Premium
Ultraconserved elements show utility in phylogenetic inference of A dephaga ( C oleoptera) and suggest paraphyly of ‘Hydradephaga’
Author(s) -
BACA STEPHEN M.,
ALEXANDER ALANA,
GUSTAFSON GREY T.,
SHORT ANDREW E. Z.
Publication year - 2017
Publication title -
systematic entomology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.552
H-Index - 66
eISSN - 1365-3113
pISSN - 0307-6970
DOI - 10.1111/syen.12244
Subject(s) - paraphyly , biology , monophyly , coalescent theory , phylogenetic tree , outgroup , sister group , phylogenetics , evolutionary biology , inference , tree (set theory) , zoology , paleontology , genetics , combinatorics , clade , gene , computer science , artificial intelligence , mathematics
The beetle suborder A dephaga has been the subject of many phylogenetic reconstructions utilizing a variety of data sources and inference methods. However, no strong consensus has yet emerged on the relationships among major adephagan lineages. Ultraconserved elements ( UCEs ) have proved useful for inferring difficult or unresolved phylogenies at varying timescales in vertebrates, arachnids and H ymenoptera. Recently, a UCE bait set was developed for C oleoptera using polyphagan genomes and a member of the order S trepsiptera as an outgroup. Here, we examine the utility of UCEs for reconstructing the phylogeny of adephagan families, in the first in vitro application a UCE bait set in C oleoptera. Our final dataset included 305 UCE loci for 18 representatives of all adephagan families except A spidytidae, and two polyphagan outgroups, with a total concatenated length of 83 547 bp. We inferred trees using maximum likelihood analyses of the concatenated UCE alignment and coalescent species tree methods ( astral ii , ASTRID , svdquartets ). Although the coalescent species tree methods had poor resolution and weak support, concatenated analyses produced well‐resolved, highly supported trees. Hydradephaga was recovered as paraphyletic, with G yrinidae sister to G eadephaga and all other adephagans. Haliplidae was recovered as sister to D ytiscoidea, with H ygrobiidae and A mphizoidae successive sisters to D ytiscidae. Finally, N oteridae was recovered as monophyletic and sister to M eruidae. Given the success of UCE data for resolving phylogenetic relationships within A dephaga, we suggest the potential for further resolution of relationships within A dephaga using UCEs with improved taxon sampling, and by developing Adephaga‐specific probes.