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Next‐generation sequencing (NGS) is increasingly used for diet analyses; however, it may not always describe diet samples well. A reason for this is that diet samples contain mixtures of food DNA in different amounts as well as consumer DNA which can reduce the food DNA characterized. Because of this, detections will depend on the relative amount and identity of each type of DNA. For such samples, diagnostic PCR will most likely give more reliable results, as detection probability is only marginally dependent on other copresent DNA. We investigated the reliability of each method to test (a) whether predatory beetle regurgitates, supposed to be low in consumer DNA, allow to retrieve prey sequences using general barcoding primers that co‐amplify the consumer DNA, and (b) to assess the sequencing depth or replication needed for NGS and diagnostic PCR to give stable results. When consumer DNA is co‐amplified, NGS is better suited to discover the range of possible prey, than for comparing co‐occurrences of diet species between samples, as retested samples were repeatedly different in prey detections with this approach. This shows that samples were incompletely described, as prey detected by diagnostic PCR frequently were missed by NGS. As the sequencing depth needed to reliably describe the diet in such samples becomes very high, the cost‐efficiency and reliability of diagnostic PCR make diagnostic PCR better suited for testing large sample‐sets. Especially if the targeted prey taxa are thought to be of ecological importance, as diagnostic PCR gave more nested and consistent results in repeated testing of the same sample. [ABSTRACT FROM AUTHOR]

Molecular methods are facing increasing application on a broad remit in ecological studies, including work on parasites, parasitoids and pathogens. These studies can entail the screening of large sample numbers to monitor the establishment of parasitoid and pathogen infection rates over extended periods of time. However, when infection or parasitism rates are low, testing many samples individually quickly becomes tedious and costly. To optimize the application of molecular diagnostics in such situations, we developed a pooling approach that is applicable to any host-pathogen and host-parasite/parasitoid system., In a first step, host individuals are pooled along the two axes of a grid and screened for pathogen/parasite DNA via multiplex PCR. Already from these results a rough estimation of the pathogen/parasitism rate in the pooled samples is possible. To determine the exact infection/parasitism rate in the sample or if it is relevant to identify the respective infected/parasitized individuals, only those samples belonging to two pathogen/parasitoid DNA-positive pools need to be retested individually. The efficacy of the pooling approach was statistically and empirically evaluated for different infestation levels using three host-parasitoid systems and a newly developed diagnostic multiplex PCR assay., The established multiplex PCR assay allows to reliably identifying three agro-economically important lepidopteran pest species ( Phthorimaea operculella, Symmetrischema tangolias and Tuta absoluta) and five relevant parasitoids ( Copidosoma koehleri, Apanteles subandinus, Orgilus lepidus, Dolichogenidea gelechiidivoris and Diadegma mollipla). Compared to individual testing and even to standard one-dimensional pooling approaches, the new method reduces the number of PCRs substantially. At parasitism rates <10%, the pooling approach allowed for a reduction in the screening effort for up to 90%. In general, its efficacy decreases with increasing parasitism rates with a breakeven point at about 20%., As such the pooling approach presents an efficient and sensitive means for screening of large sample numbers at low parasitism and infection rates. Since it drastically reduces time and costs in diagnostic screenings, it is especially suited for studies with limited financial resources, allowing for extended investigations and routine monitoring screenings when infection/parasitism rates are low. [ABSTRACT FROM AUTHOR]

Pioneer communities establishing themselves in the barren terrain in front of glacier forelands consist principally of predator species such as carabid beetles and lycosid spiders. The fact that so many different predators can co-inhabit an area with no apparent primary production was initially explained by allochthonous material deposited in these forelands. However, whether these populations can be sustained on allochthonous material alone is questionable and recent studies point towards this assumption to be flawed. Intraguild predation ( IGP) might play an important role in these pioneer predator assemblages, especially in the very early successional stages where other prey is scarce. Here, we investigated IGP between the main predator species and their consumption of Collembola, an important autochthonous alternative prey, within a glacier foreland in the Ötztal ( Austrian Alps). Multiplex PCR and stable isotope analysis were used to characterize the trophic niches in an early and late pioneer stage over 2 years. Results showed that intraguild prey was consumed by all invertebrate predators, particularly the larger carabid species. Contrary to our initial hypothesis, the DNA detection frequency of IGP prey was not significantly higher in early than in late pioneer stage, which was corroborated by the stable isotope analysis. Collembola were the most frequently detected prey in all of the predators, and the overall prey DNA detection patterns were consistent between years. Our findings show that IGP appears as a constant in these pioneer predator communities and that it remains unaffected by successional changes. [ABSTRACT FROM AUTHOR]