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Protocol: A simple phenol-based method for 96-well extraction of high quality RNA from Arabidopsis
Mathew S Box, Vincent Coustham, Caroline Dean, Joshua S Mylne
Plant Methods , 2011, DOI: 10.1186/1746-4811-7-7
Abstract: We describe an unusual phenomenon when using TRIZOL reagent with young Arabidopsis seedlings. This prompted us to develop a high-throughput RNA extraction protocol (HTP96) adapted from a well established phenol:chloroform-LiCl method (P:C-L) that is cheap, reliable and requires no specialist equipment. With this protocol 192 high quality RNA samples can be prepared in 96-well format in three hours (less than 1 minute per sample) with less than 1% loss of samples. We demonstrate that the RNA derived from this protocol is of high quality and suitable for use in real time qRT-PCR assays.The development of the HTP96 protocol has vastly increased our sample throughput, allowing us to fully exploit the large sample capacity of modern real time qRT-PCR thermocyclers, now commonplace in many labs, and develop an effective high-throughput gene expression platform. We propose that the HTP96 protocol will significantly benefit any plant scientist with the task of obtaining hundreds of high quality RNA extractions.The scale of experiments conducted in modern plant molecular biology has grown such that hundreds or thousands of plant samples need to be processed by the researcher for use in a range of downstream applications, such as quantitative trait mapping, mutant screening and the analysis of gene expression in natural accessions-a rapidly growing resource for Arabidopsis research. Real time qRT-PCR is a common downstream application in such experiments and has become a major platform for high-throughput transcript profiling [1]. A significant bottleneck for many researchers is the acquisition of sufficient quantities of high quality RNA from such a large number of samples in a time and cost-effective manner. Although downstream technologies such as real time qRT-PCR have increased in their speed and capacity, the approaches to scale up the isolation of RNA have lagged behind.Conventional RNA isolation techniques are based on a 1.5 mL micro-centrifuge tube format (or larger)
SHOOT GROWTH1 Maintains Arabidopsis Epigenomes by Regulating IBM1
Vincent Coustham, Daniela Vlad, Aurélie Deremetz, Isabelle Gy, Francisco A. Cubillos, Envel Kerdaffrec, Olivier Loudet, Nicolas Bouché
PLOS ONE , 2014, DOI: 10.1371/journal.pone.0084687
Abstract: Maintaining correct DNA and histone methylation patterns is essential for the development of all eukaryotes. In Arabidopsis, we identified SHOOT GROWTH1 (SG1), a novel protein involved in the control of gene methylation. SG1 contains both a Bromo-Adjacent Homology (BAH) domain found in several chromatin regulators and an RNA-Recognition Motif (RRM). The sg1 mutations are associated with drastic pleiotropic phenotypes. The mutants degenerate after few generations and are similar to mutants of the histone demethylase INCREASE IN BONSAI METHYLATION1 (IBM1). A methylome analysis of sg1 mutants revealed a large number of gene bodies hypermethylated in the cytosine CHG context, associated with an increase in di-methylation of lysine 9 on histone H3 tail (H3K9me2), an epigenetic mark normally found in silenced transposons. The sg1 phenotype is suppressed by mutations in genes encoding the DNA methyltransferase CHROMOMETHYLASE3 (CMT3) or the histone methyltransferase KRYPTONITE (KYP), indicating that SG1 functions antagonistically to CMT3 or KYP. We further show that the IBM1 transcript is not correctly processed in sg1, and that the functional IBM1 transcript complements sg1. Altogether, our results suggest a function for SG1 in the maintenance of genome integrity by regulating IBM1.
Eigenvector Sensitivity: A Kharitonov Result  [PDF]
Vincent Winstead
American Journal of Computational Mathematics (AJCM) , 2013, DOI: 10.4236/ajcm.2013.32024
Abstract:

This study is motivated by a need to effectively determine the difference between a system fault and normal system operation under parametric uncertainty using eigenstructure analysis. This involves computational robustness of eigenvectors in linear state space systems dependent upon uncertain parameters. The work involves the development of practical algorithms which provide for computable robustness measures on the achievable set of eigenvectors associated with certain state space matrix constructions. To make connections to a class of systems for which eigenvalue and characteristic root robustness are well understood, the work begins by focusing on companion form matrices associated with a polynomial whose coefficients lie in specified intervals. The work uses an extension of the well known theories of Kharitonov that provides computational efficient tests for containment of the roots of the polynomial (and eigenvalues of the companion matrices) in desirable regions, such as the left half of the complex plane.

Dealing with Complex Management Problems  [PDF]
Vincent Omachonu
Open Journal of Business and Management (OJBM) , 2014, DOI: 10.4236/ojbm.2014.21002
Abstract: Dealing with Complex Management Problems
The Unemployment Volatility Puzzle: A Note on the Role of Reference Points  [PDF]
Vincent Boitier
Theoretical Economics Letters (TEL) , 2015, DOI: 10.4236/tel.2015.51013
Abstract: This theoretical note aims at studying the role of reference points in generating unemployment volatility. For this purpose, I introduce the notion of reference points in a standard Mortensen-Pissarides model. I obtain two results. First, I find that the obtained model is similar to the one found by Pissarides in 2009. Second, I show that the introduction of reference points can increase significantly unemployment volatility through a mechanism à la Hagerdorn and Manovskii.
Review Article: Remote Sensing, Surface Residue Cover and Tillage Practice  [PDF]
Obade Vincent de Paul
Journal of Environmental Protection (JEP) , 2012, DOI: 10.4236/jep.2012.32026
Abstract: A growing world population and possible liquid fuel energy shortages are likely to result in worldwide agricultural intensification, and the possible expansion of non-sustainable practices. The adoption of non-sustainable practices could result in the loss of currently productive land, with potential impacts on human welfare and economic viability. One of the easiest techniques to maintain productivity is to maintain surface soil organic matter. However, developing reliable, cost effective and accurate methods for quantifying and monitoring crop residue cover (a major source of soil organic matter) that remains on top of the soil over large spatial extents constitutes a significant challenge. This article reviews potential remote sensing approaches for estimating surface residue cover with a view to mapping tillage practice.
Managerial Skills, Financial Capability and Strategic Planning in Organizations  [PDF]
Vincent Bagire, Juliana Namada
American Journal of Industrial and Business Management (AJIBM) , 2013, DOI: 10.4236/ajibm.2013.35055
Abstract:

This study sought to establish the relationship between managerial skills, financial capability and the level of strategic planning. The study was premised on the increasing focus on strategic planning in Ugandan organizations. There was however, a lack of local empirical studies on the factors driving this trend. Data were obtained from organizations in various sectors that included government institutions, private and family business organizations. The findings confirmed that organizations were involved in significant level of strategic planning. There was a positive and significant relationship with managerial skills. However, there was a very weak relationship with the financial capability. The implication of the findings for management was to give more attention to managerial skills to ensure congruence of operations.

An Integrative Framework for Customizations on Satisfaction: The Case of an Online Jewelry Business in China  [PDF]
Vincent Cho, Candy Lau
Journal of Service Science and Management (JSSM) , 2014, DOI: 10.4236/jssm.2014.72013
Abstract:

Upon the technological advancement of production flexibility, supply chain agility, and customer behavioral tracking, many online businesses now develop their customization strategies. In this regard, this study proposes an integrative framework for customization of product information, transaction handling, product attribute, and sales’ service. We are interested in how these customizations affect customer satisfaction. From our web-based survey on a renowned online jewelry company in China, we collected 1383 responses from its customer database. Our findings showed that information, product and sales’ service customizations have significant influence on customer satisfaction. Moreover, ordinary members as compared with VIP members feel more satisfied once they receive customized services.

Minkowski Sum of Polytopes Defined by Their Vertices  [PDF]
Vincent Delos, Denis Teissandier
Journal of Applied Mathematics and Physics (JAMP) , 2015, DOI: 10.4236/jamp.2015.31008
Abstract:

Minkowski sums are of theoretical interest and have applications in fields related to industrial backgrounds. In this paper we focus on the specific case of summing polytopes as we want to solve the tolerance analysis problem described in [1]. Our approach is based on the use of linear programming and is solvable in polynomial time. The algorithm we developed can be implemented and parallelized in a very easy way.

Interest Rate Volatility: A Consol Rate Approach  [PDF]
Vincent Brousseau, Alain Durré
Journal of Mathematical Finance (JMF) , 2015, DOI: 10.4236/jmf.2015.51006
Abstract: In this paper, we propose a new methodology to estimate the volatility of interest rates in the euro area money market. In particular, our approach aims at avoiding the limitations of market implied volatilities, i.e. the dependency on arbitrary choices in terms of maturity and frequencies and/or of other factors like credit and liquidity risks. The measure is constructed as the implied instantaneous volatility of a consol bond that would be priced on the EONIA swap curve over the sample period from 4 January 1999 to 21 November 2013. Our findings show that this measure tracks well the historical volatility since, by dividing the consol excess returns by our volatility measure. This removes nearly entirely excess of kurtosis and volatility clustering, bringing the excess returns close to an ordinary Gaussian white noise.
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