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  Beyond Drosophila: resolving the rapid radiation of schizophoran flies with phylotranscriptomics

Bayless, K. M., Trautwein, M. D., Meusemann, K., Shin, S., Petersen, M., Donath, A., et al. (2021). Beyond Drosophila: resolving the rapid radiation of schizophoran flies with phylotranscriptomics. BMC Biology, 19, 23. doi:10.1186/s12915-020-00944-8.

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Item Permalink: https://hdl.handle.net/21.11116/0000-0008-0F6B-1 Version Permalink: https://hdl.handle.net/21.11116/0000-000A-2C81-3
Genre: Journal Article

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 Creators:
Bayless, Keith M1, Author
Trautwein, Michelle D1, Author
Meusemann, Karen1, Author
Shin, Seunggwan1, Author
Petersen, Malte2, Author
Donath, Alexander1, Author
Podsiadlowski, Lars1, Author
Mayer, Christoph1, Author
Niehuis, Oliver1, Author
Peters, Ralph S1, Author
Meier, Rudolf1, Author
Kutty, Sujatha Narayanan1, Author
Liu, Shanlin1, Author
Zhou, Xin1, Author
Misof, Bernhard1, Author
Yeates, David K1, Author
Wiegmann, Brian M1, Author
Affiliations:
1External Organizations, ou_persistent22              
2Department of Developmental Immunology, Max Planck Institute of Immunobiology and Epigenetics, Max Planck Society, ou_persistent22              

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Free keywords: Diptera; Drosophilidae; Phylogenomics; Tephritidae; Transcriptomes.
 Abstract: Background: The most species-rich radiation of animal life in the 66 million years following the Cretaceous extinction event is that of schizophoran flies: a third of fly diversity including Drosophila fruit fly model organisms, house flies, forensic blow flies, agricultural pest flies, and many other well and poorly known true flies. Rapid diversification has hindered previous attempts to elucidate the phylogenetic relationships among major schizophoran clades. A robust phylogenetic hypothesis for the major lineages containing these 55,000 described species would be critical to understand the processes that contributed to the diversity of these flies. We use protein encoding sequence data from transcriptomes, including 3145 genes from 70 species, representing all superfamilies, to improve the resolution of this previously intractable phylogenetic challenge.

Results: Our results support a paraphyletic acalyptrate grade including a monophyletic Calyptratae and the monophyly of half of the acalyptrate superfamilies. The primary branching framework of Schizophora is well supported for the first time, revealing the primarily parasitic Pipunculidae and Sciomyzoidea stat. rev. as successive sister groups to the remaining Schizophora. Ephydroidea, Drosophila's superfamily, is the sister group of Calyptratae. Sphaeroceroidea has modest support as the sister to all non-sciomyzoid Schizophora. We define two novel lineages corroborated by morphological traits, the 'Modified Oviscapt Clade' containing Tephritoidea, Nerioidea, and other families, and the 'Cleft Pedicel Clade' containing Calyptratae, Ephydroidea, and other families. Support values remain low among a challenging subset of lineages, including Diopsidae. The placement of these families remained uncertain in both concatenated maximum likelihood and multispecies coalescent approaches. Rogue taxon removal was effective in increasing support values compared with strategies that maximise gene coverage or minimise missing data.

Conclusions: Dividing most acalyptrate fly groups into four major lineages is supported consistently across analyses. Understanding the fundamental branching patterns of schizophoran flies provides a foundation for future comparative research on the genetics, ecology, and biocontrol.

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Language(s): eng - English
 Dates: 2021-02-08
 Publication Status: Published online
 Pages: -
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 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.1186/s12915-020-00944-8
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Title: BMC Biology
Source Genre: Journal
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Publ. Info: Berlin ; Heidelberg : Springer
Pages: - Volume / Issue: 19 Sequence Number: - Start / End Page: 23 Identifier: ISSN: 1741-7007
CoNE: https://pure.mpg.de/cone/journals/resource/111071069889000