Open Access

Come and gate it: DNA-capped mesoporous silica nanoparticles loaded with a dye are used to detect the common contaminate Mycoplasma in real contaminated cell-culture media without needing polymerase chain reaction (PCR) techniques, at a detection limit in the range of 70 DNA genome copies µL-1.

Microbial contamination of fuels by fungi and bacteria presents risks of corrosion and fuel system fouling. In this work, a rapid test for the determination of microbial genomic DNA from aqueous fuel extracts is presented. It combines test strips coated with polystyrene core/mesoporous silica shell particles, to the surface of which modified fluorescent molecular beacons are covalently grafted, with a smartphone detection system. In the hairpin loop, the beacons incorporate a target sequence highly conserved in all bacteria, corresponding to a fragment of the 16S ribosomal RNA gene, which is also present to a significant extent in the 18S rRNA gene of fungi, allowing for broadband microbial detection. In the developed assay, the presence of genomic DNA extracts from bacteria and fungi down to ca. 20−50 μg L−1 induced a distinct fluorescence response. The optical read-out was adapted for on-site monitoring by combining a 3D-printed case with a conventional smartphone, taking advantage of the sensitivity of contemporary complementary metal oxide semiconductor (CMOS) detectors. Such an embedded assembly allowed to detect microbial genomic DNA in aqueous extracts down to ca. 0.2−0.7 mg L−1 and presents an important step toward the on-site uncovering of fuel contamination in a rapid and simple fashion.

A novel mesoporous silica material containing boron–dipyrromethene (BODIPY) moieties (I) is employed for the detection of nerve agent simulants (NASs) and the organophosphate nerve or chemical warfare agents (CWAs) Sarin (GB), Soman (GD), and Tabun (GA) in aqueous environments. The reactive BODIPY dye with an optimum positioned hydroxyl group undergoes acylation reactions with phosph(on)ate substrates, yielding a bicyclic ring. Due to aggregation of the dyes in water, the sensitivity of the free dye in solution is very low. Only after immobilization of the BODIPY moieties into the silica substrates is aggregation inhibited and a sensitive determination of the NASs diethyl cyanophosphonate (DCNP), diethyl chlorophosphate (DCP) and diisopropyl fluorophosphate (DFP) possible. The signaling mode is a strong quenching of the fluorescence, reaching LODs in the pM range. The best performing hybrid material was singled out from a library of hybrid silicas varying in morphology and surface functionalization. The response to actual CWAs such as GB, GD, and GA has also been tested, offering similar behavior as for the simulants. The proposed reaction mechanism has been verified by investigation of other model materials, containing for instance BODIPY moieties without an optimum hydroxyl group (III) or a BODIPY dye with an all-aliphatic counterpart (IV). The latter can only form a monocyclic reaction product, showing much less reactivity as I. Assays with other possible competitors have been additionally carried out, showing favorably low cross-reactivities. Finally, the determination of NASs in several natural waters has been demonstrated.

Functional core/shell particles are highly sought after in analytical chemistry, especially in methods suitable for single-particle analysis such as flow cytometry because they allow for facile multiplexed detection of several analytes in a single run. Aiming to develop a powerful bead platform of which the core particle can be doped in a straightforward manner while the shell offers the highest possible sensitivity when functionalized with (bio)chemical binders, polystyrene particles were coated with different kinds of mesoporous silica shells in a convergent growth approach. Mesoporous shells allow us to obtain distinctly higher surface areas in comparison with conventional nonporous shells. While assessing the potential of narrow- as well as wide-pore silicas such as Mobil composition of matter no. 41 (MCM-41) and Santa Barbara amorphous material no. 15 (SBA-15), especially the synthesis of the latter shells that are much more suitable for biomolecule anchoring was optimized by altering the pH and both, the amount and type of the mediator salt. Our studies showed that the best performing material resulted from a synthesis using neutral conditions and MgSO4 as an ionic mediator. The analytical potential of the particles was investigated in flow cytometric DNA assays after their respective functionalization for individual and multiplexed detection of short oligonucleotide strands. These experiments revealed that a two-step modification of the silica surface with amino silane and succinic anhydride prior to coupling of an amino-terminated capture DNA (c-DNA) strand is superior to coupling carboxylic acid-terminated c-DNA to aminated core/shell particles, yielding limits of detection (LOD) down to 5 pM for a hybridization assay, using labeled complementary single-stranded target DNA (t-DNA) 15mers. The potential of the use of the particles in multiplexed analysis was shown with the aid of dye-doped core particles carrying a respective SBA-15 shell. Characteristic genomic sequences of human papillomaviruses (HPV) were chosen as the t-DNA analytes here, since their high relevance as carcinogens and the high number of different pathogens is a relevant model case. The title particles showed a promising performance and allowed us to unequivocally detect the different high- and low-risk HPV types in a single experimental run.