Probe Density Research Articles

Collective behaviour in proton number fluctuations seen in [formula omitted] 2.4 GeV Au+Au collisions

At energies of a few GeV per nucleon, nuclear collisions exhibit phenomena more complex than the individualistic nucleon interactions observed at much higher energies. From recent results on proton number fluctuations in Au+Au collisions at sNN=2.4 GeV obtained by the HADES experiment at GSI, we suggest that measuring the multiplicity distributions heavy-ion collisions can be used to probe density fluctuations associated with correlation phenomena. Using the combinant analysis, we demonstrate that the proton multiplicity distributions can be described by a compound Poisson-binomial distribution, suggesting the formation of clusters as a possible mechanism of such proton number fluctuations.

The Study of Sensing Elements Parameters Optimization for Developed Biosensor of SARS-CoV-2 Detection

New advancements in developing sensitive and selective biosensors have demonstrated outstanding potential for Deoxyribonucleic Acid (DNA biosensors). The detection mode of DNA biosensors primary depends on a particular DNA hybridization that precisely occurs on the surface of the physical transducer that can only be detected using high-performance assays due to slight current changes. The analytical performance (sensitivity) of the DNA biosensor is conclusively rely on the confluence constructing of the sensing surface, which must be optimized. Thus, in this study, the sensing elements of the developed biosensors were optimized for detecting RNA of SARS-CoV-2. This optimization included concentration of nanomaterials (carbon quantum dots), probe density (concentration of DNA probe) and concentration of linker (APTES). It was observed that 0.15 % V/V of concentration CQD, 0.1μM of DNA probe and 36% V/V of APTES were the optimum parameters which provided their maximum response during electrical measurements and increased the sensitivity of the developed biosensor for SARS-CoV-2 detection.

Size Effects of Gold Nanoparticles on Surface Plasmon Resonance Assays for DNA Hybridization.

Recent advancements in signal amplifiers, such as biofunctionalized gold nanoparticles (AuNPs) have improved the surface plasmon resonance (SPR) performance. However, the correlation between the sizes of DNA-Au conjugates and the SPR chips remains elusive. We investigated how the size of AuNPs functioned with DNA detection probes (D-AuNPs) affect SPR signals in sandwich DNA hybridization assays. The effects of three sizes (5, 13, and 29 nm) of D-AuNPs with an equal surface probe density were systematically compared to delineate the relationship between signal amplification and steric hindrance. Sporadically adsorbed target DNA on sparse capture probe-coated chips led to a growth of signal amplification with larger D-AuNPs. In contrast, on dense capture probe-coated SPR chips, when the target DNA concentration was above 1.5 nM, the medium-sized 13-nm AuNPs displayed 1.7- and 1.3-fold enhancement factors than 5-nm and 29-nm ones, respectively. Our results indicate the steric hindrance disturbs the capture of D-AuNPs on dense target DNA-modified chips, rendering the surface density of captured D-AuNPs a determining factor of the sensor response. Alternatively, the sensor sensitivity to D-AuNP surface density is crucial on chips with sparse target DNA. These insights should stimulate and guide future research on surface functionalization toward SPR sensors and AuNPs.

Copy Number Analysis of Whole Exome Sequencing Data

Abstract Background Genetic alterations implicated in constitutional disorders range in size from single nucleotide substitutions to losses and gains of millions of bases. Whole exome sequencing (WES) captures many clinically relevant variants, but an analytic pipeline optimized for detection of small substitutions, insertions, and deletions may miss pathogenic copy number variants (CNVs). Historically, our laboratory performed separate cytogenetic tests to evaluate for larger genomic imbalances. Addition of copy number analysis to our WES pipeline could improve the assay’s diagnostic yield. This study describes part of our strategy to validate copy number analysis of our constitutional whole exome sequencing data. Methods We identified 18 CNV specimens that underwent both chromosomal microarray analysis (CMA) and WES between 2017 and 2023. Variants included 13 deletions (size range 14Kb-2Mb) and 5 duplications (size range 325Kb-10Mb). The standard method of constitutional copy number analysis in our clinical laboratory is CMA using the Affymetrix Cytoscan HD Array and analysis software. CNVs identified on CMA were reviewed with reference to the Database of Genomic Variants and multiple academic hospital databases. WES was performed on an Illumina sequencing system following capture-based library enrichment with the Integrated DNA Technologies xGen Exome Research, CNV Backbone, Human mtDNA Research, and Human ID Research Panel probes. CNVs identified on WES were called using the Broad Institute’s Genomic Analysis Toolkit (GATK) with a quality score cutoff of 120. Whole exome sequencing data was visualized on the Integrative Genomics Viewer. Results 14 out of 18 CNVs reported on CMA were also detected on WES with a quality score at or above 120 (78%). This includes 10 out of 13 deletions (77%) and 3 out of 5 duplications (60%). For both deletions and duplications, the size ranges of detected variants at or above the cutoff score and undetected variants overlapped. One duplication reported on CMA was detected on WES with a quality score below 120. Visualization of whole exome sequencing data showed variation in probe density that may have affected CNV calling. Conclusions The majority of CNVs reported after CMA (14/18, 78%) were also detected on WES data using a GATK quality score cutoff of 120. The data does not suggest an association between CNV size and detection by WES, although interpretation is limited by the small number of cases. Data visualization may be required to identify some CNVs. Future steps to characterize the limitations of copy number analysis of WES data include assessments of variance in probe density and read depth across the exome. Copy number analysis of WES data from cases with normal CMA results will also be performed for assay validation.

Measurements of K-edge and L-edge extended x-ray absorption fine structure at the national ignition facility (invited).

High-energy-density laser facilities and advances in dynamic compression techniques have expanded access to material states in the Terapascal regime relevant to inertial confinement fusion, planetary science, and geophysics. However, experimentally determining the material temperature in these extreme conditions has remained a difficult challenge. Extended X-ray Absorption Fine Structure (EXAFS), referring to the modulations in x-ray absorption above an absorption edge from photoelectrons' interactions with neighboring atoms, has proven to be a versatile and robust technique for probing material temperature and density for mid-to-high Z elements under dynamic compression. The current platform at the National Ignition Facility has developed six configurations for EXAFS measurements between 7 and 18keV for different absorption edges (Fe K, Co K, Cu K, Ta L3, Pb L3, and Zr K) using a curved-crystal spectrometer and a bright, continuum foil x-ray source. In this work, we describe the platform geometry, x-ray source performance, spectrometer resolution and throughput, design considerations, and data in ambient and dynamic-compression conditions.

A Comparison of DNA-DNA Hybridization Kinetics in Complex Media on Planar and Nanostructured Electrodes.

A comprehensive investigation into how nanostructures alter real-time DNA hybridization kinetics in both buffer and complex media and under a wide range of probe and target concentrations is currently lacking. In response, we use a real-time, wash-free, and in situ assay to study DNA hybridization kinetics by performing continuous electrochemical measurements in different media. We investigated the differences in hybridization kinetics under three regimes of probe density (low, medium, and high) and over three orders of magnitude of target concentrations (0.01-1 μM). Additionally, we compared the performance of planar and nanostructured electrodes in buffer, blood, urine, and saliva. Our experiments indicate that adding nanostructures to the transducer surface is only effective under a specific probe/target concentration regime. Additionally, we found that direct electrochemical readout is possible in the examined physiological media, with measurements in blood showing the highest and saliva showing the lowest signal magnitudes compared to buffer.

Co-doped bismuth vanadate/zinc tungstate heterojunction with dual internal electric fields for efficient photocatalytic reduction of carbon dioxide

Enhanced carriers separation on photocatalysts is crucial for improving photocatalytic activity. In this paper, the Co-doped BiVO4/ZnWO4 S-scheme heterojunctions were constructed to induce double internal electric fields (IEFs) for enhancing charges separation and transfer for efficient photocatalytic reduction of CO2. The photocatalytic CO2 reduction efficiencies of the heterojunctions were significantly enhanced as compared with the counterparts. The optimized Co-doped BiVO4/ZnWO4 exhibited the highest CO yield of 138.4 μmol·g−1·h−1, which were 86.5 and 1.4 folds of the BiVO4 and Co-doped BiVO4. Results of X-ray photoelectron spectroscopy (XPS), electron spin resonance (ESR), and work function demonstrated that charge transfer path of Co-doped BiVO4/ZnWO4 conformed to S-scheme heterojunction mechanism. The kelvin probe force microscopy (KPFM) and density functional theory (DFT) calculations of the differential charge distributions confirmed the existence of double IEFs, which accelerated carrier separation and improved CO2 adsorption and activation. In addition, in-situ Fourier transform infrared spectroscopy (ISFT-IR) revealed that HCOO− was the major intermediate during the CO2 reaction. This study provides a feasible means to develop composite photocatalysts with dual IEFs for effective photocatalytic CO2 reduction.

Enhancing the performance of porous silicon biosensors: the interplay of nanostructure design and microfluidic integration

This work presents the development and design of aptasensor employing porous silicon (PSi) Fabry‒Pérot thin films that are suitable for use as optical transducers for the detection of lactoferrin (LF), which is a protein biomarker secreted at elevated levels during gastrointestinal (GI) inflammatory disorders such as inflammatory bowel disease and chronic pancreatitis. To overcome the primary limitation associated with PSi biosensors—namely, their relatively poor sensitivity due to issues related to complex mass transfer phenomena and reaction kinetics—we employed two strategic approaches: First, we sought to optimize the porous nanostructure with respect to factors including layer thickness, pore diameter, and capture probe density. Second, we leveraged convection properties by integrating the resulting biosensor into a 3D-printed microfluidic system that also had one of two different micromixer architectures (i.e., staggered herringbone micromixers or microimpellers) embedded. We demonstrated that tailoring the PSi aptasensor significantly improved its performance, achieving a limit of detection (LOD) of 50 nM—which is >1 order of magnitude lower than that achieved using previously-developed biosensors of this type. Moreover, integration into microfluidic systems that incorporated passive and active micromixers further enhanced the aptasensor’s sensitivity, achieving an additional reduction in the LOD by yet another order of magnitude. These advancements demonstrate the potential of combining PSi-based optical transducers with microfluidic technology to create sensitive label-free biosensing platforms for the detection of GI inflammatory biomarkers.

Partially amorphization induced S-scheme charge migration in g-C3N4/Mn1.1Fe1.9O4 defective heterojunction for boosting fenton-like degradation of tetracycline under visible light

S-scheme photo-Fenton catalyst is promising in water purification, whereas its rational design and carrier transfer mechanism remain a challenge. Here, a novel defective heterojunction via combining g-C3N4 with amorphous/crystalline Mn1.1Fe1.9O4 (Mn1.1Fe1.9O4-a/c) is fabricated for the degradation of tetracycline. The rich oxygen defects introduced by partially amorphization strategy can regulate the work function of Mn1.1Fe1.9O4-a/c, and switch the charge transfer path of g-C3N4/Mn1.1Fe1.9O4 from type-II to S-scheme, which demonstrates by ultraviolet photoelectron spectroscopy, in-situ kelvin probe force microscopy and density functional theory calculations. Driven by internal electron field, photogenerated electrons can transfer from Mn1.1Fe1.9O4-a/c to g-C3N4, which accelerated the separation of photoexcited carriers and H2O2 activation. Benefiting from the accelerated redox conversion with the action of bimetallic sites, oxygen defects and electrons, the g-C3N4/Mn1.1Fe1.9O4-a/c photocatalyst achieves 94.7 % tetracycline removal within 60 min, and the normalized kinetic rate exceeds reported works by 1–2 orders of magnitude. Multiple synergistic pathways lead to more reactive oxygen species generation, which achieves efficient mineralization of tetracycline (79.9 %). This work provides a simple partially amorphization strategy to switch charge transfer pathway from type-II to S-scheme for efficient water purification.

Label-free detection of platelet-derived growth factor-BB via liquid crystal/aqueous interface functionalized using a double-stranded DNA probe

A liquid crystal (LC)-filled transmission electron microscopy (TEM) grid cell coated with cationic surfactant octyltrimethylammonium bromide (OTAB) and adsorbed with a double-stranded deoxyribonucleic acid (dsDNA) probe at the LC/aqueous interface (TEMOTAB/DNA) was utilized for the highly specific detection of platelet-derived growth factor (PDGF-BB). Upon adsorption of the OTAB-coated 4-cyano-4′-pentylbiphenyl (5CB) on the TEM grid (TEMOTAB) and subsequent adsorption of the dsDNA probe, a homeotropic orientation was observed. Subsequently, the TEMOTAB/DNA biosensor was exposed to PDGF-BB, which induced a homeotropic-to-planar configurational change in 5CB, as observed using polarized optical microscopy with crossed polarizers. The optimized adsorption density of the dsDNA probe facilitated the detection of 2.63 pg mL−1 PDGF-BB in the detection range of 5–200 pg mL−1. Remarkably, this LC-based biosensor discriminated PDGF-BB from bovine serum albumin, immunoglobulin G, hemoglobin, carcinoembryonic antigen, epidermal growth factor, PDGF-AA, and PDGF-AB. The application potential of this sensor was further demonstrated by its effective performance in detecting PDGF-BB in both human serum and synthetic urine samples. Because of its high specificity, sensitivity, and label-free detection capabilities, this biosensor has potential applications in cancer detection.

Multiplexed electrochemical nucleic acid sensor based on visible light-mediated metal-free thiol-yne click reaction for simultaneous detection of different nucleic acid targets

Simultaneous detection of multiple tumor biomarkers with a simple and low-cost assay is crucial for early cancer detection and diagnosis. Herein, we presented a low-cost and simple assay for multiplexed detection of tumor biomarkers using a spatially separated electrodes strategy. The sensor is fabricated based on a metal-free thiol-yne click reaction, which is mediated by visible light, on commercially available indium tin oxide (ITO) electrodes. Four biomarkers, including p53 DNA, Brca2 DNA, K-ras DNA, and MicroRNA-204 RNA, were used as model analytes, and the corresponding oligonucleotide probes were modified on the desired electrode units sequentially with 530 nm irradiation light in the presence of photosensitizer Eosin Y. By this visible light-mediated coupling reaction, oligonucleotide probe densities of up to 9.2 ± 0.7 × 1010 molecules/cm2 were readily obtained on the ITO electrode surface. The proposed multiplexed E-NA sensor could detect four different nucleic acid targets concurrently without crosstalk among adjacent electrodes and was also successfully applied for detecting targets in a 20% fetal calf serum sample. The detection limits for p53 DNA, Brca2 DNA, K-ras DNA, and MicroRNA-204 RNA were 0.72 nM, 0.97 nM, 2.15 nM, and 1.73 nM, respectively. The developed approach not only has a great potential for developing cost-effective biosensors on affordable substrates for nucleic acid target detection, but also be easily extended to detect other targets by modifying the specific oligonucleotide probes anchored on the electrode.

Gold nanoparticle-decorated fluorine-doped tin oxide substrate for sensitive label-free OIRD microarray chips.

Oblique incidence reflectance difference (OIRD) is an emerging technique enabling real-time and label-free detection of bio-affinity binding events on microarrays. The interfacial architecture of the microarray chip is critical to the performance of OIRD detection. In this work, a sensitive label-free OIRD microarray chip was developed by using gold nanoparticle-decorated fluorine-doped tin oxide (AuNPs-FTO) slides as a chip substrate. This AuNPs-FTO chip demonstrates ahigher signal-to-noise ratio and improved sensitivity compared to that built on FTO glass, showing a detection limit of as low as 10ngmL-1 for the model target, HRP-conjugated streptavidin. On-chip ELISA experiments and optical calculations suggest that the enhanced performance is not only due to the higher probe density enabling a high capture efficiency toward the target, but most importantly, the AuNP layer arouses optical interference to improve the intrinsic sensitivity of OIRD. This work provides an effective strategy for constructing OIRD-based microarray chips with enhanced sensitivity, and may help extend their practical applications in various fields.

Optically Triggered Emergent Mesostructures in Monolayer WS2.

The ultrahigh surface area of two-dimensional materials can drive multimodal coupling between optical, electrical, and mechanical properties that leads to emergent dynamical responses not possible in three-dimensional systems. We observed that optical excitation of the WS2 monolayer above the exciton energy creates symmetrically patterned mechanical protrusions which can be controlled by laser intensity and wavelength. This observed photostrictive behavior is attributed to lattice expansion due to the formation of polarons, which are charge carriers dressed by lattice vibrations. Scanning Kelvin probe force microscopy measurements and density functional theory calculations reveal unconventional charge transport properties such as the spatially and optical intensity-dependent conversion in the WS2 monolayer from apparent n- to p-type and the subsequent formation of effective p-n junctions at the boundaries between regions with different defect densities. The strong opto-electrical-mechanical coupling in the WS2 monolayer reveals previously unexplored properties, which can lead to new applications in optically driven ultrathin microactuators.

SERS-Based Microneedle Biosensor for In Situ and Sensitive Detection of Tyrosinase.

Tyrosinase (TYR) emerges as a key enzyme that exerts a regulatory influence on the synthesis of melanin, thereby assuming the role of a critical biomarker for the detection of melanoma. Detecting the authentic concentration of TYR in the skin remains a primary challenge. Distinguished from ex vivo detection methods, this study introduces a novel sensor platform that integrates a microneedle (MN) biosensor with surface-enhanced Raman spectroscopy (SERS) technology for the in situ detection of TYR in human skin. The platform utilized dopamine (DA)-functionalized gold nanoparticles (Au NPs) as the capturing substrate and 4-mercaptophenylboronic acid (4-MPBA)-modified silver nanoparticles (Ag NPs) acting as the SERS probe. Here, the Au NPs were functionalized with mercaptosuccinic acid (MSA) for DA capture. In the presence of TYR, DA immobilized on the MN is preferentially oxidized to dopamine quinone (DQ), a process that results in a decreased density of SERS probes on the platform. TYR concentration was detected through variations in the signal intensity emitted by the phenylboronic acid. The detection system was able to evaluate TYR concentrations within a linear range of 0.05 U/mL to 200 U/mL and showed robust anti-interference capabilities. The proposed platform, integrating MN-based in situ sensing, SERS technology, and TYR responsiveness, holds significant importance for diagnosing cutaneous melanoma.

Synergistic interfacial engineering of a S-scheme ZnO/In2S3 photocatalyst with S−O covalent bonds: A dual-functional advancement for tetracycline hydrochloride degradation and H2 evolution

Efficient interfacial charge transfer and robust interface interactions are crucial to achieve superior spatial separation of carriers and develop advanced heterogeneous photocatalysts. This study describes the synthesis of a novel S-scheme heterojunction of ZnO/In2S3, with S−O covalent bonds, achieved through a hydrothermal method. The optimized heterojunction shows exceptional photocatalytic activity, achieving a H2 generation rate of 2488 μmol g−1 h−1 and a degradation efficiency of 86 % for tetracycline hydrochloride (TCH) within 2 h. These values surpass those of In2S3 alone by 35 and 1.4 times, respectively. Various techniques, including electron spin resonance, X-ray photoelectron spectroscopy, Kelvin probe force microscopy and density functional theory calculations confirm the S-scheme heterojunction. The establishment of a chemical S−O bond between In2S3 and ZnO facilitates an atomic level interfacial pathway, enabling efficient transportation of interfacial electrons.

Calibration of Swarm Ion Density, Drift, and Effective Mass Measurements

AbstractWe calibrate the Swarm Langmuir Probe Ion Drift, Density and Effective Mass (SLIDEM) products using the Constellation Observing System for Meteorology, Ionosphere and Climate (COSMIC‐1) electron density measurements. SLIDEM combines electric current measurements from the Electric Field Instrument faceplate (situated on the ram‐facing side of the satellite) with ion admittance measurements from a spherical Langmuir probe to estimate ionospheric ion density, bulk ion drift parallel to the satellite trajectory in the polar regions, and effective ion mass at low and middle latitudes. SLIDEM processing includes an eight‐parameter empirical geometry model that expresses the corrections to the effective faceplate area and spherical probe radius arising from satellite‐plasma interactions. Validation of SLIDEM density by conjunctions with COSMIC density altitude profiles reveals systematic errors, with SLIDEM underestimating corresponding COSMIC data by around 10%. Using the same conjunctions to calibrate the SLIDEM density processor, a simple one‐parameter geometry model is obtained, which significantly reduces bias in ion density. This leads to reduced bias in the ion ram speed and in the effective mass, both of which are more consistent with empirical ionospheric models. We examined three models characterizing the variation of probe effective electrode current collection areas. Faceplate geometries are statistically indistinguishable from the physical faceplate cross section. Spherical Langmuir probe radius is effectively reduced by about 10% due to satellite‐plasma interactions. We recommend updating the SLIDEM processor to use a smaller value for the spherical probe's radius.

Molecular Compressive Force Sensor for Mapping Forces at the Cell-Substrate Interface.

Mechanical forces are crucial for biological processes such as T cell antigen recognition. A suite of molecular tension probes to measure pulling forces have been reported over the past decade; however, there are no reports of molecular probes for measuring compressive forces, representing a gap in the current mechanobiology toolbox. To address this gap, we report a molecular compression reporter using pseudostable hairpins (M-CRUSH). The design principle was based on a pseudostable DNA structure that folds in response to an external compressive force. We created a library of DNA stem-loop hairpins with varying thermodynamic stability, and then used Förster Resonance Energy Transfer (FRET) to quantify hairpin folding stability as a function of temperature and crowding. We identified an optimal pseudostable DNA hairpin highly sensitive to molecular crowding that displayed a shift in melting temperature (Tm) of 7 °C in response to a PEG crowding agent. When immobilized on surfaces, this optimized DNA hairpin showed a 29 ± 6% increase in FRET index in response to 25% w/w PEG 8K. As a proof-of-concept demonstration, we employed M-CRUSH to map the compressive forces generated by primary naïve T cells. We noted dynamic compressive forces that were highly sensitive to antigen presentation and coreceptor engagement. Importantly, mechanical forces are generated by cytoskeletal protrusions caused by acto-myosin activity. This was confirmed by treating cells with cytoskeletal inhibitors, which resulted in a lower FRET response when compared to untreated cells. Furthermore, we showed that M-CRUSH signal is dependent on probe density with greater density probes showing enhanced signal. Finally, we demonstrated that M-CRUSH probes are modular and can be applied to different cell types by displaying a compressive signal observed under human platelets. M-CRUSH offers a powerful tool to complement tension sensors and map out compressive forces in living systems.

The effect of probe density coverage on the detection of oenological tannins in Quartz Crystal Microbalance with Dissipation monitoring (QCM-D) experiments.

Polyphenols are a group of compounds found in grapes, musts, and wines. Their levels are crucial for grape ripening, proper must fermentation, and final wine characteristics. Standard chemical analysis is commonly used to detect these compounds, but it is costly, time-consuming, and requires specialized laboratories and operators. To address this, this study explores a functionalized acoustic sensor for detecting oenological polyphenols. The method involves utilizing a Quartz Crystal Microbalance with Dissipation monitoring (QCM-D) to detect the target analyte by using a gelatin-based probe layer. The sensor is functionalized by optimizing the probe coverage density to maximize its performance. This is achieved by using 12-mercaptododecanoic acid (12-MCA) to immobilize the probe onto the gold sensor surface, and dithiothreitol (DTT) as a reducing and competitive binding agent. The concentration of 12-MCA and DTT in the solutions is varied to control the probe density. QCM-D measurements demonstrates that the probe density can be effectively adjusted using this approach, ranging from 0.2×1013 molecules cm-2 to 2×1013 molecules cm-2 . This study also investigates the interaction between the probe and tannins, confirming the sensor ability to detect them. Interestingly, the lower probe coverage achieves higher detection signals when normalized to probe immobilization signals. Moreover, significant changes in mechanical properties of the functionalization layer are observed after the interaction with samples. The combination of QCM-D with gelatin functionalization holds great promise for future applications in the wine industry. It offers real-time monitoring capabilities, requires minimal sample preparation, and provides high sensitivity for quality control purposes. This article is protected by copyright. All rights reserved.

Identification of Aniline-Degrading Bacteria Using Stable Isotope Probing Technology and Prediction of Functional Genes in Aerobic Microcosms

Aniline, a vital component in various chemical industries, is known to be a hazardous persistent organic pollutant that can cause environmental pollution through its manufacturing, processing, and transportation. In this study, the microcosms were established using sediment with a history of aniline pollution as an inoculum to analyze the aniline biodegradation under aerobic conditions through stable isotope probing (SIP) and isopycnic density gradient centrifugation technology. During the degradation assay, aniline that was 13C-labeled in all six carbons was utilized to determine the phylogenetic identity of the aniline-degrading bacterial taxa that incorporate 13C into their DNA. The results revealed that aniline was completely degraded in the microcosm after 45 and 69 h respectively. The bacteria affiliated with Acinetobacter (up to 34.6 ± 6.0%), Zoogloea (up to 15.8 ± 2.2%), Comamonas (up to 2.6 ± 0.1%), and Hydrogenophaga (up to 5.1 ± 0.6%) genera, which are known to degrade aniline, were enriched in the heavy fractions (the DNA buoyant density was 1.74 mg L−1) of the 13C-aniline treatments. Moreover, some rarely reported aniline-degrading bacteria, such as Prosthecobacter (up to 16.0 ± 1.6%) and Curvibacter (up to 3.0 ± 1.6%), were found in the DNA-SIP experiment. Gene families affiliated with atd, tdn, and dan were speculated to be key genes for aniline degradation based on the abundance in functional genes and diversity in different treatments as estimated using Phylogenetic Investigation of Communities by Reconstruction of Unobserved States version 2 (PICRUSt2) and the Kyoto Encyclopedia of Genes and Genomes (KEGG). This study revealed the functional bacteria and possible degradation genes for aniline degradation in simulated polluted environments through SIP. These findings suggest that important degrading bacteria for the transformation of aniline and potential degradation pathways may be useful in the effective application of bioremediation technologies to remediate aniline-contaminated sites.

Magnetic Microbead-Based Herringbone Chip for Sensitive Detection of Human Immunodeficiency Virus.

The microfluidic chip-based nucleic acid detection method significantly improves the sensitivity since it precisely controls the microfluidic flow in microchannels. Nonetheless, significant challenges still exist in improving the detection efficiency to meet the demand for rapid detection of trace substances. This work provides a novel magnetic herringbone (M-HB) structure in a microfluidic chip, and its advantage in rapid and sensitive detection is verified by taking complementary DNA (cDNA) sequences of human immunodeficiency virus (HIV) detection as an example. The M-HB structure is designed based on controlling the magnetic field distribution in the micrometer scale and is formed by accumulation of magnetic microbeads (MMBs). Hence, M-HB is similar to a nanopore microstructure, which has a higher contact area and probe density. All of the above is conducive to improving sensitivity in microfluidic chips. The M-HB chip is stable and easy to form, which can linearly detect cDNA sequences of HIV quantitatively ranging from 1 to 20 nM with a detection limit of 0.073 nM. Compared to the traditional herringbone structure, this structure is easier to form and release by controlling the magnetic field, which is flexible and helps in further study. Results show that this chip can sensitively detect the cDNA sequences of HIV in blood samples, demonstrating that it is a powerful platform to rapidly and sensitively detect multiple nucleic acid-related viruses of infectious diseases.