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Updated: May 20, 2026

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

Inferring transcript phylogenies.

Yann Christinat1, Bernard M E Moret

  • 1Laboratory of Computational Biology and Bioinformatics, EPFL, 1015 Lausanne, Switzerland. yann.christinat@epfl.ch

BMC Bioinformatics
|July 27, 2012
PubMed
Summary
This summary is machine-generated.

Alternative splicing generates proteome diversity, but transcript evolution remains unclear. This study introduces a model and algorithm to reconstruct transcript phylogenies using gene structure, successfully applied to MAG and PAX6 genes.

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Last Updated: May 20, 2026

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

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12:00

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A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
07:09

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

Area of Science:

  • Molecular Biology
  • Evolutionary Biology
  • Bioinformatics

Background:

  • Alternative splicing is a key driver of proteome and transcriptome diversity, especially in mammals, with estimates suggesting up to 90% of human genes undergo this process.
  • While exon and intron evolution is well-studied, the evolutionary history of transcripts remains largely unknown.

Purpose of the Study:

  • To present a novel model for understanding transcript evolution.
  • To develop an algorithm for reconstructing transcript phylogenies based on gene structure.
  • To validate the feasibility and informativeness of phylogenetic analysis for transcripts.

Main Methods:

  • Development of a computational model for transcript evolution.
  • Creation of an algorithm to reconstruct transcript phylogenies utilizing exon-intron structures.
  • Application of the model and algorithm to the MAG and PAX6 genes.

Main Results:

  • The developed model and algorithm successfully reconstructed transcript phylogenies for the MAG and PAX6 genes.
  • The obtained phylogenetic results align with existing biological knowledge for these genes.
  • Demonstrated the feasibility of phylogenetic analysis for inferring transcript evolutionary history.

Conclusions:

  • The proposed model and algorithm provide a robust framework for studying transcript evolution.
  • Phylogenetic analysis of transcripts is a viable and informative approach for evolutionary studies.
  • This work opens new avenues for understanding the evolutionary dynamics of gene expression.