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Related Concept Videos

Next-generation Sequencing03:00

Next-generation Sequencing

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The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
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RNA-seq03:21

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
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Advanced rDNA-Based Detection of Wheat Pathogens in Grain Samples Using Next-Generation Sequencing (NGS).

Katarzyna Pieczul1, Ilona Świerczyńska1, Andrzej Wójtowicz1

  • 1Institute of Plant Protection-National Research Institute, 60-318 Poznan, Poland.

Pathogens (Basel, Switzerland)
|February 26, 2025
PubMed
Summary

High-throughput sequencing of ribosomal DNA regions in winter wheat revealed diverse fungal communities and significant contamination by pathogens like Fusarium. This method aids in precise pathogen monitoring for improved crop health management.

Keywords:
ITS1 and ITS2funginext-generation sequencing (NGS)pathogen identificationwheat

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Area of Science:

  • Phytopathology
  • Mycology
  • Genomics

Background:

  • Traditional phytopathology diagnostics have limitations.
  • High-throughput sequencing (HTS) offers precise pathogen monitoring and identification.
  • Ribosomal DNA (rDNA) regions are reliable markers for fungal classification.

Purpose of the Study:

  • To explore fungal diversity and pathogen presence in winter wheat grain samples using HTS.
  • To evaluate the utility of ITS1 and ITS2 regions for fungal profiling and pathogen detection.

Main Methods:

  • Next-generation sequencing (NGS) targeting the ITS1 and ITS2 regions of ribosomal DNA.
  • Analysis of 249,743 reads from ITS1 and 179,675 reads from ITS2.
  • Identification of operational taxonomic units (OTUs) and fungal taxa.

Main Results:

  • Identified 183 OTUs across 115 fungal taxa.
  • ITS1 analysis showed Fusarium sp. (61%) as dominant; ITS2 revealed Fusarium culmorum (47%) as most abundant, indicating significant grain contamination.
  • Detected quarantine-regulated pathogens (T. caries, T. triticoides) and other significant cereal pathogens (F. cerealis, F. poae, F. tricinctum).

Conclusions:

  • ITS1 and ITS2 regions are complementary for comprehensive fungal profiling and pathogen detection in wheat.
  • HTS targeting rDNA regions provides valuable insights for monitoring and managing fungal pathogens in cereal crops.
  • Findings highlight the potential for improved disease surveillance and risk assessment in agriculture.