Decisive datasets in phylogenomics : lessons from studies on the phylogenetic relationships of primarily wingless insects

Phylogenetic relationships of the primarily wingless insects are still considered unresolved. Even the most comprehensive phylogenomic studies that addressed this question did not yield congruent results. In order to get
Phylogenetic relationships of the primarily wingless insects are still considered unresolved. Even the most comprehensive phylogenomic studies that addressed this question did not yield congruent results. In order to get a grip on these problems, we here analyzed the sources of incongruence in these phylogenomic studies using an extended transcriptome dataset.Our analyses showed that unevenly distributed missing data can be severely misleading by inflating node support despite the absence of phylogenetic signal. In consequence, only decisive datasets should be used which exclusively comprise data blocks containing all taxa whose relationships are addressed. Additionally, we employed Four-cluster Likelihood-Mapping (FcLM) to measure the degree of congruence among genes of a dataset, as a measure of support alternative to bootstrap. FcLM showed incongruent signal among genes, which in our case is correlated with neither functional class assignment of these genes, nor with model misspecification due to unpartitioned analyses. The herein analyzed dataset is the currently largest dataset covering primarily wingless insects, but failed to elucidate their interordinal phylogenetic relationships. While this is unsatisfying from a phylogenetic perspective, we try to show that the analyses of structure and signal within phylogenomic data can protect us from biased phylogenetic inferences due to analytical artefacts.
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Metadaten
Author:Emiliano Dell'Ampio, Karen Meusemann, Nikolaus Urban Szucsich, Ralph S. Peters, Benjamin Meyer, Janus Borner, Malte Petersen, Andre J. Aberer, Alexandros Stamatakis, Manfred G. Walz, Bui Quang Minh, Arndt von Haeseler, Ingo Ebersberger, Günther Pass, Bernhard Misof
URN:urn:nbn:de:hebis:30:3-403478
URL:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3879454
URL:http://mbe.oxfordjournals.org/content/early/2013/10/18/molbev.mst196
DOI:http://dx.doi.org/10.1093/molbev/mst196
ISSN:0737-4038
ISSN:1537-1719
Pubmed Id:http://www.ncbi.nlm.nih.gov/pubmed?term=24140757
Parent Title (English):Molecular biology and evolution
Publisher:Oxford Univ. Press
Place of publication:Oxford
Contributor(s):Nicolas Vidal
Document Type:Article
Language:English
Date of Publication (online):2016/12/12
Date of first Publication:2013/10/18
Publishing Institution:Universitätsbibliothek Johann Christian Senckenberg
Release Date:2016/12/12
Tag:Collembola; Diplura; ESTs; Ellipura; Entognatha; Nonoculata; Protura; conflicting hypotheses; likelihood quartet mapping; missing data; phylogenomics
Volume:31
Issue:1
Pagenumber:11
First Page:239
Last Page:249
Note:
© The Author 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com 
HeBIS PPN:428649599
Institutes:Biowissenschaften
Dewey Decimal Classification:590 Tiere (Zoologie)
Sammlungen:Universitätspublikationen
Licence (German):License LogoCreative Commons - Namensnennung-Nicht kommerziell 3.0

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