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Novel Sequence Discovery by Subtractive Genomics
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Next-Generation Sequencing Accelerates Crop Gene Discovery.

Khanh Le Nguyen1, Alexandre Grondin2, Brigitte Courtois3

  • 1Université de Montpellier, Institut de Recherche pour le Développement, UMR DIADE, 911 Avenue Agropolis, 34394 Montpellier cedex 5, France; LMI RICE 2, AGI, Km2 Pham Van Dong, Tu Liem, Hanoi, Vietnam.

Trends in Plant Science
|December 22, 2018
PubMed
Summary
This summary is machine-generated.

Next-generation sequencing (NGS) accelerates the identification of genes for crop traits. This review details how NGS enhances quantitative trait loci (QTL) mapping and gene discovery using advanced genetic approaches.

Keywords:
bulk-segregant analysiscandidate genecropsgeneticsnext-generation sequencingquantitative trait loci

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Area of Science:

  • Plant genetics and genomics
  • Agricultural science
  • Molecular biology

Background:

  • Identifying genes for crop traits is crucial for agricultural improvement.
  • Traditional methods for gene identification are often time-consuming and lack resolution.
  • Next-generation sequencing (NGS) technologies have revolutionized genetic analysis.

Purpose of the Study:

  • To review how NGS technologies accelerate the identification and isolation of genes underlying quantitative trait loci (QTLs) in crops.
  • To illustrate the application of NGS in various genetic approaches for gene discovery.
  • To discuss examples of QTLs/genes identified using NGS-based strategies.

Main Methods:

  • Utilizing next-generation sequencing (NGS) for whole-genome sequencing (WGS) and whole-genome resequencing (WGR).
  • Applying RNA-sequencing (RNA-seq) for gene expression analysis.
  • Employing enhanced genetic approaches like bulk-segregant analysis (BSA) and polymorphism database construction.

Main Results:

  • NGS provides higher marker density, improving QTL position resolution.
  • NGS facilitates the determination of functional causative variations in genes.
  • NGS-based strategies significantly boost the efficiency of QTL and causative gene detection.

Conclusions:

  • NGS technologies are pivotal in accelerating the discovery of genes associated with important agronomic traits in crops.
  • Advanced genetic strategies combined with NGS offer powerful tools for crop genetic improvement.
  • This review highlights the impact of NGS on modern plant genetics research.