Roque Institute of Technology

www.itroque.edu.mx
Celaya, Mexico
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PubMed | University of Florida, Autonomous University of Chihuahua and Roque Institute of Technology
Type: | Journal: Computational biology and chemistry | Year: 2016

MicroRNAs (miRNAs) are small non-coding RNA molecules that regulate signal transduction, development, metabolism, and stress responses in plants through post-transcriptional degradation and/or translational repression of target mRNAs. Several studies have addressed the role of miRNAs in model plant species, but miRNA expression and function in economically important forage crops, such as Bouteloua gracilis (Poaceae), a high-quality and drought-resistant grass distributed in semiarid regions of the United States and northern Mexico remain unknown.We applied high-throughput sequencing technology and bioinformatics analysis and identified 31 conserved miRNA families and 53 novel putative miRNAs with different abundance of reads in chlorophyllic cell cultures derived from B. gracilis. Some conserved miRNA families were highly abundant and possessed predicted targets involved in metabolism, plant growth and development, and stress responses. We also predicted additional identified novel miRNAs with specific targets, including B. gracilis ESTs, which were detected under drought stress conditions.Here we report 31 conserved miRNA families and 53 putative novel miRNAs in B. gracilis. Our results suggested the presence of regulatory miRNAs involved in modulating physiological and stress responses in this grass species.


Ramirez-Marengo C.,Celaya Institute of Technology | Diaz-Ovalle C.,Roque Institute of Technology | Vazquez-Roman R.,Celaya Institute of Technology | Mannan M.S.,Texas A&M University
Journal of Loss Prevention in the Process Industries | Year: 2015

A stochastic approach for evaluating the risk of vapor cloud explosions is proposed in this work. The proposed methodology aims to incorporate the effect of uncertainty into the risk analysis to produce a better overall view for the risk. Some stochastic variables are used to estimate the probability of vapor cloud explosions: frequency of the release, the probability of not having an immediate ignition, the probability of delayed ignition and the probability of a vapor cloud explosion given a delayed ignition, as well as different possible meteorological conditions. These stochastic variables are represented with probability distribution curves. Different curves for the frequencies of releases from process equipment types (steel process pipes, flanges, manual valves, actuated valves, etc.), different equipment diameters and different leak sizes are also used in this analysis. Monte Carlo simulation is performed to obtain the risk as a probability distribution using the Analytic Solver Platform. Then the risk distribution curve obtained by Monte Carlo simulation is used to estimate the probability of satisfying the risk tolerance criterion. © 2014 Elsevier Ltd.


Vazquez-Roman R.,Celaya Institute of Technology | Diaz-Ovalle C.,Roque Institute of Technology | Quiroz-Perez E.,Celaya Institute of Technology | Mannan M.S.,Texas A&M University
Journal of Loss Prevention in the Process Industries | Year: 2016

Accidental gas releases are detected by allocating sensors in optimal places to prevent escalation of the incident. Gas release effects are typically assessed based on calculating the dispersion from releasing points. In this work, a CFD-based approach is proposed to estimate gas dispersion and then to obtain optimal gas sensors allocation. The Ansys-Fluent commercial package is used to estimate concentrations in the open air by solving the governing equations of continuity, momentum, energy and species convection-diffusion combined with the realizable κ-ε model for turbulence viscosity effects. CFD dynamic simulations are carried out for potential gas leaks, assuming worst-case scenarios with F-stability and 2 m/s wind speed during a 4 min releasing period and considering 8 wind directions. The result is a scenario-based methodology to allocate gas sensors supported on fluid dynamics models. The three x-y-z geographical coordinates for the sensor allocation are included in this analysis. To highlight the methodology, a case study considers releases from a large container surrounded by different types of geometric units including sections with high obstacles, low obstacles, and no obstacles. A non-redundant set of perfect sensors are firstly allocated to cover completely the detection for all simulations releases. The benefits of redundant detection via a MooN voting arranging scheme is also discussed. Numerical results demonstrate the capabilities of CFD simulations for this application and highlight the dispersion effects through obstacles with different sizes. © 2016 Elsevier Ltd.


Diaz-Ovalle C.,Roque Institute of Technology | Diaz-Ovalle C.,Celaya Institute of Technology | Vazquez-Roman R.,Celaya Institute of Technology | Lesso-Arroyo R.,Celaya Institute of Technology | Mannan M.S.,Texas A&M University
Journal of Loss Prevention in the Process Industries | Year: 2012

Curtain mitigation systems are modeled here since they have experimentally shown their efficiency in reducing the concentration of certain toxic gases within dense gas clouds. Air, water and steam are analyzed in a model as the physical barriers to decrease the gas concentration. The model, developed for a steady-state mitigation process, is based on the mass, energy and momentum conservation laws. Concentration estimations during the dispersion before and after the mitigation are performed with a SLAB type model. A sensitivity analysis for each model is given to detect which variables have bigger effects. A release of chlorine is used as an example and the results are calculated in a prototype developed in Visual C++, where the model is solved using the Runge-Kutta 4th order method. The results include the effects of composition, speed, temperature and height of the releasing point as well as a comparison with CFD simulations. The proposed model is simplified and it cannot reproduce eddy effects but it is fast and robust enough. The model provides a set of equations that can be used in numerical problems where explicit derivatives are required, e.g. optimizations procedures. © 2012 Elsevier Ltd.


Diaz-Ovalle C.,Roque Institute of Technology | Vazquez-Roman R.,Celaya Institute of Technology | de Lira-Flores J.,Celaya Institute of Technology | Mannan M.S.,Texas A&M University
Computers and Chemical Engineering | Year: 2013

The possibility of including mitigation systems in layout models is explored in this work. The model is based on a previous work by the authors to estimate toxic concentrations around each releasing facility surrounded by a mitigation system. The mitigation systems considered here includes water, steam, and air curtains and exponential decays are assumed for the concentrations shapes before and after the installed curtain. The selection of the mitigation system type to install is included as a variable to determine when solving the proposed MINLP model. Additional constraints include the conventional non-overlapping and risk estimations based on probit functions. The objective function includes occupied land costs, interconnection costs, risk damage costs, and mitigation costs. A software package called TROL has been developed to automatically interact with GAMS and ease the initial and final layout descriptions. Numerical results indicate that the proposed model produces more practical and optimal layouts. © 2013 Elsevier Ltd.


Garcia-Sanchez L.N.,Celaya Institute of Technology | Vazquez-Roman R.,Celaya Institute of Technology | Diaz-Ovalle C.,Roque Institute of Technology | Mannan M.S.,Texas A&M University
Chemical Engineering Transactions | Year: 2013

A multi-objective programming (MOP) approach is applied in this work to produce optimal facility layouts when some of the facilities may release toxic gas. A conflict appears when solving the optimization problem because reducing the occupied area increases the individual risk. In this approach, a utopia point is introduced as a reference, which is defined as the layout where no toxic releases are considered, i.e. the objective function consists on minimizing the total cost of interconnections and the occupied area. Then the Pareto set is built-up by incorporating individual risk to visualize the effect of the two contradictory objective functions. The closest point in the Pareto curve to the utopic reference is adopted here as the neutral risk point. A case-study is used to visualize risk-neutral, risk-averse and risk-seeking layouts where the overall stochastic individual risk is set up to a certain value. The optimization facility layout problem is formulated as a mixed-integer non-linear program (MINLP), which is highly non-convex. © 2013, AIDIC Servizi S.r.l.


Mejia-Teniente L.,C.A. Ingenieria de Biosistemas | Mejia-Teniente L.,University of Guanajuato | de Jesus Joaquin-Ramos A.,Roque Institute of Technology | Torres-Pacheco I.,C.A. Ingenieria de Biosistemas | And 4 more authors.
Viruses | Year: 2015

Germin-like proteins (GLPs) are encoded by a family of genes found in all plants, and in terms of function, the GLPs are implicated in the response of plants to biotic and abiotic stresses. CchGLP is a gene encoding a GLP identified in a geminivirus-resistant Capsicum chinense Jacq. accession named BG-3821, and it is important in geminivirus resistance when transferred to susceptible tobacco in transgenic experiments. To characterize the role of this GLP in geminivirus resistance in the original accession from which this gene was identified, this work aimed at demonstrating the possible role of CchGLP in resistance to geminiviruses in Capsicum chinense Jacq. BG-3821. Virus-induced gene silencing studies using a geminiviral vector based in PHYVV component A, displaying that silencing of CchGLP in accession BG-3821, increased susceptibility to geminivirus single and mixed infections. These results suggested that CchGLP is an important factor for geminivirus resistance in C. chinense BG-3821 accession. © 2015 by the authors; licensee MDPI, Basel, Switzerland.


PubMed | National Autonomous University of Mexico, Roque Institute of Technology and Instituto Nacional de Investigaciones Nucleares
Type: | Journal: Plant physiology and biochemistry : PPB | Year: 2015

A recent proposal to mitigate the effects of climatic change and reduce water consumption in agriculture is to develop cultivars with high water-use efficiency. The aims of this study were to characterize this trait as a differential response mechanism to water-limitation in two bean cultivars contrasting in their water stress tolerance, to isolate and identify gene fragments related to this response in a model cultivar, as well as to evaluate transcription levels of genes previously identified. Keeping CO2 assimilation through a high photosynthesis rate under limited conditions was the physiological response which allowed the cultivar model to maintain its growth and seed production with less water. Chloroplast genes stood out among identified genetic elements, which confirmed the importance of photosynthesis in such response. ndhK, rpoC2, rps19, rrn16, ycf1 and ycf2 genes were expressed only in response to limited water availability.


PubMed | CINVESTAV, C.A. Ingenieria de Biosistemas, Roque Institute of Technology and Celaya Institute of Technology
Type: Journal Article | Journal: Viruses | Year: 2015

Germin-like proteins (GLPs) are encoded by a family of genes found in all plants, and in terms of function, the GLPs are implicated in the response of plants to biotic and abiotic stresses. CchGLP is a gene encoding a GLP identified in a geminivirus-resistant Capsicum chinense Jacq accession named BG-3821, and it is important in geminivirus resistance when transferred to susceptible tobacco in transgenic experiments. To characterize the role of this GLP in geminivirus resistance in the original accession from which this gene was identified, this work aimed at demonstrating the possible role of CchGLP in resistance to geminiviruses in Capsicum chinense Jacq. BG-3821. Virus-induced gene silencing studies using a geminiviral vector based in PHYVV component A, displaying that silencing of CchGLP in accession BG-3821, increased susceptibility to geminivirus single and mixed infections. These results suggested that CchGLP is an important factor for geminivirus resistance in C. chinense BG-3821 accession.


PubMed | CINVESTAV, C.A. Ingenieria de Biosistemas, Roque Institute of Technology and Celaya Institute of Technology
Type: Journal Article | Journal: Viruses | Year: 2015

Germin-like proteins (GLPs) are encoded by a family of genes found in all plants, and in terms of function, the GLPs are implicated in the response of plants to biotic and abiotic stresses. CchGLP is a gene encoding a GLP identified in a geminivirus-resistant Capsicum chinense Jacq accession named BG-3821, and it is important in geminivirus resistance when transferred to susceptible tobacco in transgenic experiments. To characterize the role of this GLP in geminivirus resistance in the original accession from which this gene was identified, this work aimed at demonstrating the possible role of CchGLP in resistance to geminiviruses in Capsicum chinense Jacq. BG-3821. Virus-induced gene silencing studies using a geminiviral vector based in PHYVV component A, displaying that silencing of CchGLP in accession BG-3821, increased susceptibility to geminivirus single and mixed infections. These results suggested that CchGLP is an important factor for geminivirus resistance in C. chinense BG-3821 accession.

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