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Related Experiment Video

Updated: Jan 7, 2026

A PCR-based Genotyping Method to Distinguish Between Wild-type and Ornamental Varieties of Imperata cylindrica

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Published on: February 20, 2012

RIFinder reveals widespread adaptive remote introgression in grass genomes.

Yujie Huang¹, Shiyu Zhang¹, Hanyang Lin²

¹Institute of Crop Science, Zhejiang University, Hangzhou, China.

Plant Communications

|December 7, 2025

Summary

This summary is machine-generated.

Remote introgression (RI) is a key evolutionary process in grasses, involving DNA transfer between distant species. This study introduces RIFinder, a new tool to detect RI events, revealing their role in adaptation and gene evolution.

Keywords:

adaptive evolution gene cluster phylogenetic incongruence remote introgression

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Published on: February 14, 2020

Area of Science:

Evolutionary genomics
Molecular evolution
Bioinformatics

Background:

Genetic transfers, including horizontal gene transfer (HGT), are common but remote introgression (RI) between distant species is less understood.
RI differs from canonical introgression and HGT in temporal scale and mechanisms.
Understanding RI is crucial for evolutionary genomics.

Purpose of the Study:

To develop and apply a novel phylogeny-based method, RIFinder, for detecting remote introgression (RI) events.
To investigate the prevalence and characteristics of RI in grass genomes.
To explore the functional and evolutionary implications of RI in grasses.

Main Methods:

Development of RIFinder, a phylogeny-based computational method for RI detection.
Application of RIFinder to a dataset of 122 grass genomes.
Comparative analysis of introgressed genes, donor copies, and native homologs.

Main Results:

Identified 622 RI events from 543 homologous genes across 122 grass genomes.
Pooideae showed the highest number of introgressed genes, while Bambusoideae had the fewest.
Introgressed genes are enriched in stress-response pathways and contribute to gramine biosynthesis.
Discovered a Triticeae-derived segment in Cleistogenes songorica potentially linked to drought tolerance.

Conclusions:

RI is a significant factor in grass adaptive evolution and genome diversification.
RI contributes to the evolution of stress tolerance and secondary metabolite production.
RIFinder provides a robust method for detecting RI events, advancing evolutionary genomics research.