The endangered Euphrates soft‐shelled turtle, Rafetus euphraticus, is endemic to the Mesopotamian River Basin in the Middle East. Within recent decades, populations of this aquatic species have been heavily depleted and severely fragmented owing to habitat alteration and destruction by drainage and hydroelectricity dam constructions. Continuing habitat loss and fragmentation are considered the main drivers for the population decline of R. euphraticus.Intraspecific genetic variability was investigated using two mitochondrial gene fragments for 31 specimens covering most of the distributional range of the species. Habitat suitability models were computed using a combination of bioclimatic and remote sensing variables as environmental predictors to assess habitat suitability, habitat fragmentation and coverage by designated protected areas across the range of R. euphraticus.Beyond single substitutions in two sequences, no significant genetic variation could be detected in R. euphraticus. Models show habitat suitability to be high throughout the range of the species, although only a fraction is currently covered by reserves. Habitat suitability and coverage of reserves is highly variable among countries. South‐western Iran appears to be of major importance for future conservation strategies. Suitability models are in concordance with the habitat selection patterns of R. euphraticus.The existing reserve system is considered insufficient and has to be significantly improved in order to sustain viable populations of R. euphraticus. To counter continuing fragmentation and alteration by dam construction, future conservation measures should focus on highlighted priority areas. Copyright © 2014 John Wiley & Sons, Ltd.

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BackgroundPublished nucleotide sequence data from the mega-diverse insect order Hymenoptera (sawflies, bees, wasps, and ants) are taxonomically scattered and still inadequate for reconstructing a well-supported phylogenetic tree for the order. The analysis of comprehensive multiple gene data sets obtained via targeted PCR could provide a cost-effective solution to this problem. However, oligonucleotide primers for PCR amplification of nuclear genes across a wide range of hymenopteran species are still scarce.FindingsHere we present a suite of degenerate oligonucleotide primer pairs for PCR amplification of 154 single-copy nuclear protein-coding genes from Hymenoptera. These primers were inferred from genome sequence data from nine Hymenoptera (seven species of ants, the honeybee, and the parasitoid wasp Nasonia vitripennis). We empirically tested a randomly chosen subset of these primer pairs for amplifying target genes from six Hymenoptera, representing the families Chrysididae, Crabronidae, Gasteruptiidae, Leucospidae, Pompilidae, and Stephanidae. Based on our results, we estimate that these primers are suitable for studying a large number of nuclear genes across a wide range of apocritan Hymenoptera (i.e., all hymenopterans with a wasp-waist) and of aculeate Hymenoptera in particular (i.e., apocritan wasps with stingers).ConclusionsThe amplified nucleotide sequences are (a) with high probability from single-copy genes, (b) easily generated at low financial costs, especially when compared to phylogenomic approaches, (c) easily sequenced by means of an additionally provided set of sequencing primers, and (d) suitable to address a wide range of phylogenetic questions and to aid rapid species identification via barcoding, as many amplicons contain both exonic and fast-evolving intronic nucleotides.

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Flower flies (Diptera: Syrphidae) are one of the most species‐rich dipteran families and provide important ecosystem services such as pollination, biological control of pests, recycling of organic matter and redistributions of essential nutrients. Flower fly adults generally feed on pollen and nectar, but their larval feeding habits are strikingly diverse. In the present study, high‐throughput sequencing was used to capture and enrich phylogenetically and evolutionary informative exonic regions. With the help of the baitfisher software, we developed a new bait kit (SYRPHIDAE1.0) to target 1945 CDS regions belonging to 1312 orthologous genes. This new bait kit was successfully used to exon capture the targeted loci in 121 flower fly species across the different subfamilies of Syrphidae. We analysed different amino acid and nucleotide data sets (1302 loci and 154 loci) with maximum likelihood and multispecies coalescent models. Our analyses yielded highly supported similar topologies, although the degree of the SRH (global stationarity, reversibility and homogeneity) conditions varied greatly between amino acid and nucleotide data sets. The sisterhood of subfamilies Pipizinae and Syrphinae is supported in all our analyses, confirming a common origin of taxa feeding on soft‐bodied arthropods. Based on our results, we define Syrphini stat.rev. to include the genera Toxomerus and Paragus. Our divergence estimate analyses with beast inferred the origin of the Syrphidae in the Lower Cretaceous (125.5–98.5 Ma) and the diversification of predatory flower flies around the K–Pg boundary (70.61–54.4 Ma), coinciding with the rise and diversification of their prey.