Assessment of three DNA extraction kits for the absolute quantification of strongyle nematode eggs in faecal samples

World Association for the Advancement of Veterinary Parasitology (W.A.A.V.P.): Third edition of the guideline for evaluating efficacy of anthelmintics in ruminants (bovine, ovine, caprine)

This guideline is aimed at those who are involved in the assessment of anthelmintic efficacy in ruminant livestock species (bovine, ovine and caprine). The intent is to provide a framework that can be adopted worldwide for the testing of anthelmintics in ruminants, such that studies carried out in different countries can be compared and thereby unnecessary duplication can be reduced. Recommendations are made for the selection, housing and feeding of study animals, the type of studies required, the method used to conduct those studies, the assessment of results and the standards for defining anthelmintic efficacy.

Occurrence of gastrointestinal nematodes in lambs in Norway, as assessed by copromicroscopy and droplet digital polymerase chain reaction

BACKGROUND

Gastrointestinal nematodes (GINs) have a major impact on sheep production, health, and welfare worldwide. Norway is no exception, but there are only a few studies on the prevalence of GINs in Norwegian sheep. The aim of this study was to investigate the current occurrence of the most important nematodes in sheep flocks in Norway. Faecal samples were collected from flocks in 2021/2022, mainly from three geographical regions in Norway, i.e., northern, eastern, and western. In each of 134 flocks included, individual samples from 10 lambs (autumn) were pooled. Third stage larvae (L3) were cultivated and harvested (Baermann method) from the pooled samples. The DNA was then extracted and further analysed using droplet digital PCR (ddPCR). This enables assessment of the proportions of the three most important nematode species/genera, i.e., H. contortus, T. circumcincta, and Trichostrongylus. The fractional abundance/relative proportion of each species/genus was assessed by performing duplex assays with universal strongyle and species/genus-specific primers and probe sets. In addition, the occurrence of Nematodirus eggs was assessed by standard faecal egg counts (i.e., McMaster method).

RESULTS

Of the 134 flocks sampled, 24 were from the northern region, 31 from eastern, and 71 from western Norway. In addition, some flocks from central (n = 7), and southern (n = 1) Norway were included. Among the sampled flocks, T. circumcincta occurred most commonly (94%), followed by H. contortus (60%) and Trichostrongylus (55%), and Nematodirus (51%). In general, mixed infections were observed, with 38% and 18% of flocks infected with three or all four genera, respectively.

CONCLUSIONS

The results of this study indicate that GINs are widespread in Norway. Teladorsagia circumcincta seems to be present in most flocks based on this screening. Moreover, the results show that Nematodirus spp. infect lambs throughout the country, predominantly N. battus, and indicate that this nematode has become more abundant, which could lead to an increase in nematodirosis.

The effect of weaning age on animal performance in lambs exposed to naturally acquired nematode infections

The effects of mixed gastrointestinal nematode (GIN) infections on animal growth and post-weaning activity patterns were investigated in grazing intact ram lambs when naturally exposed to two different infection levels and weaned at different ages. Ewes and their twin-born lambs were turned-out to graze in two permanent pasture enclosures naturally contaminated with GIN the previous year. Ewes and lambs in the low parasite exposure group (LP) were drenched before turn-out and at weaning, respectively, with 0.2 mg ivermectin per kg body weight, whereas those in the high parasite exposure group (HP) were left untreated. Two weaning ages were applied, early weaning (EW) (10 weeks) and late weaning (LW) (14 weeks), respectively. The lambs were then allocated to one out of four groups based on parasite exposure level and weaning age (EW-HP, n = 12; LW-HP, n = 11; EW-LP, n = 13; LW-LP, n = 13). Body weight gain (BWG) and faecal egg counts (FEC) were monitored, in all groups, from the day of early weaning and every four weeks, for 10 weeks. In addition, nematode composition was determined using droplet digital PCR. Activity patterns measured as Motion Index (MI; the absolute value of the 3D acceleration) and lying time were monitored continuously from the day of weaning until four weeks post-weaning using IceQube® sensors. Statistical analyses were performed in RStudio, using mixed models with repeated measures. BWG was 11% lower in EW-HP compared with EW-LP (P = 0.0079) and 12% lower compared with LW-HP (P = 0.018), respectively. In contrast, no difference in BWG was observed between LW-HP and LW-LP (P = 0.97). The average EPG was higher in EW-HP compared with EW-LP (P < 0.001), as well as in EW-HP compared with LW-HP (P = 0.021), and LW-HP compared with LW-LP (P = 0.0022). The molecular investigation showed that animals in LW-HP had a higher proportion of Haemonchus contortus compared with EW-HP. MI was 19% lower in EW-HP compared with EW-LP (P = 0.0004). Daily lying time was 15% shorter in EW-HP compared with EW-LP (P = 0.0070). In contrast, no difference in MI (P = 0.13) and lying time (P = 0.99) between LW-HP and LW-LP was observed. The results suggest that a delayed weaning age may reduce the adverse effects of GIN infection on BWG. Contrarily, an earlier weaning age may reduce the risk of H. contortus infection in lambs. Moreover, the results demonstrates a potential use of automated behaviour recordings as a diagnostic tool for the detection of nematode infections in sheep.

Faecal metabarcoding provides improved detection and taxonomic resolution for non-invasive monitoring of gastrointestinal nematode parasites in wild moose populations

BACKGROUND

Although wild ungulate populations are heavily monitored throughout Europe, we understand little of how parasites affect population dynamics, and there is no systematic, long-term monitoring of parasite diversity and parasite loads. Such monitoring is in part hampered by a lack of time- and cost-effective assay methodologies with high sensitivity and good taxonomic resolution. DNA metabarcoding has been successfully used to characterize the parasitic nemabiome with high taxonomic resolution in a variety of wild and domestic hosts. However, in order to implement this technique in large-scale, potentially non-invasive monitoring of gastrointestinal parasitic nematodes (GIN), protocol optimization is required to maximize biodiversity detection, whilst maintaining time- and cost-effectiveness.

METHODS

Faecal samples were collected from a wild moose population and GIN communities were characterized and quantified using both parasitological techniques (egg and larva counting) and DNA metabarcoding of the ITS2 region of rDNA. Three different isolation methods were compared that differed in the volume of starting material and cell lysis method.

RESULTS

Similar nematode faunas were recovered from all samples using both parasitological and metabarcoding methods, and the approaches were largely congruent. However, metabarcoding assays showed better taxonomic resolution and slightly higher sensitivity than egg and larvae counts. The metabarcoding was not strictly quantitative, but the proportion of target nematode sequences recovered was correlated with the parasitologically determined parasite load. Species detection rates in the metabarcoding assays were maximized using a DNA isolation method that included mechanical cell disruption and maximized the starting material volume.

CONCLUSIONS

DNA metabarcoding is a promising technique for the non-invasive, large-scale monitoring of parasitic GINs in wild ungulate populations, owing to its high taxonomic resolution, increased assay sensitivity, and time- and cost-effectiveness. Although metabarcoding is not a strictly quantitative method, it may nonetheless be possible to create a management- and conservation-relevant index for the host parasite load from this data. To optimize the detection rates and time- and cost-effectiveness of metabarcoding assays, we recommend choosing a DNA isolation method that involves mechanical cell disruption and maximizes the starting material volume.

Sensitive and accurate DNA metabarcoding of parasitic helminth mock communities using the mitochondrial rRNA genes

Next-generation sequencing technologies have accelerated the pace of helminth DNA metabarcoding research, enabling species detection in bulk community samples. However, finding suitable genetic markers with robust species-level resolution and primers targeting a broad species range among parasitic helminths are some of the challenges faced. This study aimed to demonstrate the potential use of the mitochondrial 12S and 16S rRNA genes for parasitic helminth (nematodes, trematodes, cestodes) DNA metabarcoding. To demonstrate the robustness of the 12S and 16S rRNA genes for DNA metabarcoding, we determined the proportion of species successfully recovered using mock helminth communities without environment matrix and mock helminth communities artificially spiked with environmental matrices. The environmental matrices are human fecal material, garden soil, tissue, and pond water. Our results revealed the robustness of the mitochondrial rRNA genes, through the high sensitivity of the 12S rRNA gene, and the effectiveness of the 12S and 16S primers targeting platyhelminths. With the mitochondrial rRNA genes, a broad range of parasitc helminths were successfully detected to the species level. The potential of the mitochondrial rRNA genes for helminth DNA metabarcoding was demonstrated, providing a valuable gateway for future helminth DNA metabarcoding applications like helminth detection and biodiversity studies.