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Related Experiment Video

Updated: Jan 7, 2026

An Array-based Comparative Genomic Hybridization Platform for Efficient Detection of Copy Number Variations in Fast Neutron-induced Medicago truncatula Mutants

An Array-based Comparative Genomic Hybridization Platform for Efficient Detection of Copy Number Variations in Fast Neutron-induced Medicago truncatula Mutants

Published on: November 8, 2017

CAPS-Based SNP Genotyping for Nitrogen-Response Phenotypes in Maize Hybrids.

Jannis Jacobs^1,2, Linsey Newton^2,3, Brian McSpadden Gardener⁴

¹Department of Biochemistry & Molecular Biology, Michigan State University, East Lansing, MI, USA.

|December 26, 2025

Summary

A new method identifies genetic markers for maize yield response to nitrogen fertilizer. This approach uses genome-wide association studies and molecular assays to predict nitrogen response, optimizing fertilizer use.

Keywords:

CAPS GWAS Genotyping Maize Marker-assisted selection Nitrogen SNP

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Last Updated: Jan 7, 2026

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Area of Science:

Agricultural Science
Genetics
Plant Breeding

Background:

Optimizing nitrogen (N) fertilizer application in maize is crucial for yield and environmental sustainability.
Identifying genetic markers for N-responsive maize hybrids is essential for targeted breeding and efficient N management.

Purpose of the Study:

To develop and detail a methodology for identifying genetic markers associated with maize yield response to nitrogen fertilizer.
To create robust molecular assays for predicting N-response in diverse maize germplasm.

Main Methods:

Utilized an in silico workflow to identify high-priority single-nucleotide polymorphism (SNP) markers from genome-wide association studies (GWAS).
Developed cleaved amplified polymorphic sequences (CAPS) and derived CAPS (dCAPS) assays for efficient genetic marker testing.

Main Results:

The study presents a detailed protocol for marker identification and assay development.
The methodology effectively identifies genetic markers for predicting nitrogen use efficiency in maize.

Conclusions:

This protocol offers a robust approach to determine N-response types in maize germplasm, including commercial varieties.
Implementation allows for more precise on-farm nitrogen application, reducing fertilizer waste and improving crop productivity.