In silico identification and construction of microbial gene clusters associated with biodegradation of xenobiotic compounds

Awasthi, Garima; Kumari, Anjani; Pant, Aditya B.; Srivastava, Prachi

doi:10.1016/j.micpath.2017.11.059

Cited by 5 publications

(3 citation statements)

References 7 publications

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“…Some in silico approaches are focusing on the identification of unknown transformation products that might be produced during biodegradation of an organic chemical. However, they are not designed to assess the biodegradation capacity of a specific community in the environment, even if in-silico approach could be used to construct artificial consortia that could bioremediate organic pollutants (Awasthi et al 2018 ). Hence, the next challenge is to translate in-silico results to the field and to use such data to predict the bioremediation potential of a community and/or environment.…”

mentioning

confidence: 99%

Potential and limitations for monitoring of pesticide biodegradation at trace concentrations in water and soil

Aldas-Vargas

Poursat

Sutton

2022

World J Microbiol Biotechnol

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Pesticides application on agricultural fields results in pesticides being released into the environment, reaching soil, surface water and groundwater. Pesticides fate and transformation in the environment depend on environmental conditions as well as physical, chemical and biological degradation processes. Monitoring pesticides biodegradation in the environment is challenging, considering that traditional indicators, such as changes in pesticides concentration or identification of pesticide metabolites, are not suitable for many pesticides in anaerobic environments. Furthermore, those indicators cannot distinguish between biotic and abiotic pesticide degradation processes. For that reason, the use of molecular tools is important to monitor pesticide biodegradation-related genes or microorganisms in the environment. The development of targeted molecular (e.g., qPCR) tools, although laborious, allowed biodegradation monitoring by targeting the presence and expression of known catabolic genes of popular pesticides. Explorative molecular tools (i.e., metagenomics & metatranscriptomics), while requiring extensive data analysis, proved to have potential for screening the biodegradation potential and activity of more than one compound at the time. The application of molecular tools developed in laboratory and validated under controlled environments, face challenges when applied in the field due to the heterogeneity in pesticides distribution as well as natural environmental differences. However, for monitoring pesticides biodegradation in the field, the use of molecular tools combined with metadata is an important tool for understanding fate and transformation of the different pesticides present in the environment. Graphical abstract

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mentioning

confidence: 99%

Potential and limitations for monitoring of pesticide biodegradation at trace concentrations in water and soil

Aldas-Vargas

Poursat

Sutton

2022

World J Microbiol Biotechnol

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“…Accumulation of cosmetic xenobiotics in algal cells found in the polluted ecosystem has been of great importance to understand their remediation potential [17]. Several years of study over the remediating property of the algal kingdom have provided strong evidence for its degradation potential against a broad range of xenobiotic compounds [18,19]. Hyperaccumulation of heavy metals and biomagnification of hazardous pollutants in soil and wastewaters are subjected to several strains of algae, which manifested the significant degradation of these pollutants [20].…”

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confidence: 99%

Algae bioprocess to deal with cosmetic chemical pollutants in natural ecosystems: A comprehensive review

et al. 2021

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Elevated demand and extensive exploitation of cosmetics in day-to-day life have hiked up its industrial productions worldwide. Organic and inorganic chemicals like parabens, phthalates, sulfates, and so forth are being applied as constituents towards the formulations, which tend to be the mainspring ecological complication due to their enduring nature and accumulation properties in various sections of the ecosystem. These cosmetic chemicals get accrued into the terrestrial and aquatic systems on account of various anthropogenic activities involving agricultural runoff, industrial discharge, and domestic effluents. Recently, the use of microbes for remediating persistent cosmetic chemicals has gained immense interest. Among different forms of the microbial community being applied as an environmental beneficiary, algae play a vital role in both terrestrial and aquatic ecosystems by their biologically beneficial metabolites and molecules, resulting in the biobenign and efficacious consequences. The use of various bacterial, fungal, and higher plant species has been studied intensely for their bioremediation elements. The bioremediating property of the algal cells through biosorption, bioassimilation, biotransformation, and biodegradation has made it favorable for the removal of persistent and toxic pollutants from the environment. However, the research investigation concerned with the bioremediation potential of the algal kingdom is limited. This review summarizes and provides updated and comprehensive insights into the potential remediation capabilities of algal species against ecologically hazardous pollutants concerning cosmetic chemicals.

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“…Some in silico approaches are focusing on the identification of unknown transformation products that might be produced during biodegradation of an organic chemical. However, they are not designed to assess the biodegradation capacity of a specific community in the environment, even if an in silico approach could be used to construct artificial consortia that could bioremediate organic pollutants (Awasthi et al, 2018). Hence, the next challenge is to translate in silico results to the field and to use such data to predict the bioremediation potential of a community and/or environment.…”

Section: Discussionmentioning

confidence: 99%

Bioremediation of pesticides: unravelling the anaerobic microbiological potential of oligotrophic drinking water aquifers

Aldas-Vargas¹

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Pesticides application, on agricultural fields, allows them to travel in the environment and reach surface water and groundwater. The fate and transformation of pesticides in the environment depend on environmental conditions as well as physical, chemical and biological degradation processes.Monitoring the biodegradation of pesticides in the environment is challenging, considering that traditional indicators, such as changes in pesticide concentration or identification of pesticide metabolites, are not suitable for many pesticides present in anaerobic environments. Furthermore, those indicators cannot distinguish between the different pesticide-degradation processes. For that reason, the use of molecular tools is important to monitor the biodegradation of pesticides in the environment. The development of targeted molecular tools, although laborious, allowed biodegradation monitoring by targeting the presence and expression of known catabolic geneencoding enzymes involved in the degradation of popular pesticides (i.e., atrazine, BAM). Explorative molecular tools (e.g., metagenomic and metatranscriptomic), while requiring extensive data analysis, proved to have potential for screening the biodegradation potential and activity of more than one compound at the time. The application of molecular tools developed in the laboratory and applied in controlled environments faces challenges in the field due to the heterogeneity in the distribution of pesticides as well as natural environmental differences. However, for monitoring the biodegradation of pesticides in the field, the use of molecular tools, combined with metadata and even in silico modeling, is the only way to understand what is the fate and transformation of the different pesticides present in the environment.

show abstract

In silico identification and construction of microbial gene clusters associated with biodegradation of xenobiotic compounds

Cited by 5 publications

References 7 publications

Potential and limitations for monitoring of pesticide biodegradation at trace concentrations in water and soil

Potential and limitations for monitoring of pesticide biodegradation at trace concentrations in water and soil

Algae bioprocess to deal with cosmetic chemical pollutants in natural ecosystems: A comprehensive review

Bioremediation of pesticides: unravelling the anaerobic microbiological potential of oligotrophic drinking water aquifers

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