Impact of ∼omics in the detection and validation of potential anti-infective drugs

Maldonado-Carmona, Nidia; Vázquez‐Hernández, Melissa; Chávez, Osiris Jair Patiño; Rodríguez-Luna, Stefany Daniela; Rodríguez, Omar Jiménez; Sánchez, Sergio; Ceapă, Corina Diana

doi:10.1016/j.coph.2019.02.008

Cited by 6 publications

(4 citation statements)

References 49 publications

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“…According to the results of ROS detection, we could clearly know that qCQDs did not generate ROS in the process of interaction with bacteria. Proteomics is an attractive ~omics technique that allows the identi cation of secreted active compounds, the selection of drug-targets and the elucidation of action mechanisms of drug candidates 48 . According to the comprehensive analysis of the quantitative proteomics, we further con rmed that qCQDs had different targets and pathways for generating antibacterial activity against S. aureus (gram-positive) and E. coli (gram-negative).…”

Section: Discussionmentioning

confidence: 99%

Quaternized carbon quantum dots with broad-spectrum antibacterial activity for treatment of wounds infected with mixed bacteria

Zhao

Wang

et al. 2020

Preprint

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Quaternized carbon quantum dots (qCQDs) with broad-spectrum antibacterial activity were synthesized by a simple green “one-pot” method using dimethyl diallyl ammonium chloride and glucose as reaction precursors. The qCQDs showed satisfactory antibacterial activity against both gram-positive and gram-negative bacteria. In rat models of wounds infected with mixed bacteria, qCQDs obviously restored the weight of rats, significantly reduced the death of rats from severe infection, and promoted the recovery and healing of infected wounds. Biosafety tests confirmed that qCQDs had no obvious toxic and side effects during the testing stage. The analysis of quantitative proteomics revealed that qCQDs mainly acted on the ribosomal proteins of gram-positive bacteria and significantly down-regulated the metabolization-related proteins of gram-negative bacteria. Real-time quantitative PCR verified the expression levels of genes corresponding to the proteins with significant differences expressed by the two species of bacteria after treated with qCQDs. The variation trend of the detected genes was consistent with the results of proteomics, meaning that qCQDs played the antibacterial effect on bacteria with a new antibacterial mechanism.

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Section: Discussionmentioning

confidence: 99%

Quaternized carbon quantum dots with broad-spectrum antibacterial activity for treatment of wounds infected with mixed bacteria

Zhao

Wang

et al. 2020

Preprint

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“…These technologies have proven to be a valuable source of bioactive molecules from marine fungi [ 132 , 133 , 134 ]. These techniques can be used to identify potential anti-infective drugs derived from extreme and unique environments [ 146 ]. Additionally, various aspects of the impact of genomics, transcriptomics, and proteomics have been studied in relation to black yeast [ 147 ] and have provided new directions for medical mycology such as using HTS-based approaches applied to mucormycosis caused by several fungal species belonging to the subphylum Mucoromycotina, order Mucorales, based on their genome structure, drug resistance, diagnostic development, and fungus–host interaction [ 148 ].…”

Section: Approaches In Taxonomy and Classificationmentioning

confidence: 99%

OMICS and Other Advanced Technologies in Mycological Applications

Wijayawardene,

Boonyuen,

Ranaweera

et al. 2023

JoF

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Fungi play many roles in different ecosystems. The precise identification of fungi is important in different aspects. Historically, they were identified based on morphological characteristics, but technological advancements such as polymerase chain reaction (PCR) and DNA sequencing now enable more accurate identification and taxonomy, and higher-level classifications. However, some species, referred to as “dark taxa”, lack distinct physical features that makes their identification challenging. High-throughput sequencing and metagenomics of environmental samples provide a solution to identifying new lineages of fungi. This paper discusses different approaches to taxonomy, including PCR amplification and sequencing of rDNA, multi-loci phylogenetic analyses, and the importance of various omics (large-scale molecular) techniques for understanding fungal applications. The use of proteomics, transcriptomics, metatranscriptomics, metabolomics, and interactomics provides a comprehensive understanding of fungi. These advanced technologies are critical for expanding the knowledge of the Kingdom of Fungi, including its impact on food safety and security, edible mushrooms foodomics, fungal secondary metabolites, mycotoxin-producing fungi, and biomedical and therapeutic applications, including antifungal drugs and drug resistance, and fungal omics data for novel drug development. The paper also highlights the importance of exploring fungi from extreme environments and understudied areas to identify novel lineages in the fungal dark taxa.

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“…These conditions may be a disease state or a genetic variant, or a response to a nutrient change, an exposure to a xenobiotic, or a drug treatment. Accordingly, metabolomics is useful for identifying new drug targets and understanding their MoA, and has beneficially impacted the discovery, validation and elucidation of the molecular mechanism of novel antimicrobials [34] , [35] . A chemical lead or drug candidate that inhibits enzymes, signaling pathways, transporters, or other metabolic processes is likely to cause either an accumulation or depletion of specific substrates, products, nutrients or other metabolites.…”

Section: Metabolomics In Drug Discoverymentioning

confidence: 99%

Deciphering the mechanism of action of antitubercular compounds with metabolomics

Sakallioglu

Barletta

Dussault

et al. 2021

Computational and Structural Biotechnology Journal

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Impact of ∼omics in the detection and validation of potential anti-infective drugs

Cited by 6 publications

References 49 publications

Quaternized carbon quantum dots with broad-spectrum antibacterial activity for treatment of wounds infected with mixed bacteria

Quaternized carbon quantum dots with broad-spectrum antibacterial activity for treatment of wounds infected with mixed bacteria

OMICS and Other Advanced Technologies in Mycological Applications

Deciphering the mechanism of action of antitubercular compounds with metabolomics

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