Anchored enrichment dataset for true flies (order Diptera) reveals insights into the phylogeny of flower flies (family Syrphidae)

BMC Evolutionary Biology

Research Article

Scott Kelso¹  Jeffrey H. Skevington²  Andrew Donovan Young²  Emily Moriarty Lemmon³  Brian M. Wiegmann⁴  Alan R. Lemmon⁵  Gunilla Ståhls⁶  Kurt Jordaens⁷  Marc De Meyer⁷  Menno Reemer⁸  Martin Hauser⁹  Ximo Mengual^1,10  Bernhard Misof^1,11 

[1] Canadian National Collection of Insects, Arachnids and Nematodes, Agriculture and Agri-Food Canada, K.W. Neatby Building, 960 Carling Avenue, K1A 0C6, Ottawa, ON, Canada;Canadian National Collection of Insects, Arachnids and Nematodes, Agriculture and Agri-Food Canada, K.W. Neatby Building, 960 Carling Avenue, K1A 0C6, Ottawa, ON, Canada;Department of Biology, Carleton University, 1125 Colonel By Drive, K1S 5B6, Ottawa, ON, Canada;Department of Biological Science, Florida State University, P.O. Box 3064295, 319 Stadium Dr., 32306-4295, Tallahassee, FL, USA;Department of Entomology, North Carolina State University, 27695, Raleigh, NC, USA;Department of Scientific Computing, Florida State University, Dirac Science Library, 32306-4102, Tallahassee, FL, USA;Finnish Museum of Natural History, University of Helsinki, P.O.Box 17, Zoology unit, FIN-00014, Helsinki, Finland;Invertebrates Section, Royal Museum for Central Africa, Leuvensesteenweg 13, 3080, Tervuren, Belgium;Naturalis Biodiversity Center, EIS, P.O. Box 9517, 2300 RA, Leiden, The Netherlands;Plant Pest Diagnostics Branch, California Department of Food & Agriculture, 3294 Meadowview Road, 95832-1448, Sacramento, CA, USA;Zoologisches Forschungsmuseum Alexander Koenig, Leibniz Institute for Animal Biodiversity, Adenauerallee 160, D-53113, Bonn, Germany;Zoologisches Forschungsmuseum Alexander Koenig, Zentrum für molekulare Biodiversitätsforschung, Adenauerallee 160, D-53113, Bonn, Germany;

关键词: Anchored phylogenetics;    Hybrid enrichment;    Syrphinae;    Microdontinae;    Eristalinae;    Pipizinae;    Flower flies;    Hoverflies;   

DOI  :  10.1186/s12862-016-0714-0

 received in 2016-02-12, accepted in 2016-06-15,  发布年份 2016

来源: Springer

【 摘 要 】

BackgroundAnchored hybrid enrichment is a form of next-generation sequencing that uses oligonucleotide probes to target conserved regions of the genome flanked by less conserved regions in order to acquire data useful for phylogenetic inference from a broad range of taxa. Once a probe kit is developed, anchored hybrid enrichment is superior to traditional PCR-based Sanger sequencing in terms of both the amount of genomic data that can be recovered and effective cost. Due to their incredibly diverse nature, importance as pollinators, and historical instability with regard to subfamilial and tribal classification, Syrphidae (flower flies or hoverflies) are an ideal candidate for anchored hybrid enrichment-based phylogenetics, especially since recent molecular phylogenies of the syrphids using only a few markers have resulted in highly unresolved topologies. Over 6200 syrphids are currently known and uncovering their phylogeny will help us to understand how these species have diversified, providing insight into an array of ecological processes, from the development of adult mimicry, the origin of adult migration, to pollination patterns and the evolution of larval resource utilization.ResultsWe present the first use of anchored hybrid enrichment in insect phylogenetics on a dataset containing 30 flower fly species from across all four subfamilies and 11 tribes out of 15. To produce a phylogenetic hypothesis, 559 loci were sampled to produce a final dataset containing 217,702 sites. We recovered a well resolved topology with bootstrap support values that were almost universally >95 %. The subfamily Eristalinae is recovered as paraphyletic, with the strongest support for this hypothesis to date. The ant predators in the Microdontinae are sister to all other syrphids. Syrphinae and Pipizinae are monophyletic and sister to each other. Larval predation on soft-bodied hemipterans evolved only once in this family.ConclusionsAnchored hybrid enrichment was successful in producing a robustly supported phylogenetic hypothesis for the syrphids. Subfamilial reconstruction is concordant with recent phylogenetic hypotheses, but with much higher support values. With the newly designed probe kit this analysis could be rapidly expanded with further sampling, opening the door to more comprehensive analyses targeting problem areas in syrphid phylogenetics and ecology.

【 授权许可】

CC BY   
© The Author(s). 2016