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  • ‹ Back to SmartChip Real-Time PCR System applications
  • Antibiotic resistance genes
  • mRNA, miRNA, and lncRNA as disease biomarkers
  • Pathogen detection in human samples and food
  • Genotyping using animal and blood samples
Overviews SmartChip system introduction
Home › Learning centers › Automation systems › SmartChip Real-Time PCR System introduction › SmartChip Real-Time PCR System applications › Pathogen detection in human samples and food

SmartChip Real-Time PCR System introduction

  • High-throughput detection of SARS-CoV-2
  • SmartChip Real-Time PCR System overview
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    • Antibiotic resistance genes
      • Screening for antibiotic resistance genes in manure and sewage
      • Uncovering antibiotic resistance genes in soil, sediment, and sludge
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      • Identifying antibiotic resistance genes in water
    • mRNA, miRNA, and lncRNA as disease biomarkers
    • Pathogen detection in human samples and food
    • Genotyping using animal and blood samples
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Overviews SmartChip system introduction

Pathogen detection in patients and food

The ability to monitor and detect viral, bacterial, and fungal pathogens in a variety of samples, including human and agricultural, is critical. An ideal workflow would be able to rapidly profile a high number of targets in multiple samples with precision and reproducibility. As such, research into utilizing high-throughput qPCR has emerged as a potential improved methodology for pathogen detection.

One area where the SmartChip Real-Time PCR System has been utilized is for quick and accurate identification of microorganisms causing imbalance in Bacterial Vaginosis (BV). BV is of critical importance for women's health research laboratories, as BV affects over 21 million women in the United States annually. While the specific causes of BV are unknown, identifying microorganisms in samples can lead to a deeper understanding of the disease. We developed a panel that has been utilized by BV researchers to aid in these efforts. The BV panel contains three controls and identifies 19 different pathogens utilizing high-throughput qPCR analysis (Table I).

BV panel targets
Atopobium vaginae Mobiluncus curtisii
Bacteroides fragilis Mobiluncus mulieris
Candida albicans Mycoplasma genitalium
Candida glabrata Mycoplasma hominis
Candida krusei Neisseria gonorrhoeae
Candida parapsilosis Prevotella bivia
Candida tropicalis Trichomonas vaginalis
Chlamydia trachomatis Ureaplasma urealyticum
Gardnerella vaginalis Human albumin (control)
HSV1 RNaseP (control)
HSV2 Β-globulin (control)

Table I. The BV panel identifies 19 microorganisms covering bacterial, yeast, protozoan, fungal, and viral pathogens and includes three internal positive controls.

The power of using the BV panel on the SmartChip system is in the ability screen 144 samples across all 22 assays with just 30 minutes of hands-on time, in ~six hours of total run time. Utilizing the full SmartChip system's output, researchers can analyze up to 432 samples in a single day. Thus, the SmartChip system enables a simple, reproducible workflow that provides sensitive, specific, and accurate identification of microorganisms in a high-throughput platform that decreases the cost per sample.


Another research area that has utilized the SmartChip Real-Time PCR System's strengths is fungal detection in crops. A large majority of the crops grown as part of the food supply in North America (NA) are susceptible to various fungal diseases that can devastate production by lowering yield and grain quality. Fusarium head blight (FHB) is one such fungal disease that has been studied extensively with the SmartChip system. FHB can infect a wide variety of crops, including wheat, barley, corn, and oats. Despite being first identified in the late nineteenth century, FHB first started appearing in NA during the mid-twentieth century and has continued to slowly expand. FHB is typically spread via wind and planting of infected seeds following periods of heavy rainfall in affected areas. Thus, it is critical to accurately identify and monitor FHB in a large number of samples to determine where it is currently present and also prevent rapid expansion into other regions.

FHB is caused by four species of fungus: Fusarium graminearum, Fusarium culmorum, Fusarium avenaceum, and Fusarium crookwellense. In some cases, infection can be detected visually. However, visual inspection can be an inefficient and time-consuming method for monitoring FHB. Furthermore, FHB may not be visible until late stages of infectivity, a point at which it is too late to prevent the spread to other nearby crops. Thus, high-throughput qPCR is an amenable solution to rapid and sensitive detection of FHB in a large number of crop samples. The SmartChip system has specifically allowed the assaying of a wide range of fungal species in multiple samples to further increase throughput and speed up analysis for FHB research groups.

hands holding wheat


SmartChip Real-Time PCR System

High-throughput real-time PCR

Where throughput meets flexibility

Real-time PCR (qPCR) is a powerful technique for genotyping and gene expression analysis. Currently, qPCR experiments are becoming increasingly complex—involving an expansive and growing list of targets from a larger number of samples, all with more technical replicates. The SmartChip Real-Time PCR System is a complete high-throughput solution that enables an unrivaled amount of flexible assay and sample formats, allowing researchers to seamlessly switch between dispensing assay reagents and samples into blank chips, or dispensing samples into custom, preprinted chips without the need for revalidation.

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Takara Bio USA, Inc. provides kits, reagents, instruments, and services that help researchers explore questions about gene discovery, regulation, and function. As a member of the Takara Bio Group, Takara Bio USA is part of a company that holds a leadership position in the global market and is committed to improving the human condition through biotechnology. Our mission is to develop high-quality innovative tools and services to accelerate discovery.

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  • Human ACE2 stable cell line
  • Viral RNA isolation
  • Viral and host sequencing
  • Vaccine development
  • CRISPR screening
  • Drug discovery
  • Immune profiling
  • Publications
  • Next-generation sequencing
  • RNA-seq
  • DNA-seq
  • Single-cell NGS automation
  • Reproductive health
  • Bioinformatics tools
  • Whole genome amplification
  • Immune profiling
  • Diagnostic solutions
  • Reproductive health
  • Real-time PCR
  • Real-time PCR kits
  • Reverse transcription prior to qPCR
  • High-throughput qPCR solutions
  • RNA extraction and analysis for real-time qPCR
  • Stem cell research
  • Media and supplements
  • Stem cells and stem cell-derived cells
  • Single-cell cloning of edited hiPS cells
  • mRNA and cDNA synthesis
  • In vitro transcription
  • cDNA synthesis kits
  • Reverse transcriptases
  • RACE kits
  • Purified cDNA & genomic DNA
  • Purified total RNA and mRNA
  • PCR
  • Most popular polymerases
  • High-yield PCR
  • High-fidelity PCR
  • GC rich PCR
  • PCR master mixes
  • Cloning
  • In-Fusion seamless cloning
  • Competent cells
  • Ligation kits
  • Restriction enzymes
  • Nucleic acid purification
  • Plasmid purification kits
  • Genomic DNA purification kits
  • DNA cleanup kits
  • RNA purification kits
  • Cell-free DNA purification kits
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  • Fluorescent proteins
  • T-cell transduction and culture
  • Tet-inducible expression systems
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  • Try BcaBEST DNA Polymerase ver.2.0
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  • Baculovirus titration kits early access program
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