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An Integrated Approach for Microprotein Identification and Sequence Analysis

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RNF213, a new nuclear marker for acanthomorph phylogeny.

Blaise Li¹, Agnès Dettaï, Corinne Cruaud

¹Equipe Phylogénie, UMR 7138 Systématique, Adaptation, Evolution, Département Systématique et Evolution, Muséum National d'Histoire Naturelle, 57, rue Cuvier, CP26, 75231 Paris cedex 05, France. blaise.li@normalesup.org

Molecular Phylogenetics and Evolution

|December 9, 2008

Summary

RNF213 is a reliable nuclear gene for studying acanthomorph teleostean relationships. This study confirms known clades and identifies new reliable groups within acanthomorph phylogeny using multiple nuclear markers and an improved reliability index.

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Area of Science:

Evolutionary Biology
Molecular Phylogenetics
Ichthyology

Background:

Investigating the evolutionary relationships within acanthomorph teleosteans is crucial for understanding fish diversity.
Previous molecular phylogenetic studies have identified several reliable clades, but further resolution is needed.
RNF213, a nuclear gene, has shown potential for phylogenetic studies in teleosteans.

Purpose of the Study:

To assess the suitability of the RNF213 nuclear gene for large-scale phylogenetic investigations of acanthomorph teleosteans.
To identify new reliable clades within the acanthomorph phylogeny by analyzing multiple nuclear markers.
To propose standardized names for consistently recovered clades in acanthomorph phylogenetic studies.

Main Methods:

Phylogenetic analyses were conducted using the RNF213 gene and three other independent nuclear markers.
Analyses included separate and combined datasets of the four nuclear genes.
The reliability of identified clades was assessed using an improved repetition index, adapted for incomplete taxonomic overlap.

Main Results:

The RNF213 gene successfully recovered many previously established and reliable acanthomorph clades.
Phylogenetic analyses identified several new reliable clades within the acanthomorph 'bush'.
Specific relationships were resolved, including Plesiopidae as sister to Mugiloidei, Apogonidae near Gobioidei, and the composition of clades 'H', 'E', 'X', and 'L'.

Conclusions:

RNF213 is a valuable nuclear marker for robustly resolving acanthomorph teleostean interrelationships.
The study successfully identified and named several novel, reliable clades, enhancing the understanding of acanthomorph evolution.
The improved repetition index provides a more rigorous method for assessing phylogenetic reliability in taxonomic congruence approaches.