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Biofilms, organic matter, iron/aluminum oxides, and clay minerals bind toxic heavy metal ions and control their fate and bioavailability in the environment. The spatial relationship of metal ions to biomacromolecules such as extracellular polymeric substances (EPS) in biofilms with microbial cells and biogenic minerals is complex and occurs at the micro- and submicrometer scale. Here, we review the application of highly selective and sensitive metal fluorescent probes for confocal laser scanning microscopy (CLSM) that were originally developed for use in life sciences and propose their suitability as a powerful tool for mapping heavy metals in environmental biofilms and cell-EPS-mineral aggregates (CEMAs). The benefit of using metal fluorescent dyes in combination with CLSM imaging over other techniques such as electron microscopy is that environmental samples can be analyzed in their natural hydrated state, avoiding artifacts such as aggregation from drying that is necessary for analytical electron microscopy. In this minireview, we present data for a group of sensitive fluorescent probes highly specific for Fe(3+), Cu(2+), Zn(2+), and Hg(2+), illustrating the potential of their application in environmental science. We evaluate their application in combination with other fluorescent probes that label constituents of CEMAs such as DNA or polysaccharides and provide selection guidelines for potential combinations of fluorescent probes. Correlation analysis of spatially resolved heavy metal distributions with EPS and biogenic minerals in their natural, hydrated state will further our understanding of the behavior of metals in environmental systems since it allows for identifying bonding sites in complex, heterogeneous systems.
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http://dx.doi.org/10.1128/AEM.02454-13 | DOI Listing |
Mikrochim Acta
September 2025
Pharmaceutical Analysis Research Center, Tabriz University of Medical Sciences, Tabriz, Iran.
Salmonella Typhimurium (S. Typhimurium) is one of the most common food-borne diseases, highlighted as the top food-borne bacterial pathogen in the world with a low infectious dose (1 CFU) and high mortality rate. It is commonly associated with numerous foods such as dairy products, protein sources (multiple types of meat, poultry, and eggs), and bakery products.
View Article and Find Full Text PDFPhotochem Photobiol Sci
September 2025
Department of Genetics and Plant Breeding, C. P. College of Agriculture, S. D. Agricultural University, Sardarkrushinagar, 385506, India.
The electromobility shift assay (EMSA) is a popular and productive molecular biology tool for studying protein-nucleic acid interactions. EMSA is a technique applied to the revelation of the binding dynamics of proteins, like transcription factors, to DNA or RNA. There are ample essential phases in the technique.
View Article and Find Full Text PDFLuminescence
September 2025
Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, Uttar Pradesh, India.
A triphenyl-imidazole end-capped donor-acceptor type potential molecular probe 3 has been designed and synthesized. Probe 3 upon interaction with different classes of metal ions/anions and NPPs displayed high selectivity with CN anion (LOD = 20.42 nM) through fluorescence "turn-Off" response and a naked-eye sensitive visible color change.
View Article and Find Full Text PDFNucleic Acids Res
September 2025
Biomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.
Supercoiled (Sc) circular DNA, such as plasmids, are essential in molecular biology and hold strong therapeutic potential. However, they are typically produced in Escherichia coli, resulting in bacterial methylations, unnecessary sequences, and contaminants that hinder certain applications including clinical uses. These limitations could be avoided by synthesizing plasmids entirely in vitro, but synthesizing high-purity Sc circular DNA biochemically remains a significant technical challenge.
View Article and Find Full Text PDFNucleic Acids Res
September 2025
Department of Chemistry and Henry Eyring Center for Cell and Genome Science, University of Utah, Salt Lake City, UT 84112, United States.
Glycine is an important metabolite and cell signal in diverse organisms, yet tools to visualize intracellular glycine dynamics have not been developed. In this study, diverse and bright RNA-based glycine biosensors were developed by fusing the architecturally complex glycine riboswitch with Broccoli class fluorogenic aptamers. The brightest sensor with the highest activation, glyS, and its two-dye ratiometric counterpart, Pepper-glyS, allowed for visualization of a drug-induced accumulation of endogenous glycine in live Escherichia colicells.
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