Omics technology to study bioremediation and respective enzymes

Pandey, Anupam; Tripathi, Priyanka H.; Tripathi, Ankita; Pandey, Satish Chandra; Gangola, Saurabh

doi:10.1016/b978-0-12-818307-6.00002-0

Cited by 27 publications

(9 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Zhong et al ( 2016 ) developed a real-time fluorescence LAMP technique combined with PMA (propidium monoazide), a high-affinity photolysis DNA nucleic acid dye applied for the detection of VBNC V. parahaemolyticus . Thus, the combined use of these advanced molecular technologies with bioinformatic approaches increases understanding and brings in a new era of unrevealed soil microbial communities, as well as their associated mechanisms of biodegradation for their future applications in bioremediation ( Figure 3 ; Mocalli and Benedetti, 2010 ; Kumar et al, 2016 ; Dangi et al, 2018 ; Pandey et al, 2019 ; Pinu et al, 2019 ).…”

Section: Recent Advanced Technologies Employed In Bioremediation For mentioning

confidence: 99%

Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities

Mishra

Lin

Pang

et al. 2021

Front. Bioeng. Biotechnol.

179

View full text Add to dashboard Cite

Global environmental contamination with a complex mixture of xenobiotics has become a major environmental issue worldwide. Many xenobiotic compounds severely impact the environment due to their high toxicity, prolonged persistence, and limited biodegradability. Microbial-assisted degradation of xenobiotic compounds is considered to be the most effective and beneficial approach. Microorganisms have remarkable catabolic potential, with genes, enzymes, and degradation pathways implicated in the process of biodegradation. A number of microbes, including Alcaligenes, Cellulosimicrobium, Microbacterium, Micrococcus, Methanospirillum, Aeromonas, Sphingobium, Flavobacterium, Rhodococcus, Aspergillus, Penecillium, Trichoderma, Streptomyces, Rhodotorula, Candida, and Aureobasidium, have been isolated and characterized, and have shown exceptional biodegradation potential for a variety of xenobiotic contaminants from soil/water environments. Microorganisms potentially utilize xenobiotic contaminants as carbon or nitrogen sources to sustain their growth and metabolic activities. Diverse microbial populations survive in harsh contaminated environments, exhibiting a significant biodegradation potential to degrade and transform pollutants. However, the study of such microbial populations requires a more advanced and multifaceted approach. Currently, multiple advanced approaches, including metagenomics, proteomics, transcriptomics, and metabolomics, are successfully employed for the characterization of pollutant-degrading microorganisms, their metabolic machinery, novel proteins, and catabolic genes involved in the degradation process. These technologies are highly sophisticated, and efficient for obtaining information about the genetic diversity and community structures of microorganisms. Advanced molecular technologies used for the characterization of complex microbial communities give an in-depth understanding of their structural and functional aspects, and help to resolve issues related to the biodegradation potential of microorganisms. This review article discusses the biodegradation potential of microorganisms and provides insights into recent advances and omics approaches employed for the specific characterization of xenobiotic-degrading microorganisms from contaminated environments.

show abstract

Section: Recent Advanced Technologies Employed In Bioremediation For mentioning

confidence: 99%

Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities

Mishra

Lin

Pang

et al. 2021

Front. Bioeng. Biotechnol.

179

View full text Add to dashboard Cite

show abstract

“…Zhong et al (2016) developed a real-time fluorescence LAMP technique combined with PMA (propidium monoazide), a high-affinity photolysis DNA nucleic acid dye applied for the detection of VBNC V. parahaemolyticus. Thus, the combined use of these advanced molecular technologies with bioinformatic approaches increases understanding and brings in a new era of unrevealed soil microbial communities, as well as their associated mechanisms of biodegradation for their future applications in bioremediation (Figure 3; Mocalli and Benedetti, 2010;Kumar et al, 2016;Dangi et al, 2018;Pandey et al, 2019;Pinu et al, 2019).…”

Section: Recent Advanced Technologies Employed In Bioremediation For ...mentioning

confidence: 99%

Advanced Bioremediation Technologies and Processes for the Treatment of Synthetic Organic Compounds (SOCs)

2021

Frontiers Research Topics

View full text Add to dashboard Cite

HAL is a multi-disciplinary open access archive for the deposit and dissemination of scientific research documents, whether they are published or not. The documents may come from teaching and research institutions in France or abroad, or from public or private research centers. L'archive ouverte pluridisciplinaire HAL, est destinée au dépôt et à la diffusion de documents scientifiques de niveau recherche, publiés ou non, émanant des établissements d'enseignement et de recherche français ou étrangers, des laboratoires publics ou privés.

show abstract

“…In HT, metabolomics can provide a deeper understanding of HT pathophysiology and how the disease affects small intra and extracellular metabolites. This approach could improve our understanding of disease phenotypes, aid in discovering new biomarkers for disease diagnosis and progression, identify novel therapeutic targets, and enable appropriate treatments and proper monitoring ( 13 ). The metabolic disturbances associated with HT are poorly understood.…”

Section: Introductionmentioning

confidence: 99%

The metabolomics approach revealed a distinctive metabolomics pattern associated with hyperthyroidism treatment

et al. 2022

View full text Add to dashboard Cite

BackgroundHyperthyroidism is characterized by increased thyroid hormone production, which impacts various processes, including metabolism and energy expenditure. Yet, the underlying mechanism and subsequent influence of these changes are unknown. Metabolomics is a broad analytical method that enables qualitative and quantitative examination of metabolite level changes in biological systems in response to various stimuli, pathologies, or treatments.ObjectivesThis study uses untargeted metabolomics to explore the potential pathways and metabolic patterns associated with hyperthyroidism treatment.MethodsThe study consisted of 20 patients newly diagnosed with hyperthyroidism who were assessed at baseline and followed up after starting antithyroid treatment. Two blood samples were taken from each patient, pre (hyperthyroid state) and post-treatment (euthyroid state). Hyperthyroid and euthyroid states were identified based on thyroxine and thyroid-stimulating hormone levels. The metabolic alteration associated with antithyroid therapy was investigated using liquid chromatography- high-resolution mass spectrometry. The untargeted metabolomics data was analyzed using both univariate and multivariate analyses using MetaboAnalyst v5.0. The significant metabolic pattern was identified using the lab standard pipeline, which included molecular annotation in the Human Metabolome Database, LipidMap, LipidBlast, and METLIN. The identified metabolites were examined using pathway and network analyses and linked to cellular metabolism.ResultsThe results revealed a strong group separation between the pre- and post-hyperthyroidism treatment (Q2 = 0.573, R2 = 0.995), indicating significant differences in the plasma metabolome after treatment. Eighty-three mass ions were significantly dysregulated, of which 53 and 30 characteristics were up and down-regulated in the post-treatment compared to the pre-treatment group, respectively. The medium-chain acylcarnitines, octanoylcarnitine, and decanoylcarnitine, previously found to rise in hyperthyroid patients, were among the down-regulated metabolites, suggesting that their reduction could be a possible biomarker for monitoring euthyroid restoration. Kynurenine is a downregulated tryptophan metabolite, indicating that the enzyme kynurenine 3-hydroxylase, inhibited in hyperthyroidism, is back functioning. L-cystine, a cysteine dimer produced from cysteine oxidation, was among the down-regulated metabolites, and its accumulation is considered a sign of oxidative stress, which was reported to accompany hyperthyroidism; L-cystine levels dropped, this suggests that the plasma level of L-cystine can be used to monitor the progress of euthyroid state restoration.ConclusionThe plasma metabolome of patients with hyperthyroidism before and after treatments revealed differences in the abundance of several small metabolites. Our findings add to our understanding of hyperthyroidism’s altered metabolome and associated metabolic processes and shed light on acylcarnitines as a new biomarker for treatment monitoring in conjunction with thyroxine and thyroid-stimulating hormone.

show abstract

Omics technology to study bioremediation and respective enzymes

Cited by 27 publications

References 54 publications

Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities

Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities

Advanced Bioremediation Technologies and Processes for the Treatment of Synthetic Organic Compounds (SOCs)

The metabolomics approach revealed a distinctive metabolomics pattern associated with hyperthyroidism treatment

Contact Info

Product

Resources

About