Journal ArticleDOI
Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa.
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TLDR
This study represents the most extensive taxonomic sampling effort to date to collect new molecular characters for phylogenetic analysis of acanthomorph fishes, with new and reliable clades emerging from this study of the acanthomorphic radiation.About:
This article is published in Molecular Phylogenetics and Evolution.The article was published on 2003-02-01. It has received 350 citations till now. The article focuses on the topics: Acanthomorpha & Zoarcoidei.read more
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Phylogenetic footprints of an Antarctic radiation: the Trematominae (Notothenioidei, Teleostei).
A.-C. Lautredou,Damien Daniel Hinsinger,Cyril Gallut,C.-H. Christina Cheng,M. Berkani,Catherine Ozouf-Costaz,Corinne Cruaud,Guillaume Lecointre,Agnès Dettai +8 more
TL;DR: It is found that several nuclear haplotypes are shared by several species (mostly in very closely related species) in the subfamily Trematominae, suggesting that a phenomenon of incomplete lineage sorting (ILS) is likely to be at play.
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Phylogeny, diversity, and species delimitation of the North American Round-Nosed Minnows (Teleostei: Dionda), as inferred from mitochondrial and nuclear DNA sequences
Susana Schönhuth,David M. Hillis,David A. Neely,Lourdes Lozano-Vilano,Anabel Perdices,Richard L. Mayden +5 more
TL;DR: A molecular survey based on four DNA regions to examine variation over the range of the genus, test species boundaries, and infer phylogenetic relationships within Dionda identified 12 distinct species in the genus.
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Tracking the elusive monophyly of nototheniid fishes (Teleostei) with multiple mitochondrial and nuclear markers
Agnès Dettai,M. Berkani,A.-C. Lautredou,Arnaud Couloux,Guillaume Lecointre,Catherine Ozouf-Costaz,Cyril Gallut +6 more
TL;DR: The role of Pleuragramma antarctica, Dissostichus species and Aethotaxis mitopteryx remains unstable and dependant on markers and analyses, so it is proposed the inclusion of the four families of the High Antarctic clade in the Nototheniidae, and their transformation into subfamilies.
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A new phylogeny of tetraodontiform fishes (Tetraodontiformes, Acanthomorpha) based on 22 loci.
TL;DR: The findings suggest that while the phylogenetic placement of some tetraodontiform lineages (triacanthids, molids) remains problematic even after sequencing 22 loci, an overall molecular consensus is beginning to emerge regarding the existence of several major clades.
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A Phylogenomic Perspective on the New Era of Ichthyology
Wei-Jen Chen,Richard L. Mayden +1 more
TL;DR: How ichthyology is changing in this new era is discussed, and how the emerging phylogenomic approach has been used to study species diversification in relation to gene and genome duplications and to resolve the complex evolutionary history of ray-finned fishes.
References
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Journal ArticleDOI
The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Naruya Saitou,Masatoshi Nei +1 more
TL;DR: The neighbor-joining method and Sattath and Tversky's method are shown to be generally better than the other methods for reconstructing phylogenetic trees from evolutionary distance data.
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Confidence limits on phylogenies: an approach using the bootstrap.
TL;DR: The recently‐developed statistical method known as the “bootstrap” can be used to place confidence intervals on phylogenies and shows significant evidence for a group if it is defined by three or more characters.
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The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.
TL;DR: ClUSTAL X is a new windows interface for the widely-used progressive multiple sequence alignment program CLUSTAL W, providing an integrated system for performing multiple sequence and profile alignments and analysing the results.
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MODELTEST: testing the model of DNA substitution.
David Posada,Keith A. Crandall +1 more
TL;DR: The program MODELTEST uses log likelihood scores to establish the model of DNA evolution that best fits the data.