Cichlid fishes have repeatedly evolved an astounding diversity of trophic morphologies. For example, hypertrophied lips have evolved multiple times in both African and Neotropical cichlids and could have even evolved convergently within single species assemblages such as African Lake Malawi cichlids. However, the extremely high diversification rate in Lake Malawi cichlids and extensive potential for hybridization has cast doubt on whether even genome-level phylogenetic reconstructions could delineate if these types of adaptations have evolved once or multiple times. To examine the evolution of this iconic trait using protein-coding and non-coding single nucleotide polymorphisms (SNPs), we analyzed the genomes of 86 Lake Malawi cichlid species, including 33 de novo resequenced genomes. Surprisingly, genome-wide protein-coding SNPs exhibited enough phylogenetic informativeness to reconstruct inter- and intra-specific relationships of hypertrophied lip cichlids, although non-coding SNPs provided better support. However, thinning of non-coding SNPs indicated most discrepancies come from the relative smaller number of protein-coding sites and not from fundamental differences in their phylogenetic informativeness. Both coding and non-coding reconstructions showed that several “sand-dwelling” hypertrophied lip species, sampled intraspecifically, form a clade interspersed with a few other non-hypertrophied lip lineages. We also recovered Abactochromis labrosus within the rock-dwelling “mbuna” lineage, starkly contrasting with the affinities of other hypertrophied lip taxa found in the largely sand-dwelling “non-mbuna” component of this radiation. Comparative analyses coupled with tests for introgression indicate there is not widespread introgression between the hypertrophied lip lineages and taken together suggest this trophic phenotype has likely evolved at least twice independently within Lake Malawi.

The microgastrine braconid wasps recovered up through 2007 by the NSF-sponsored rearing project “Caterpillars and Parasitoids of the Eastern Andes in Ecuador” are summarized in terms of their host specialization and faunistic uniqueness. Two hundred fifty eight rearings of caterpillars resulted in records of Microgastrinae, distributed among 14 genera (Apanteles Förster, Choeras Mason, Cotesia Cameron, Diolcogaster Ashmead, Distatrix Mason, Dolichogenidea Viereck, Exix Mason, Glyptapanteles Ashmead, Hypomicrogaster Ashmead, Papanteles Mason, Parapanteles Ashmead, Protapanteles Ashmead, Sathon Mason and Venanus Mason). Eleven records of hyperparasitoids of Microgastrinae are also summarized; Mesochorus Gravenhorst (Ichneumonidae) and Perilampidae are both recorded. The results are compared to those recovered by surveys in other parts of the world, especially by the Janzen-Hallwachs survey of the Area de Conservación Guanacaste (ACG) in Costa Rica. An annotated list of microgastrine genera not yet recorded at Yanayacu, but which we expect to eventually find there based on extrapolation from their known geographic distributions, is provided.

Whole genome sequences are beginning to revolutionise our understanding of phylogenetic relationships. Yet, even whole genome sequences can fail to resolve the evolutionary history of the most rapidly radiating lineages, where incomplete lineage sorting, standing genetic variation, introgression, and other factors obscure the phylogenetic history of the group. To overcome such challenges, one emerging strategy is to integrate results across different methods. Most such approaches have been implemented on reduced representation genomic datasets, but whole genomes should provide the maximum possible evidence approach. Here, we test the ability of SNPs extracted from whole genome resequencing data, implemented in an integrative genomic approach, to resolve key nodes in the phylogeny of the mbuna, rock-dwelling cichlid fishes of Lake Malaŵi, which epitomise the phylogenetic intractability that often accompanies explosive lineage diversification. This monophyletic radiation has diversified at an unparalleled rate into several hundred species in less than two million years. Using an array of phylogenomic methods, we consistently recovered four major clades of mbuna, but a large basal polytomy among them. Although introgression between clades apparently contributed to the challenge of phylogenetic reconstruction, reduction of the dataset to non-introgressed sites still did not help to resolve the basal polytomy. On the other hand, relationships among six congeneric species pairs were resolved without ambiguity, even in one case where existing data led us to predict that resolution would be difficult. We conclude that the bursts of diversification at the earliest stages of the mbuna radiation may be phylogenetically unresolvable, but other regions of the tree are phylogenetically clearly supported. Integration of multiple phylogenomic approaches will continue to increase confidence in relationships inferred from these and other whole-genome datasets.

Ambush bugs (Hemiptera: Reduviidae: Phymatinae) are sit‐and‐wait predators of flower‐visiting insects including pollinators. Broad species distribution ranges, intraspecific polymorphism, sexual dimorphism and subtle interspecific differences all contribute to making species delimitation especially difficult in this group, which is used as a model in the study of interactions between sexual dimorphism and sexual selection. Species boundaries among Nearctic ambush bugs in the common and frequently collected erosa species group (11 species, nine subspecies) have therefore remained unclear, resulting in a complex and poorly justified taxonomy. Recent molecular phylogenetic research suggested that several widespread Nearctic species are para‐ or polyphyletic. We here build on this research, integrating geometric morphometrics, molecular species delimitation approaches and host plant association data to provide a comprehensive dataset with respect to both taxon and character sampling with the goal of teasing apart evolutionary lineages of Nearctic Phymata Latreille. Although molecular‐based species delimitation analyses suggested a variety of species hypotheses, probably as a result of striking discordance between mitochondrial and nuclear ribosomal genes, the combination of these with geometric morphometric data enabled us to confidently delimit several of these problematic taxa. In addition, geometric morphometric analysis of pronotal shape revealed undocumented morphological patterns that appear to be useful in the diagnosis of many of the surveyed taxa. The results from this study provide an objective foundation for the much‐needed taxonomic revision of the most ubiquitous ambush bugs in North America.

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Invertebrate generalist predators are ubiquitous and play a major role in food‐web dynamics. Molecular gut content analysis (MGCA) has become a popular means to assess prey ranges and specificity of cryptic arthropods in the absence of direct observation. While this approach has been widely used to study predation on economically important taxa (i.e., pests) in agroecosystems, it is less frequently used to study the broader trophic interactions involving generalist predators in natural communities such as the diverse and threatened coastal sage scrub communities of Southern California. Here, we employ DNA metabarcoding‐based MGCA and survey the taxonomically and ecologically diverse prey range of Phymata pacifica Evans, a generalist flower‐associated ambush bug (Hemiptera: Reduviidae). We detected predation on a wide array of taxa including beneficial pollinators, potential pests, and other predatory arthropods. The success of this study demonstrates the utility of MGCA in natural ecosystems and can serve as a model for future diet investigations into other cryptic and underrepresented communities.

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Though the phylogenetic signal of loci on sex chromosomes can differ from those on autosomes, chromosomal-level genome assemblies for non-vertebrates are still relatively scarce and conservation of chromosomal gene content across deep phylogenetic scales has therefore remained largely unexplored. We here assemble a uniquely large and diverse set of samples (17 Anchored Hybrid Enrichment [AHE], 24 RNA-Seq, and 70 whole-genome sequencing [WGS] samples of variable depth) for the medically important assassin bugs (Reduvioidea). We assess the performance of genes based on multiple features (e.g., nucleotide vs. amino acid, nuclear vs. mitochondrial, and autosomal vs. X chromosomal) and employ different methods (concatenation and coalescence analyses) to reconstruct the unresolved phylogeny of this diverse (∼7,000 spp.) and old (>180 MYA) group. Our results show that genes on the X chromosome are more likely to have discordant phylogenies than those on autosomes. We find that the X chromosome conflict is driven by high gene substitution rates that impact accuracy of phylogenetic inference. However, gene tree clustering showed strong conflict even after discounting variable third codon positions. Alternative topologies were not particularly enriched for sex chromosome loci, but spread across the genome. We conclude that binning genes to autosomal or sex chromosomes may result in a more accurate picture of the complex evolutionary history of a clade.