Molecular Analyses of Microbial Activities Involved in Bioremediation

Shah, Varun; Jain, Kunal; Desai, Chirayu; Madamwar, Datta

doi:10.1007/978-94-007-2229-3_11

Cited by 4 publications

(3 citation statements)

References 104 publications

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“…Biodegradative oxygenases are the main focus of OxDBases because of their importance in the degradation of persistent organic molecules. OxDBase is a powerful tool applicable to bioremediation studies, providing knowledge of oxygenases-catalyzed reactions and aiding in the understanding of degradation processes involved in bioremediation [81,82]. Biodegradation gene sequences and data on their transcription and regulation can be found in Bionemo [76].…”

Section: Biodegradation Networkmentioning

confidence: 99%

Advanced Bioremediation Strategies for Organophosphorus Compounds

Sharma,

Pandit

2023

Microbiol. Biotechnol. Lett.

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Approximately 45 percent of the world's pesticides are organophosphates, which are extremely harmful to the soil and water ecology. Over 200,000 fatalities per year are attributed to approximately 140 different varieties of organophosphate insecticides used worldwide.Pesticides can be detected in the environment using several different techniques, including capillary electrophoresis, gas chromatography, liquid chromatography, bioassays, and immunoassays [5−7]. The food supply, from the farm to the table, is contaminated with pesticides. Pesticide contamination has been reported in various foods, including fruit juices, milk, and seaweeds [8]. The elimination of these chemical compounds poses an enormous ecological challenge to the sustainability of life on Earth. Long-term exposure to pesticides, either orally or topically, poses a threat to human health and can result in ailments linked to metabolic, growth, and developmental issues as well as cancer in humans. Several mechanisms, such as oxidation, reduction, isomerization, conjugation, hydrolysis, hydration, dehalogenation, methylation, and cyclization, have been reported to contribute to the physical, chemical, and biological degradation of pesticides. Bioremediation is used more often to deal with pollution because of recent developments in gene editing, systems biology, and omics technology. With the help of systems biology, we can learn more about microbial communities and how they adapt to various settings, even the most hostile ones. In addition, this review discusses gene editing methods, such as CRISPR Cas, TALEN, and ZFNs, all of which have the potential to enable the creation of a design microbe that has a functional gene of interest for the degradation of recalcitrant pesticides and further enhance bioremediation.

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Section: Biodegradation Networkmentioning

confidence: 99%

Advanced Bioremediation Strategies for Organophosphorus Compounds

Sharma,

Pandit

2023

Microbiol. Biotechnol. Lett.

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“…Bioconversion and biodegradation of persistent and toxic xenobiotics (Desai et al, 2010;Bao et al, 2017) compounds catalyzed by oxygenases decrease the compound sustainability and toxicity in the environment (Kües, 2015;Kondo, 2017). Therefore, OxDBase is very helpful in acknowledging the degradation processes involved in bioremediation (Shah et al, 2012). The transcriptional characterization of genes responsible for the biodegradation and biodissimilation of a particular compound has great significance in proposing molecular methodologies.…”

Section: Metabolic Reconstruction For Designing Synthetic Modelsmentioning

confidence: 99%

Alternative Strategies for Microbial Remediation of Pollutants via Synthetic Biology

2020

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Continuous contamination of the environment with xenobiotics and related recalcitrant compounds has emerged as a serious pollution threat. Bioremediation is the key to eliminating persistent contaminants from the environment. Traditional bioremediation processes show limitations, therefore it is necessary to discover new bioremediation technologies for better results. 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 models of microbial bioremediation. Moreover, cell coordination in synthetic microbial community, cell signaling, and quorum sensing as engineered for enhanced bioremediation strategies are described, along with promising gene editing tools for obtaining the host with target gene sequences responsible for the degradation of recalcitrant compounds. The synthetic genetic circuit and two-component regulatory system (TCRS)-based microbial biosensors for detection and bioremediation are also briefly explained. These developments are expected to increase the efficiency of bioremediation strategies for best results.

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“…Oxidation is responsible for aromatic ring cleavage breaking down the persistent organic compounds of xeno pesticides (Westcott and Cessna, 2018). OxDBase database also aids the biodegradation network by providing information of oxygenase catalyzed reactions (Shah et al, 2012). Biodegradation and bioconversion of recalcitrant compounds by oxygenases make the bioremediation possible (Sharma et al, 2018).…”

Section: Keys Of Systems Biologymentioning

confidence: 99%

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

2019

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Bioremediation is the degradation potential of microorganisms to dissimilate the complex chemical compounds from the surrounding environment. 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. The significant keys of system biology are biodegradation network, computational biology, and omics approaches. Biodegradation network consists of all the databases and datasets which aid in assisting the degradation and deterioration potential of microorganisms for bioremediation processes. This review deciphers the bio-degradation network, i.e., the databases and datasets (UM-BBD, PAN, PTID, etc.) aiding in assisting the degradation and deterioration potential of microorganisms for bioremediation processes, computational biology and multi omics approaches like metagenomics, genomics, transcriptomics, proteomics, and metabolomics for the efficient functional gene mining and their validation for bioremediation experiments. Besides, the present review also describes the gene editing tools like CRISPR Cas, TALEN, and ZFNs which can possibly make design microbe with functional gene of interest for degradation of particular recalcitrant for improved bioremediation.

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Molecular Analyses of Microbial Activities Involved in Bioremediation

Cited by 4 publications

References 104 publications

Advanced Bioremediation Strategies for Organophosphorus Compounds

Advanced Bioremediation Strategies for Organophosphorus Compounds

Alternative Strategies for Microbial Remediation of Pollutants via Synthetic Biology

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

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