduce Palatability, Usu Extension

All Current Publications

Several years ago we had two research projects we assumed were unrelated. One focused on why goats avoid the current season’s growth of blackbrush and the other on how livestock learn to avoid foods high in toxins.


Training Livestock To Leave Streams And Use Uplands, USU Extension 2010 Utah State University

Training Livestock To Leave Streams And Use Uplands, Usu Extension

All Current Publications

Cattle can damage streams and surrounding vegetation—riparian areas—by breaking down banks decreasing water quality, and reducing wildlife living in the stream and on the land.


Incorporation Of Europium (Iii) Coordination Compounds Into Silica Microspheres, Johnathan Nathanael Brantly 2010 Western Kentucky University

Incorporation Of Europium (Iii) Coordination Compounds Into Silica Microspheres, Johnathan Nathanael Brantly

Mahurin Honors College Capstone Experience/Thesis Projects

The unique optical properties of silica microspheres and lanthanoid elements present the opportunity to adapt silica microspheres containing rare earth elements for novel optical applications. The research demonstrates the first example of incorporating insoluble lanthanoid coordination compounds into silica microspheres. The work explored the controlled synthesis of silica microspheres and the reaction conditions under which lanthanoid complexes can be incorporated into the microspheres. The environment of the coordinated lanthanoid ions before and after incorporation into silica microspheres was probed using spectroflurophotometry. The surface morphology of silica microspheres was characterized using atomic force microscopy (AFM) and scanning electron microscopy (SEM). The ...


Molecular Tools For Understanding The Population Genetic Effects Of Habitat Restoration On Butterflies, Joseph R. Marquardt 2010 Western Kentucky University

Molecular Tools For Understanding The Population Genetic Effects Of Habitat Restoration On Butterflies, Joseph R. Marquardt

Mahurin Honors College Capstone Experience/Thesis Projects

No abstract provided.


Strawberry Plug Plant Production, Dan Drost, Brent Black, Daniel Rowley 2010 Utah State University

Strawberry Plug Plant Production, Dan Drost, Brent Black, Daniel Rowley

All Current Publications

This publication provides information on growing strawberries including planting dates and harvesting methods.


Agronomic Performance Of Five Varieties Of Forage Grasses Inroduced In Carmen Pampa, Province Of Nor Yungas, La Paz, Joel Eliseo Bautista Vargas 2010 Brigham Young University - Provo

Agronomic Performance Of Five Varieties Of Forage Grasses Inroduced In Carmen Pampa, Province Of Nor Yungas, La Paz, Joel Eliseo Bautista Vargas

Theses and Dissertations

This study was done with the objective of evaluating the agronomic performance of five varieties of forage grasses introduced to the community of Carmen Pampa in the province of Nor Yungas, La Paz from 2005-2006. The average temperature during the study was 11.93ºC and the average precipitation was 801.75 mm. The trial was done with a design of randomized blocks having five species and six repetitions. The species studied were: Panicum virgatum, Sorghastrum nutans, Andropogon gerardii, Tripsacum dactyloides, and Eragrostis curvula. Variables evaluated were: plant height (cm), coverage (%), number of plants, bunches of florets, and dry matter yield ...


Presupuesto De Las Frambuesas Del Otoño En El Túnel Alto 2010, Utah State University 2010 Utah State University

Presupuesto De Las Frambuesas Del Otoño En El Túnel Alto 2010, Utah State University

All Current Publications

No abstract provided.


La Producción De Las Fresas Utilizando El Túnel Alto, Daniel Rowley, Brent Black, Dan Drost 2010 Utah State University

La Producción De Las Fresas Utilizando El Túnel Alto, Daniel Rowley, Brent Black, Dan Drost

All Current Publications

Las fresas locales y frescas son siempre un favorito en los mercados de productores y en los puestos ambulantes. Las fresas crecen mejor en las temperaturas alrededor de 70 a 75˚ F (21 a 24˚ C). Los inviernos fríos y los veranos calientes solo dejan una temporada de fresas muy corta. Se diseñan los invernaderos para mantener temperaturas óptimas para el crecimiento y se las puede usar para cultivar las fresas durante todo el año. Sin embargo, los invernaderos son muy costosos para construir y operar. Los túneles altos son relativamente baratos para construir, con algunos diseños costando menos de ...


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