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Gene Editing and Systems Biology Tools for Pesticide Bioremediation: A Review

Shweta Jaiswal, Dileep Kumar Singh, Pratyoosh Shukla
2019 Frontiers in Microbiology  
The significant keys of system biology are biodegradation network, computational biology, and omics approaches.  ...  The genetics and biochemistry of biodegradation processes in datasets opened the way of systems biology. Systemic biology aid the study of interacting parts involved in the system.  ...  A snapshot of integrated approaches of systems biology tools in biodegradation network is depicted in Figure 3 .  ... 
doi:10.3389/fmicb.2019.00087 pmid:30853940 pmcid:PMC6396717 fatcat:tynsf2rgwbay5bom3t3krjzt3y

In Silico Approach for the Bioremediation of Toxic Pollutants

Fazlurrahman Khan
2013 Journal of Petroleum & Environmental Biotechnology  
Thus before the application of microbial system for the degradation of any newly released pollutant in the environment, there is need to in silico study for predicting the possible degradation pathways  ...  The present review provides a comprehensive account of these databases, software, their respective work methodologies and potential application for the bioremediation.  ...  Acknowledgements FK thanks DBT for the Research Associate ship and MS acknowledge his research fellowship from UGC, India. This is the IMTECH communication no 0123/2013.  ... 
doi:10.4172/2157-7463.1000161 fatcat:qp6w65u2jjcp5g4k36zidt3nvi

Environmental biotechnology: Challenges and opportunities for chemical engineers

Wilfred Chen, Ashok Mulchandani, Marc A. Deshusses
2005 AIChE Journal  
These natural mechanisms can be easily exploited to optimize biosorbents that are more efficient for heavy metal removal. In one example, a sulfide-dependent metal removal  ...  Immobilization of heavy metals into biomass or precipitation through reduction to lesser bioactive metal species, such as metal sulfide are the major mechanisms employed by nature (microorganism, animals  ...  Acknowledgment The financial supports from NSF (BES0422791, BES0329482, and BES0331416) and U.S. EPA (R829606) are gratefully acknowledged. Literature Cited  ... 
doi:10.1002/aic.10487 fatcat:zxtam4i64rec5jjefejoilfghe

Nanoparticles for Environment, Engineering, and Nanomedicine

Rachid Seqqat, Lee Blaney, David Quesada, Brajesh Kumar, Luis Cumbal
2019 Journal of Nanotechnology  
biodegradable materials, especially phytochemicals, has drawn a new and exciting area of research in the field of nanotechnology.  ...  for quantum computing, catalytic converters for environmental remediation, and magnetic nanoparticles for biomedical applications and computer memories. e nanomedicine has been generally defined as the  ... 
doi:10.1155/2019/2850723 fatcat:grtbtjykxbfj7efqakra6mhe6y

Alternative Strategies for Microbial Remediation of Pollutants via Synthetic Biology

Shweta Jaiswal, Pratyoosh Shukla
2020 Frontiers in Microbiology  
In this review we provide an outlook of alternative strategies for bioremediation via synthetic biology, including exploring the prerequisites for analysis of research data for developing synthetic biological  ...  The synthetic genetic circuit and two-component regulatory system (TCRS)-based microbial biosensors for detection and bioremediation are also briefly explained.  ...  This can be done by the Bionemo (Biodegradation Network Molecular Biology) database (Libis et al., 2016a) .  ... 
doi:10.3389/fmicb.2020.00808 pmid:32508759 pmcid:PMC7249858 fatcat:jllwg2wj7bfefnxsza65562cki

Use of biodegradable polymer for development of environmental tracers: a bibliometric review

Adriana Marques, Sandra Maria da Luz
2021 Polímeros  
The bibliometric information about the past and the future of artificial tracers, to monitor surface and groundwater by using sustainable biodegradable materials it will be important for future generation  ...  Because of that, this field could be further explored, globally using innovative techniques and materials for new tracers.  ...  One of the most-used, open-source tools for visualising bibliometric networks is the VOS viewer software [77, 78] . VOS viewer constructs a map based on a co-occurrence matrix system.  ... 
doi:10.1590/0104-1428.00221 fatcat:k6r2wa6xqrclzfhbd7p4svykfe

Bioremediation 3 . 0 : Engineering pollutant-removing bacteria in the times of systemic biology

Pavel Dvořák, Pablo I. Nikel, Jiří Damborský, Víctor de Lorenzo
2017 Biotechnology Advances  
In a twist of events, the last few years have 17 witnessed the emergence of new systemic fields (including systems and synthetic biology, and 18 metabolic engineering) that allow revisiting the same environmental  ...  In this article, we 22 analyze how contemporary systemic biology is helping to take the design of bioremediation 23 agents back to the core of environmental biotechnology.  ...  Synthetic biology approaches and tools for biodegradation pathway engineering 14 The principal underlying thought in synthetic biology is that any living system can be 15 considered a set of separate  ... 
doi:10.1016/j.biotechadv.2017.08.001 pmid:28789939 fatcat:snmm6z3j4fajticae2sujhqxpe

Genetically modified organisms for the environment: stories of success and failure and what we have learned from them

Ildefonso Cases, Victor de Lorenzo
2005 International Microbiology  
In this review, several valuable spin-offs of past research into genetically modified organisms with environmental applications are discussed, along with the impact of Systems Biology and Synthetic Biology  ...  The many different choices between nutrients and responses to stresses form a network of transcriptional switches which, given the redundance and robustness of the regulatory circuits involved, can be  ...  The work of our laboratories cited in this article was funded by grants of the Spanish Ministry of Education and Science, the European Union, and the Conservation Biology Program of the BBVA Foundation  ... 
pmid:16200500 fatcat:4qcmm67klvf3fpn572u2zuxele

From theselfish genetoselfish metabolism: Revisiting the central dogma

Víctor de Lorenzo
2014 Bioessays  
All this calls for a revision of the CD in which metabolism (rather than DNA) has the leading role.  ...  The standard representation of the Central Dogma (CD) of Molecular Biology conspicuously ignores metabolism.  ...  Nikel, A. Danchin, J. Blazquez, E. Martínez, A. Goñi, D.  ... 
doi:10.1002/bies.201300153 pmid:24419968 fatcat:aju6z3loqbdafjky7r5jg5m3iq

The environmental fate of organic pollutants through the global microbial metabolism

Manuel J Gómez, Florencio Pazos, Francisco J Guijarro, Víctor de Lorenzo, Alfonso Valencia
2007 Molecular Systems Biology  
The Syracuse Research Corporation deserves also a special acknowledgement for providing the SMILECAS database.  ...  Acknowledgements We are grateful to the UMBBD and its scientific leader, L Wackett, as the main source of curated public information on Biodegradation and Biotransformations.  ...  power of the system for new chemicals.  ... 
doi:10.1038/msb4100156 pmid:17551509 pmcid:PMC1911198 fatcat:xnh2ksdwyzg3dcykaogopcu2ie

The PFLOTRAN Reaction Sandbox

Glenn E. Hammond
2022 Geoscientific Model Development  
As modern reactive transport simulators evolve to accommodate the demands of a user community, researchers need a platform for prototyping new biogeochemical processes, many of which are niche and specific  ...  Reaction Sandbox Example serves as a template for creating new sandboxes within PFLOTRAN.  ...  For researchers in the natural sciences, who may be more focused on biology, chemistry and/or physics than computational science, modifying these codes to incorporate new scientific processes can be challenging  ... 
doi:10.5194/gmd-15-1659-2022 fatcat:io52paekvzgpnbpupfx7f4qavm

Elucidating the impact of micro-scale heterogeneous bacterial distribution on biodegradation

Susanne I. Schmidt, Jan-Ulrich Kreft, Rae Mackay, Cristian Picioreanu, Martin Thullner
2018 Advances in Water Resources  
, the origin of parameter values, and additional results for alternative averaging approaches and non-base case scenarios.  ...  Acknowledgements Funding: This work was supported by the European Community's Seventh Supporting Information available Additional information on the model setup, the conversion of cell concentrations  ...  and the 2D fluid dynamics computations can be applied analogously in larger systems such as pore networks.  ... 
doi:10.1016/j.advwatres.2018.01.013 fatcat:frbzhhfsafcalcipbppyrfmns4

Materials for biointegrated electronic and microfluidic systems

John A. Rogers
2019 MRS bulletin  
Another area that represents a frontier in this broader space is three-dimensional (3D) open-network systems that integrate with biology through volumetric spaces, rather than surfaces, to enable new levels  ...  The second is a stream of work based around the idea of biodegradable or "transient" electronics-systems that operate in a timecoordinated fashion with a transient biological process such as wound healing  ...  The Materials Research Society has a journal for every materials topic and every stage of your research. Explore your options at mrs.org/publications-news. PUBLISH WITH MRS!  ... 
doi:10.1557/mrs.2019.46 fatcat:qpk4pweadffqlc5eii636fzlw4

Internet of NanoThings: Concepts and Applications [article]

Ebtesam Almazrouei, Raed M. Shubair, Fabrice Saffre
2018 arXiv   pre-print
Section 2 describes Internet of NanoThing(IoNT), its network architecture, and the challenges of nanoscale communication which is essential for enabling IoNT.  ...  The nanoscale communication paradigms and the different approaches are discussed for nanodevices development.  ...  in conventional communication networks and new communication paradigm for nanodevices network. Gateway Gateway facilitates the remote connection of the entire system over the Internet.  ... 
arXiv:1809.08914v1 fatcat:xhitavus4fghveossukyn6bfy4

Roadmap on semiconductor–cell biointerfaces

Bozhi Tian, Shuai Xu, John A Rogers, Stefano Cestellos-Blanco, Peidong Yang, João L Carvalho-de-Souza, Francisco Bezanilla, Jia Liu, Zhenan Bao, Martin Hjort, Yuhong Cao, Nicholas Melosh (+13 others)
2018 Physical Biology  
electronic, optoelectronic, and mechanical devices for biointerfaces.  ...  This roadmap outlines the role semiconductor-based materials play in understanding the complex biophysical dynamics at multiple length scales, as well as the design and implementation of nextgeneration  ...  Acknowledgments The authors acknowledge NSF STTR 1549696, and the Joint Institute for Metrology in Biology (JIMB).  ... 
doi:10.1088/1478-3975/aa9f34 pmid:29205173 fatcat:oxuwox6bnfe7xnxj47o4zfhe6i
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