Surveillance of zoonotic influenza A viruses, including highly pathogenic H5N1, has gained urgency in light of potential risks to food safety and public health.(1) Milk—particularly raw or low-pasteurized forms—has been identified as a possible transmission route for influenza A viruses originating in livestock.(2,3) However, current molecular workflows often rely on small input volumes (e.g., 25 µL) and do not account for matrix complexity, limiting sensitivity and genome coverage for sequencing-based detection.(2) To address these limitations, we developed an enhanced method for influenza A virus detection and sequencing from milk using Nanotrap® Microbiome A Particles. This workflow was tested using H1N1 influenza A virus and compared against a direct extraction method. Paired with qPCR and whole-genome sequencing, this approach offers a scalable solution to improve sensitivity and genome recovery from complex dairy matrices. In this poster, we examine whether Nanotrap Microbiome A Particles improve the detection sensitivity of the Influenza A virus from milk relative to current standard extraction methods. POSTER SKU 44XXX

The adoption of wastewater-based epidemiology (WBE) for monitoring SARS-CoV-2 has rapidly expanded worldwide, driven by strong evidence linking WBE and clinical case trends. The success of WBE for monitoring of SARS-CoV-2 prevalence in specific regions has led to a renewed interest in monitoring additional microorganisms, including yeast, such as Candida auris ( C. auris ). Transmission of Candida  species is oftentimes linked to physical contact with an infected host or through direct contact with a contaminated surface, particularly in hospitals and healthcare facilities.(1)  C. auris  has also been observed to contain genes which confer antifungal resistance,(2) leading to the further need for broad surveillance of infectivity rates due to the limited treatment options available. Detecting these microbes also presents challenges; they contain strong cell structures and are difficult to lyse using common nucleic acid extraction workflows, and their concentration in wastewater is often very low due to infection control measures in healthcare settings. Culture-based methods have proven effective for detecting and characterizing C. auris in wastewater, improving the ability to study its infectivity at the community level. POSTER SKU 44XXX

Wastewater-based epidemiology (WBE) is a powerful tool for population-level monitoring of respiratory viruses, enabling early detection of circulating pathogen strains and variant emergence.(1–3) However, sequencing viruses like influenza A and respiratory syncytial virus (RSV) from wastewater remains technically challenging due to low viral titers, fragmented RNA, and high background from environmental and host nucleic acids.(1,2) Traditional sequencing workflows often yield incomplete genomes, limiting their utility for surveillance and variant tracking.(3) To address these challenges, we applied an enrichment strategy using Nanotrap® Microbiome A Particles with a magnetic bead-based extraction, followed by virus-specific targeted sequencing workflows.(4) For influenza A, we used the NEBNext® iiMS DNA Library Prep Kit with Oxford Nanopore sequencing. For RSV, targeted amplicon generation was performed using NEBNext RSV Primers and Illumina library prep. This combined approach supports high-throughput, same-day sequencing of respiratory viruses from wastewater. POSTER SKU 44XXX

Product: Nanotrap® Protein Enrichment Affinity Kit In this study, we demonstrate that the Nanotrap® Protein Enrichment Affinity Kit (PEAK) is compatible with the Thermo Scientific™ SMART Digest™ Trypsin Kit for proteomic analysis of human plasma. APPLICATION NOTE SKU # 34XXX Lit. # PL-TN31432

In proteomics, achieving high reproducibility and deep proteome coverage is essential for confident biomarker discovery, especially when working with complex biological samples like human plasma. One of the most critical metrics for assessing reproducibility is the coefficient of variation (CV), which quantifies the consistency of protein quantification across replicate runs. Lower CVs translate to greater confidence in detected differences and reduce the number of replicates needed to achieve statistical significance, saving both time and resources.(1) In this study, we demonstrate that the Nanotrap® Protein Enrichment Affinity Kit (PEAK)—applied through both manual and semi-automated protocols—enables substantial improvements in both proteome coverage and technical reproducibility.(2,3) Compared to neat plasma processing, the Nanotrap PEAK manual and KingFisher™ Apex System protocols reduced median protein CVs from 13% to 8.4% and 2.3%, respectively. This reduction represents up to a 32-fold decrease in the number of replicates required to achieve equivalent statistical power. These results establish Nanotrap PEAK workflows as highly efficient and reproducible solutions for plasma proteomics, supporting both deep discovery and robust quantitation. APPLICATION NOTE SKU # 34XXX Lit. # PL-AN31416

In this study, we demonstrate that protein enrichment from human plasma using the Nanotrap® Protein Enrichment Affinity Kit (PEAK) can be performed using semi-automated protocols on the KingFisher™ Flex and KingFisher™ Apex Systems. TECH NOTE SKU # 34XXX Lit. # PL-TN31429

Tuberculosis (TB) remains a leading global health concern, causing approximately 1.4 million deaths annually.1 Early and accurate detection of Mycobacterium tuberculosis in complex clinical samples, such as sputum, is critical for effective diagnosis and treatment. Traditional culture methods, while highly specific, are slow and labor-intensive. Molecular approaches such as qPCR and sequencing provide faster results but are often hindered by inefficient mycobacterial recovery and the presence of inhibitors in sputum.(2) To address these limitations, we investigate the use of the Nanotrap® Microbiome B Particles. The particles are composed of a hydrogel matrix and functionalized with affinity bait molecules that capture and concentrate intact microbes from various sample matrices. We demonstrate that this approach can effectively be used to capture and concentrate Mycobacterium  directly from sputum, improving sensitivity and reducing workflow complexity. POSTER SKU 65XXX

Wastewater-based epidemiology (WBE) has emerged as a crucial tool for monitoring infectious diseases at the population level, providing early indicators of viral transmission and evolution. Influenza A viruses, known for their seasonal epidemics and pandemic potential, pose unique challenges for wastewater surveillance due to their low abundance and susceptibility to environmental degradation (1, 2). Traditional sequencing approaches for influenza A in wastewater often yield incomplete genomes due to low viral titers and matrix inhibitors, limiting their utility for public health surveillance(3).  This study presents an enhanced workflow combining Nanotrap® Microbiome A Particles for viral enrichment with the NEBNext iiMS Influenza A DNA Library Prep protocol, leveraging Oxford Nanopore sequencing for rapid whole-genome characterization. By integrating targeted cDNA synthesis and native barcoding, this approach enables same-day sequencing with improved genome coverage, offering a scalable and high-throughput solution for monitoring influenza A in wastewater. POSTER SKU 44XXX

Wastewater-based epidemiology (WBE) has become a vital tool for tracking SARS-CoV-2 outbreaks, which has led to interest in expanded pathogen tracking. Extensive research has been conducted on the persistence of human enteric viruses transmitted via the fecal-oral route in wastewater. Common targets for multi-pathogen environmental surveillance have been identified as enteric viruses, Salmonella enterica serovar Typhi, Vibrio cholerae , SARS-CoV-2, hepatitis A and E virus, and measles virus. A report from the Centers for Disease Control and Prevention (CDC) indicated 58 confirmed cases of measles in the United States in early 20244, leading to an increased need for community-based detection. Nanotrap® Microbiome Particles capture and concentrate a variety of pathogens prior to nucleic extraction and detection. Using standard Nanotrap Particle workflows, we aim to demonstrate the utility of this method to capture and concentrate Measles morbillivirus , Hepatitis A Virus (HAV), Enterovirus 71 (EV71), and Salmonella enterica from wastewater samples as a tool for bio-surveillance applications and to facilitate rapid response for potential infectious disease outbreaks.

A clinician outreach and communication report from the Centers for Disease Control and Prevention (CDC) indicated 58 confirmed cases of measles in the United States from January 1, 2024 to March 14, 2024¹. Community surveillance of measles plays a crucial role in tracking and preventing the spread of measles to unvaccinated individuals. This study aimed to determine whether the measles virus could be captured and detected in wastewater influent samples using Nanotrap® Microbiome A Particles and Nanotrap® Enhancement Reagent 3. TECHNICAL NOTE SKU 10XXX SKU 55XXX

This study evaluated the application of Nanotrap® Microbiome Particles to improve the recovery and culturing of Legionella pneumophila from tap water samples. Traditional filtration-based methods often struggle with low bacterial concentrations or require large sample volumes, limiting their utility in environmental monitoring. By spiking 35 mL tap water samples with varying concentrations of L. pneumophila , this study demonstrated that Nanotrap Microbiome Particles enabled the detection of viable bacteria at 0.1 cells/mL. In comparison, a CDC filtration method using 35 mL tap water and a 0.22 μm polycarbonate filter achieved growth only at concentrations ≥1 cell/mL. Colony Growth on BCYE Agar Plates Depicting the Results of Legionella pneumophila Detection TECHNICAL NOTE SKU 44XXX Lit. # TW-TN31414

Monitoring antimicrobial resistance (AMR) genes in agricultural environments is important for understanding and curbing the spread of resistance within ecosystems. Livestock waste, such as fecal slurry from pigs and cattle manure, often harbors AMR genes, which can be transferred to pathogenic bacteria, posing risks to both animal and human health. (1-3) Agricultural waste can also contain zoonotic pathogens like viruses and parasites, further compounding health risks. The widespread use of antibiotics in livestock contributes to the presence of resistance genes, such as tetM (tetracycline resistance) and sul2 (sulfonamide resistance), in livestock waste samples. These genes can spread to other bacteria through horizontal gene transfer, exacerbating the AMR threat. (4) Manure application on agricultural fields disseminates these genes into the soil microbiome, potentially impacting both animal and human health. (2,4) In addition to AMR genes, zoonotic pathogens in livestock waste, including viruses and parasites like Cryptosporidium and Giardia, pose significant health risks. Viral infections can lead to disease outbreaks in livestock, affecting both productivity and increasing the risk of zoonotic transmission to humans, especially those in close contact with animals. Parasites like Giardia also present direct risks to human health through contaminated water or handling infected animals. Effective detection and monitoring of these pathogens are important in preventing outbreaks and managing zoonotic transmission risks. The combined threat of AMR genes, zoonotic viruses, and parasites in livestock waste highlights the need for broad surveillance programs. These programs can guide interventions to reduce the risks associated with using livestock waste in agriculture, particularly within the One Health framework, which emphasizes the interconnectedness of human, animal, and environmental health. (1-3) Nanotrap Microbiome Particles enhance the capture and concentration of antimicrobial resistance (AMR) genes from livestock samples. APPLICATION NOTE SKU 44XXX, 65XXX, 10XXX Lit # SL-AN31391