Current Scenario on Application of Computational Tools in Biological Systems

Purohit, Hemant J.; Tikariha, Hitesh; Kalia, Vipin Chandra

doi:10.1007/978-981-10-7455-4_1

Cited by 8 publications

(5 citation statements)

References 62 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Molecular interactions of the microbial enzymes with targeted toxic compounds or heavy metals can be analyzed with the help of in silico approaches (Malla et al, 2018). Computational Biology help in understanding the in silico approaches of proteins and genes by considering a cellular system (Purohit et al, 2018). The in silico technique provides the concept of various metabolic pathways that are involved in the mechanism bioremediation of toxic metals (Liu et al, 2018).…”

Section: Computational Tool For Assessing "Ex Situ" Bioremediationmentioning

confidence: 99%

In Situ and Ex Situ Bioremediation of Heavy Metals: The Present Scenario

Paul

Jasu

Lahiri

et al. 2021

Journal of Environmental Engineering and Landscape Management

View full text Add to dashboard Cite

Enhanced population growth, rapid industrialization, urbanization and hazardous industrial practices have resulted in the development of environmental pollution in the past few decades. Heavy metals are one of those pollutants that are related to environmental and public health concerns based on their toxicity. Effective bioremediation may be accomplished through “ex situ” and “in situ” processes, based on the type and concentration of pollutants, characteristics of the site but is not limited to cost. The recent developments in artificial neural network and microbial gene editing help to improve “in situ” bioremediation of heavy metals from the polluted sites. Multi-omics approaches are adopted for the effective removal of heavy metals by various indigenous microbes. This overview introspects two major bioremediation techniques, their principles, limitations and advantages, and the new aspects of nanobiotechnology, computational biology and DNA technology to improve the scenario.

show abstract

Section: Computational Tool For Assessing "Ex Situ" Bioremediationmentioning

confidence: 99%

In Situ and Ex Situ Bioremediation of Heavy Metals: The Present Scenario

Paul

Jasu

Lahiri

et al. 2021

Journal of Environmental Engineering and Landscape Management

View full text Add to dashboard Cite

show abstract

“…These in silico approaches are helpful in the construction of contemporary enzyme based mechanisms for bioremediation (Malla et al, 2018). Computational biology is in silico approach for genes and proteins study and dealing with cell system (Purohit et al, 2018). It is feasible to perceive complex metabolic pathways of biodegradation and bioremediation by computational techniques (Liu et al, 2018).…”

Section: Keys Of Systems Biologymentioning

confidence: 99%

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

2019

View full text Add to dashboard Cite

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.

show abstract

“…Enzymes that were functionally sourced from public databases are the foundation of a wide variety of technologies. The integration of several computational techniques in silico are applicable to studies, genomics, metagenomics, metabolomics, transcriptomics, proteomics and biodegradation network pave the way for heavy metal bioremediation (VON NETZER et al, 2018;PUROHIT et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

“…The Igarapé do 40 is one of the urban streams most impacted by environmental degradation in the Brazilian Amazon region. Unregulated industrial disposal from manufacturing in the Distrito Industrial and domestic sewage are the main drivers of the high level of pollutants contaminating the wastewater stream (PUROHIT et al, 2018;MORAES et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Mining a bioremediation genetic toolbox in the novel environmental bacteria Enterobacter cloacae strain amazonensis

Carvalho,

Viana,

Astolfi

et al. 2024

CLIUM

View full text Add to dashboard Cite

The rise of environmental pollution is a threat to planetary and human health. Microbes encode a wide range of enzymes with sophisticated catalytic properties to mitigate toxic chemicals from nature. Bioprospecting environmental bacteria can be a powerful resource for improved enzymes to optimize bioremediation processes. Here, we present a promising genetic toolbox sequenced from a novel multi-resistant bacterial strain isolated from industrial wastewater and sewage-contaminated stream in the city of Manaus, Amazonas, Brazil. We report Enterobacter cloacae amazonensis as a highly heavy-metal resistant and antibiotic multi-resistant strain. Functional and comparative genomics of the E. cloacae strain amazonensis draft genome revealed the annotation of 104 genes encoding proteins involved in the metabolism of copper, cobalt, zinc, cadmium, chromium, mercury and arsenic, as well as a plethora of broad-spectrum resistant genes. As a proof of concept, we characterized a plasmid mobile element from the amazonensis strain, pEN_Amazonensis, in the model biotechnological workhorse E. coli, leading to the robust acquisition of mercury and antibiotic resistance. Here, we highlighted the potential of bioprospecting genetic novelty from environmental bacteria through comparative genomics, paving the way for a genetic toolbox for bioremediation processes.

show abstract

Current Scenario on Application of Computational Tools in Biological Systems

Cited by 8 publications

References 62 publications

In Situ and Ex Situ Bioremediation of Heavy Metals: The Present Scenario

In Situ and Ex Situ Bioremediation of Heavy Metals: The Present Scenario

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

Mining a bioremediation genetic toolbox in the novel environmental bacteria Enterobacter cloacae strain amazonensis

Contact Info

Product

Resources

About