High-throughput Genotyping
High-throughput Genotyping - Related Videos
07:00
qPCRTag Analysis - A High Throughput, Real Time PCR Assay for Sc2.0 Genotyping
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Cited by 18 •
2015
Designer chromosomes of the Synthetic Yeast Genome project, Sc2.0, can be distinguished from their native counterparts using a PCR-based genotyping assay called PCRTagging, which has a presence/absence endpoint. Here we describe a high-throughput real time PCR detection method for PCRTag genotyping.
08:27
Mouse Genotyping
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2023
Even though the human genome was mapped over 10 years ago, scientists are still far from understanding the function of every human gene! One way to evaluate how a gene functions is to disrupt the sequence encoding it and then evaluate the impact of this change (the phenotype) on the animal’s biology. This approach is commonly used in the mouse (Mus musculus), since it shares a high degree of genetic similarity with humans. To track the animals bearing genetic changes over several generations,...
08:25
Using a Fluorescent PCR-capillary Gel Electrophoresis Technique to Genotype CRISPR/Cas9-mediated Knockout Mutants in a High-throughput Format
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Cited by 6 •
2017
The genotyping technique described here, which couples fluorescent polymerase chain reaction (PCR) to capillary gel electrophoresis, allows for high-throughput genotyping of nuclease-mediated knockout clones. It circumvents limitations faced by other genotyping techniques and is more cost effective than sequencing methods.
08:23
SNP Genotyping
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2023
Single nucleotide polymorphisms, or SNPs, are the most common form of genetic variation in humans. These differences at individual bases in the DNA often do not directly affect gene expression, but in many cases can still be useful for locating disease-associated genes or for diagnosing patients. Numerous methodologies have been established to identify, or “genotype”, SNPs.JoVE’s introduction to SNP Genotyping begins by discussing what SNPs are and how they can be used to identify...
11:15
Ice-Cap: A Method for Growing Arabidopsis and Tomato Plants in 96-well Plates for High-Throughput Genotyping
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Cited by 4 •
2011
The Ice-Cap method allows one to grow plants in 96-well plates and non-destructively harvest root tissue from each seedling. DNA extracted from this root tissue can be used for genotyping reactions. We have found that Ice-Cap works well for Arabidopsis thaliana, tomato, and rice seedlings.
FAQs
These approaches provide different ways to measure genetic markers across many samples in parallel. Multiplex PCR can examine multiple targets within a workflow, while SNP arrays and next-generation sequencing generate variant data for subsequent analysis. The choice of approach determines how the genetic measurements are produced before automated signal processing and genotype calling identify the observed marker states.
Signal processing converts raw experimental measurements into analyzable genetic information, while genotype calling assigns the detected marker state for each sample. These steps are essential because high sample capacity produces large volumes of data that require consistent interpretation. Their output creates the genotype dataset used to compare inherited differences with traits, populations, or disease-related patterns.
Parallel analysis increases the number of samples that can be examined within a study while reducing time and cost per sample. This larger scale helps researchers characterize inherited variation across groups rather than relying on a small set of observations. As a result, studies can more effectively investigate relationships between genetic markers and observable traits.
A typical workflow begins by selecting genetic markers and processing many samples with a suitable approach, such as multiplex PCR, an SNP array, or next-generation sequencing. The resulting measurements then undergo automated signal processing, followed by genotype calling. Researchers can organize the called genotypes for downstream comparisons involving traits, populations, inheritance patterns, or disease risk.
Researchers use it in genome-wide association studies to examine whether genetic variation is associated with observable traits across many samples. The workflow supplies genotype information for comparing individuals or groups at numerous markers, while large sample capacity supports broad analysis. These results can help identify relationships between inherited differences and traits of biological or disease-related interest.
In population analysis, genotype data help characterize inherited differences among groups. For linkage mapping, researchers can examine marker patterns in relation to inheritance and traits. Breeding programs can use the same type of information to evaluate genetic variation relevant to selected characteristics. These applications extend high-throughput genotyping beyond individual samples to broader studies of genetic structure and trait relationships.