Application of Genomics and Proteomics in Bioremediation

2016 ◽  
pp. 97-112 ◽  
Author(s):  
Amol Uttam Hivrale ◽  
Pankaj K. Pawar ◽  
Niraj R. Rane ◽  
Sanjay P. Govindwar
Keyword(s):  
Molecular Mechanism ◽  
Regulatory Network ◽  
Protein Composition ◽  
Cost Effective ◽  
Cellular Responses ◽  
Life Forms ◽  
Growth Conditions ◽  
Genomics And Proteomics ◽  
Gene Functions ◽  
Insight Into

Bioremediation mediated by microorganisms is proving to be cost effective, ecofriendly and sustainable technology. Genome enable experimental and modeling techniques are of a great help in evaluating physiology and enhancing performance of life forms to be used for bioremediation purpose. Similarly, the application of proteomics in bioremediation research provides a global view of the protein composition of microbial cell and offers promising approach to understand the molecular mechanism of removal of toxic material from the environment. Combination of proteomics and genomics in bioremediation is an insight into global metabolic and regulatory network that can enhance the understanding of gene functions. Present chapter give a bird's eye view of genomics and proteomics and their potential utilization in bioremediation and for the clearer understanding of the cellular responses to environmental stimuli. An understanding of the growth conditions governing the expression of proteome in a specific environment is essential for developing rational strategies for successful bioremediation.

Proteins and protein complexes involved in the biochemical reactions of anaerobic ammonium-oxidizing bacteria

2011 ◽  
Vol 39 (1) ◽  
pp. 303-308 ◽  
Author(s):  
Naomi M. de Almeida ◽  
Wouter J. Maalcke ◽  
Jan T. Keltjens ◽  
Mike S.M. Jetten ◽  
Boran Kartal
Keyword(s):  
Molecular Mechanism ◽  
Natural Environment ◽  
Protein Complexes ◽  
Cost Effective ◽  
Nitrite Reduction ◽  
Ammonium Oxidation ◽  
Fixed Nitrogen ◽  
Ammonium Removal ◽  
Removal Technology ◽  
Insight Into

It has been less than two decades since anammox (anaerobic ammonium oxidation) coupled to nitrite reduction has been discovered. Already, this process has been recognized as an important sink for fixed nitrogen in the natural environment and has been implemented as a cost-effective ammonium removal technology. Still, little is known about the molecular mechanism of this remarkable reaction. In this mini review, we present an insight into how ammonium and nitrite are combined to form dinitrogen gas.

scholarly journals Growth and biochemical composition of Chlorella vulgaris in different growth media

2013 ◽  
Vol 85 (4) ◽  
pp. 1427-1438 ◽  
Author(s):  
MATHIAS A. CHIA ◽  
ANA T. LOMBARDI ◽  
MARIA DA GRACA G. MELAO
Keyword(s):  
Biomass Production ◽  
Chlorella Vulgaris ◽  
Biochemical Composition ◽  
Physiological Response ◽  
Low Cost ◽  
Cost Effective ◽  
Growth Conditions ◽  
Growth Media ◽  
Continuous Cultures ◽  
The Cost

The need for clean and low-cost algae production demands for investigations on algal physiological response under different growth conditions. In this research, we investigated the growth, biomass production and biochemical composition of Chlorella vulgaris using semi-continuous cultures employing three growth media (LC Oligo, Chu 10 and WC media). The highest cell density was obtained in LC Oligo, while the lowest in Chu medium. Chlorophyll a, carbohydrate and protein concentrations and yield were highest in Chu and LC Oligo media. Lipid class analysis showed that hydrocarbons (HC), sterol esthers (SE), free fatty acids (FFA), aliphatic alcohols (ALC), acetone mobile polar lipids (AMPL) and phospholipids (PL) concentrations and yields were highest in the Chu medium. Triglyceride (TAG) and sterol (ST) concentrations were highest in the LC Oligo medium. The results suggested that for cost effective cultivation, LC Oligo medium is the best choice among those studied, as it saved the cost of buying vitamins and EDTA associated with the other growth media, while at the same time resulted in the best growth performance and biomass production.

Insight into the molecular mechanism of a herbal injection by integrating network pharmacology and in vitro

2015 ◽  
Vol 173 ◽  
pp. 91-99 ◽  
Author(s):  
Yi-min Ma ◽  
Xin-zhuang Zhang ◽  
Zhen-zhen Su ◽  
Na Li ◽  
Liang Cao ◽  
...  
Keyword(s):  
Molecular Mechanism ◽  
Network Pharmacology ◽  
Insight Into

Quantitative proteomic analysis of global effect of LLL12 on U87 cell's proteome: An insight into the molecular mechanism of LLL12

2015 ◽  
Vol 113 ◽  
pp. 127-142 ◽  
Author(s):  
Rekha Jain ◽  
Prajakta Kulkarni ◽  
Snigdha Dhali ◽  
Srikanth Rapole ◽  
Sanjeeva Srivastava
Keyword(s):  
Molecular Mechanism ◽  
Proteomic Analysis ◽  
Global Effect ◽  
Quantitative Proteomic Analysis ◽  
Insight Into

scholarly journals Insight into Invasive Species (Mikania micrantha), Its Control Measures and Programmes in Nepal

1970 ◽  
Vol 4 ◽  
pp. 115-119 ◽  
Author(s):  
Rajan P Paudel
Keyword(s):  
Invasive Species ◽  
Cost Effective ◽  
Control Measures ◽  
Mikania Micrantha ◽  
Biodiversity Crisis ◽  
Chitwan National Park ◽  
Biological Methods ◽  
Life On Earth ◽  
Insight Into ◽  
Methods Of Control

Invasive species adversely affects the ecology and habitat of the species existing in a particular region. They are one of the top threats to the biodiversity of life on Earth. Mikania micrantha is spreading like a wildfire in Nepal whose effect on Rhino habitat is being studied in Chitwan National Park. Various mechanical, chemical and biological methods of control for Mikania are available. It's likely to be more cost effective to prevent the spread of invasive species in the first place than to tackle the biodiversity crisis once they have become established.DOI: http://dx.doi.org/10.3126/init.v4i0.5544The Initiation Vol.4 2011 115-119

scholarly journals Population Genomic- and Phylogenomic-Enabled Advances to Increase Insight Into Pathogen Biology and Epidemiology

2021 ◽  
Vol 111 (1) ◽  
pp. 8-11
Author(s):  
Remco Stam ◽  
Pierre Gladieux ◽  
Boris A. Vinatzer ◽  
Erica M. Goss ◽  
Neha Potnis ◽  
...  
Keyword(s):  
Population Genetics ◽  
Population Genomics ◽  
Cost Effective ◽  
Whole Genome ◽  
Genome Data ◽  
Sequencing Technologies ◽  
Population Genomic ◽  
High Throughput Dna Sequencing ◽  
Opening Up ◽  
Insight Into

Population genetics has been a key discipline in phytopathology for many years. The recent rise in cost-effective, high-throughput DNA sequencing technologies, allows sequencing of dozens, if not hundreds of specimens, turning population genetics into population genomics and opening up new, exciting opportunities as described in this Focus Issue . Without the limitations of genetic markers and the availability of whole or near whole-genome data, population genomics can give new insights into the biology, evolution and adaptation, and dissemination patterns of plant-associated microbes.

scholarly journals A systematic characterization of intrinsically formed microglia-like cells during retinal organoid differentiation.

2022 ◽  
Author(s):  
Katarina Bartalska ◽  
Verena Hübschmann ◽  
Medina Korkut-Demirbaş ◽  
Ryan John Abat Cubero ◽  
Alessandro Venturino ◽  
...  
Keyword(s):  
Protein Composition ◽  
Human Microglia ◽  
Development Organization ◽  
Cellular Environment ◽  
Preferential Localization ◽  
Circuit Development ◽  
And Migration ◽  
Induced Pluripotent ◽  
Insight Into

Brain organoids differentiated from human induced pluripotent stem cells provide a unique opportunity to investigate the development, organization and connectivity of neurons in a complex cellular environment. However, organoids usually lack microglia, brain-resident immune cells which are both present in the early human embryonic brain and participate in neuronal circuit development. Here, we find that microglia innately develop in unguided retinal organoid differentiation between week 3 and 4 in 2.5D culture and appear later in floating, non-pigmented, 3D-cystic compartments. We enriched for cystic structures using a low-dosed BMP4 application and performed mass spectrometry, thus defining the protein composition of microglia-containing compartments. We found that cystic compartments expressed both mesenchymal and epithelial markers with microglia enriched in the mesenchymal region. Interestingly, microglia-like cells started to express the border-associated macrophage marker CD163. The preferential localization of human microglia to a mesenchymal compartment provides insight into the behavior and migration of microglia. The model will ultimately allow detailed study of these enigmatic cells and how they enter and distribute within the human brain.

scholarly journals Screening of five marine-derived fungal strains for their potential to produce oxidases with laccase activities suitable for biotechnological applications

2020 ◽  
Author(s):  
Wissal BEN ALI ◽  
Delphine Chaduli ◽  
David Navarro ◽  
Christian Lechat ◽  
Annick Turbé-Doan ◽  
...  
Keyword(s):  
Culture Supernatant ◽  
Cost Effective ◽  
Optimal Growth ◽  
Dye Decolorization ◽  
Growth Conditions ◽  
Active Cell ◽  
Oxidative Enzymes ◽  
Synthetic Dyes ◽  
Biotechnological Applications ◽  
Fungal Strains

Abstract Background : Environmental pollution is one of the major problems that the world is facing today. Several approaches have been taken, from physical and chemical methods to biotechnological strategies (e.g. the use of oxidoreductases). Oxidative enzymes from microorganisms offer eco-friendly, cost–effective processes amenable to biotechnological applications, such as in industrial dye decolorization. The aim of this study was to screen marine-derived fungal strains isolated from three coastal areas in Tunisia to identify laccase-like activities, and to produce and characterize active cell-free supernatants of interest for dye decolorization.Results : Following the screening of 20 fungal strains isolated from the harbors of Sfax and Monastir (Tunisia), five strains were identified that displayed laccase-like activities. Molecular-based taxonomic approaches identified these strains as belonging to the species Trichoderma asperellum , Stemphylium lucomagnoense and Aspergillus nidulans . Among these five isolates, one T. asperellum strain ( T. asperellum 1) gave the highest level of secreted oxidative activities, and so was chosen for further studies. Optimization of the growth medium for liquid cultures was first undertaken to improve the level of laccase-like activity in culture supernatants. Finally, the culture supernatant of T. asperellum 1 decolorized different synthetic dyes belonging to diverse dye families, in the presence or absence of 1-hydroxybenzotriazole (HBT) as a mediator.Conclusions : The optimal growth conditions to produce laccase-like active cell-free supernatants from T. asperellum 1 were 1.8 mM CuSO 4 as an inducer, 1% NaCl to mimic a seawater environment and 3% sucrose as a carbon source. The culture supernatant of T. asperellum 1 effectively decolorized different synthetic dyes belonging to diverse chemical classes, and the presence of HBT as a mediator improved the decolorization process.

A strategy for near-term success using knowledge-based systems

1987 ◽  
Vol 2 (3) ◽  
pp. 179-183 ◽  
Author(s):  
S. C. Laufmann
Keyword(s):  
Cost Effective ◽  
Valuable Insight ◽  
Specific Data ◽  
Knowledge Based System ◽  
Data Intensive ◽  
Knowledge Based ◽  
Effective Manner ◽  
Near Term ◽  
Characteristic Features ◽  
Insight Into

AbstractKnowledge-based System (KBS) technologies have been applied to a variety of knowledge-related tasks with varying degrees of success. Differentiating among classes of knowledge-related tasks, based on the amounts of problem-solving knowledge and case-specific data involved, can provide valuable insight into why this occurs. Based on this comparison, four classes of problems are described. One class, of data-intensive tasks, includes problem types that are difficult or impossible for humans to perform, yet may be solved in a cost-effective manner using currently accessible KBS technology. The characteristic features of problems in this class are given, together with an example of a successfully fielded knowledge-based system that solves a problem from this class.

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