Related Experiment Video
Updated: May 27, 2025
08:03
Heuristic Mining of Hierarchical Genotypes and Accessory Genome Loci in Bacterial Populations
Published on: December 7, 2021
2.0K
A New Method for Constructing High-Resolution Phylogenomic Topologies Using Core Gene-Associated MNP Markers: A Case
Fei Liu1, Zhi-Xin Cai2, Wen-Yi Kang3
1State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China.
Microbial Biotechnology
|February 20, 2025
Summary
Developing core gene-associated multiple nucleotide polymorphism (cgMNP) markers provides a robust method for accurate fungal strain identification. This novel approach enhances phylogenomic analysis and demonstrates cross-species applicability.
Area of Science:
- Fungal genomics
- Molecular biology
- Agricultural science
Background:
- Accurate fungal strain identification is crucial for understanding agronomic traits and pathogenicity.
- Traditional methods for fungal strain identification face limitations in accuracy, workload, and reproducibility.
- Existing multiple nucleotide polymorphism (MNP) markers for interspecies identification are often overly complex and species-specific.
Purpose of the Study:
- To develop a novel, high-resolution phylogenomic method for fungal strain identification.
- To establish core gene-associated multiple nucleotide polymorphism (cgMNP) markers for precise discrimination within and across fungal species.
- To overcome the limitations of traditional methods and complex MNP markers in fungal strain identification.
Main Methods:
- Identification of 84 cgMNP markers from 83 core genes using resequencing data from 213 Agaricus bisporus strains.
- Phylogenetic analysis based on cgMNP sequences and genetic distance calculations.
- Testing the transferability of cgMNP markers to additional A. bisporus strains and other fungal species (Flammulina filiformis, Saccharomyces cerevisiae).
Main Results:
- Precise identification of all 213 A. bisporus strains using the developed cgMNP markers.
- Successful transferability and application of cgMNP markers to 385 additional A. bisporus strains and other fungal species.
- High resolution and strong congruence of cgMNP markers with whole-genome data for robust fungal strain discrimination.
Conclusions:
- cgMNP markers offer a reliable and efficient method for high-resolution fungal strain identification.
- The developed cgMNP markers demonstrate significant cross-species applicability, paving the way for broader fungal research.
- This approach sets a precedent for advancing fungal phylogenomics and strain-level discrimination across diverse taxa.
Related Concept Videos
02:54Evolutionary Relationships through Genome Comparisons
5.7K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.7K
02:05Gene Evolution - Fast or Slow?
7.0K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
In contrast, regions which code...
7.0K
03:21Phylogenetic Trees
45.0K
Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
45.0K