scholarly journals Mathematical Modeling: Bridging the Gap between Concept and Realization in Synthetic Biology

2010 ◽  
Vol 2010 ◽  
pp. 1-16 ◽  
Author(s):  
Yuting Zheng ◽  
Ganesh Sriram
Keyword(s):  
Mathematical Modeling ◽  
Synthetic Biology ◽  
Circuit Design ◽  
Central Component ◽  
Transcription Network ◽  
Phenotype Analysis ◽  
Synthetic Circuit ◽  
Gene Regulatory ◽  
Mathematical Techniques

Mathematical modeling plays an important and often indispensable role in synthetic biology because it serves as a crucial link between the concept and realization of a biological circuit. We review mathematical modeling concepts and methodologies as relevant to synthetic biology, including assumptions that underlie a model, types of modeling frameworks (deterministic and stochastic), and the importance of parameter estimation and optimization in modeling. Additionally we expound mathematical techniques used to analyze a model such as sensitivity analysis and bifurcation analysis, which enable the identification of the conditions that cause a synthetic circuit to behave in a desired manner. We also discuss the role of modeling in phenotype analysis such as metabolic and transcription network analysis and point out some available modeling standards and software. Following this, we present three case studies—a metabolic oscillator, a synthetic counter, and a bottom-up gene regulatory network—which have incorporated mathematical modeling as a central component of synthetic circuit design.

How do histone modifications contribute to transgenerational epigenetic inheritance in C. elegans?

2020 ◽  
Vol 48 (3) ◽  
pp. 1019-1034 ◽  
Author(s):  
Rachel M. Woodhouse ◽  
Alyson Ashe
Keyword(s):  
Histone Modifications ◽  
Molecular Mechanisms ◽  
Epigenetic Inheritance ◽  
Nematode Caenorhabditis Elegans ◽  
Histone Methyltransferases ◽  
Transgenerational Epigenetic Inheritance ◽  
C Elegans ◽  
Recent Developments ◽  
Gene Regulatory

Gene regulatory information can be inherited between generations in a phenomenon termed transgenerational epigenetic inheritance (TEI). While examples of TEI in many animals accumulate, the nematode Caenorhabditis elegans has proven particularly useful in investigating the underlying molecular mechanisms of this phenomenon. In C. elegans and other animals, the modification of histone proteins has emerged as a potential carrier and effector of transgenerational epigenetic information. In this review, we explore the contribution of histone modifications to TEI in C. elegans. We describe the role of repressive histone marks, histone methyltransferases, and associated chromatin factors in heritable gene silencing, and discuss recent developments and unanswered questions in how these factors integrate with other known TEI mechanisms. We also review the transgenerational effects of the manipulation of histone modifications on germline health and longevity.

Technique of scientific and technical forecasting using neural networks

2018 ◽  
pp. 103-110
Author(s):  
V. V. Nefedev
Keyword(s):  
Mathematical Modeling ◽  
Neural Networks ◽  
Artificial Neural Networks ◽  
Original Method ◽  
Forecasting Methods ◽  
Expert Assessments ◽  
Artificial Neural

For the definition and implementation of breakthrough technologies the most important is the role of scientific and technical forecasting. Well-known forecasting methods based on extrapolation, expert assessments and mathematical modeling are not universal and have a number of significant disadvantages. The article proposes an original method of scientific and technical forecasting based on the use of the methodology of artificial neural networks. 

Microbial Biofilms and Biotechnology – Some Perceptions

2020 ◽  
Vol 09 ◽  
Author(s):  
Subba Rao Toleti
Keyword(s):  
Tissue Culture ◽  
Synthetic Biology ◽  
Industrial Effluents ◽  
Aquatic Environments ◽  
Biochemical Processes ◽  
Microbial Biofilms ◽  
Biofilm Bacteria ◽  
Prophylactic Vaccines ◽  
Design Construction

: The review is an attempt to introduce the readers in brief about biofilms and their implications as well as some new perceptions in biotechnology. Biofilms are adherent microbial communities, which are developed on submerged surfaces in aquatic environments. Biofilms play a significant role in exopolymer production, material deterioration and also cause harmful infections. Further, the role of corrosion causing biofilm bacteria in deterioration of different materials, microbial biofilms and their enzymatic processes in reducing the toxicity of pollutants in industrial effluents are elaborated, along with clean technologies for wastewater treatment. Biotechnology is defined as any technological application that uses biological systems to synthesize or modify products or processes. The applications include biochemical processes, medical care, cell and tissue culture as well as synthetic biology and others. Synthetic biology details about the design, construction of new biological components and systems for useful purposes. Finally, to overcome the limitations that are inherent to the use of cellular host’s, cell-free systems as critical platforms for synthetic biology applications. This mini-review also mentions about new diagnostic products based on enzymes, monoclonal antibodies and engineered proteins as well as novel prophylactic vaccines.

scholarly journals The Gene Regulatory Roles of Herbal Extracts on the Growth, Immune System, and Reproduction of Fish

Animals ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 2167
Author(s):  
Ehsan Ahmadifar ◽  
Hamideh Pourmohammadi Fallah ◽  
Morteza Yousefi ◽  
Mahmoud A. O. Dawood ◽  
Seyed Hossein Hoseinifar ◽  
...  
Keyword(s):  
Immune System ◽  
Mode Of Action ◽  
Medicinal Herbs ◽  
Environmental Stressors ◽  
Fish Diet ◽  
Sustainable Aquaculture ◽  
Herbal Supplements ◽  
Aquatic Animals ◽  
Gene Regulatory

The crucial need for safe and healthy aquatic animals obligates researchers in aquaculture to investigate alternative and beneficial additives. Medicinal herbals and their extracts are compromised with diverse effects on the performances of aquatic animals. These compounds can affect growth performance and stimulate the immune system when used in fish diet. In addition, the use of medicinal herbs and their extracts can reduce oxidative stress induced by several stressors during fish culture. Correspondingly, aquatic animals could gain increased resistance against infectious pathogens and environmental stressors. Nevertheless, the exact mode of action where these additives can affect aquatic animals’ performances is still not well documented. Understanding the mechanistic role of herbal supplements and their derivatives is a vital tool to develop further the strategies and application of these additives for feasible and sustainable aquaculture. Gene-related studies have clarified the detailed information on the herbal supplements’ mode of action when administered orally in aquafeed. Several review articles have presented the potential roles of medicinal herbs on the performances of aquatic animals. However, this review article discusses the outputs of studies conducted on aquatic animals fed dietary, medicinal herbs, focusing on the gene expression related to growth and immune performances. Furthermore, a particular focus is directed to the expected influence of herbal supplements on the reproduction of aquatic animals.

scholarly journals Homenagem: Remembering the Life and Work of Abdias Nascimento

2021 ◽  
pp. 002193472110115
Author(s):  
Keisha-Khan Y. Perry ◽  
Anani Dzidzienyo
Keyword(s):  
Military Service ◽  
Black Studies ◽  
Central Component ◽  
Special Issue ◽  
Art And Politics ◽  
Black Politicians ◽  
Brown University ◽  
Black World ◽  
The Relationship

This essay provides a brief introduction to this special issue focused on the life and work of Black Brazilian scholar-activist Abdias Nascimento. The contributors include, Vera Lucia Benedito, Ollie Johnson, Zachary Morgan, Elisa Larkin Nascimento, and Cheryl Sterling who all participated in a 2015 conference at Africana Studies at Brown University. This group of scholars aptly illustrate that Nascimento had long contributed to the internationalization of Black Studies as a field in US academe and he was crucial in establishing Brazil as a central component of the Black World. The essays have much to teach us about Nascimento’s views on the relationship between art and politics, the role of military service in shaping his activism, the significance of black politicians in the reconceptualization of Brazilian democracy, and the importance of preserving archives and expanding our understanding of the Black radical tradition.

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