Detection and genetic diversity of porcine rotavirus A,B and C in eastern Australian piggeries

Rotaviruses (RV) have a high prevalence in piggeries worldwide and are one of the major pathogens causing severe diarrhoea in young pigs. RV species A, B, and C have been linked to piglet diarrhoea in Australian pig herds, but their genetic diversity has not been studied in detail. Based on sequencing of the structural viral protein 7 (VP7) RVA G genotypes G3, G4 and G5, and RVC types G1, G3, G5, and G6 have been identified in Australian piggeries in previous studies. Although occurrence of RVB was reported in Australia in 1988, no further genetic analysis has been conducted. To improve health management decisions in Australian pig herds, more information on RV prevalence and genetic diversity is needed. Here, 243 enteric samples collected from 20 pig farms within Eastern Australia were analysed for the presence of RV in different age groups using a novel PCR-based multiplex assay (Pork MultiPath™ enteric panel). RVA, RVB, and RVC were detected in 10, 14, and 14 farms, respectively. Further sequencing of VP7 in selected RV-positive samples revealed G genotypes G2, G5, G9 (RVA), G6, G8, G14, G16, G20 (RVB), and G1, G3, G5, G6 (RVC) present. RVA was only detected in young (<10 weeks old) pigs whereas RVB and RVC were also detected in older animals (>11 weeks old). Interestingly, RVB and RVC G-type occurrence differed between age groups. In conclusion, this study provides new insights on the prevalence and diversity of different RV species in pig herds of Eastern Australia whilst demonstrating the ability of the Pork MultiPath™ technology to accurately differentiate between these RV species.     

Impact of variation in structure of condensed tannins from sainfoin (Onobrychis viciifolia) on in vitro ruminal methane production and fermentation characteristics

Our study investigated the effects of condensed tannins (CT) on rumen in vitro methane (CH₄) production and fermentation characteristics by incubating lucerne in buffered rumen fluid in combination with different CT extracts at 0 (control), 40, 80 and 120 g CT/kg of substrate DM. Condensed tannins were extracted from four sainfoin accessions: Rees ‘A’, CPI63763, Cotswold Common and CPI63767. Gas production (GP) was measured using a fully automated GP apparatus with CH₄ measured at distinct time points. Condensed tannins differed substantially in terms of polymer size and varied from 13 (Rees ‘A’) to 73 (CPI63767) mean degree of polymerization, but had relatively similar characteristics in terms of CT content, procyanidin: prodelphinidin (PC: PD) and cis:trans ratios. Compared to control, addition of CT from CPI63767 and CPI63763 at 80 and 120 g CT/kg of substrate DM reduced CH₄ by 43% and 65%, and by 23% and 57%, respectively, after 24‐h incubation. Similarly, CT from Rees ‘A’ and Cotswold Common reduced CH₄ by 26% and 46%, and by 28% and 46% respectively. Addition of increasing level of CT linearly reduced the maximum rates of GP and CH₄ production, and the estimated in vitro organic matter digestibility. There was a negative linear and quadratic (p < 0.01) relation between CT concentration and total volatile fatty acid (VFA) production. Inclusion of 80 and 120 g CT/kg of substrate DM reduced (p < 0.001) branched‐chain VFA production and acetate: propionate ratio and was lowest for CPI63767. A decrease in proteolytic activity as indirectly shown by a change in VFA composition favouring a shift towards propionate and reduction in branched‐chain VFA production varied with type of CT and was highest for CPI63767. In conclusion, these results suggest that tannin polymer size is an important factor affecting in vitro CH₄ production which may be linked to the CT interaction with dietary substrate or microbial cells.     

Condition assessment of lamprey populations in the Yorkshire Ouse catchment,north‐east England,and the potential influence of physical migration barriers

• 1. River lamprey (Lampetra fluviatilis) and sea lamprey (Petromyzon marinus) are designated features of the River Derwent Special Area of Conservation (SAC) and the Humber Estuary (a possible SAC). This study determined the condition of lamprey populations in the Yorkshire Ouse catchment by assessing the species composition, distribution, abundance and size‐structure of larval (ammocoete) populations in five major tributary rivers (Derwent, Swale, Ure, Nidd and Wharfe).
• 2. According to EU condition assessment criteria, Lampetra populations (assumed to be mostly river lamprey) are at present in favourable condition, with site mean (±SE) densities ranging from 2.7 (±1.2) to 160.3 (±50.5) individuals m^?2 (all river means >2 individuals m^?2), and at least two size (≈age) classes present in optimal microhabitats. By contrast, no sea lamprey larvae were recorded, suggesting that populations of this species are in unfavourable condition.
• 3. Actions to protect and enhance nationally or internationally important stocks must be implemented from at least a catchment perspective, because many of the issues affecting such species are not localized. With respect to lampreys, particular attention should be given to protecting spawning and nursery habitats, improving water quality, reducing impingement at abstraction points, preventing exploitation at spawning grounds and increasing passage at potential physical obstructions.

Copyright © 2007 John Wiley & Sons, Ltd.     

The value of linking paleoecological and neoecological perspectives to understand spatially-explicit ecosystem resilience

Context

Predicting ecosystem resilience is a challenge, especially as climate change alters disturbance regimes and conditions for recovery. Recent research has highlighted the importance of spatially-explicit disturbance and resilience processes to long-term ecosystem dynamics. “Neoecological” approaches characterize resilience mechanisms at relatively fine spatio-temporal resolutions, but results are difficult to extrapolate across broad temporal scales or climatic ranges. Paleoecological methodologies can consider the effects of climates that differ from today. However, they are often limited to coarse-grained spatio-temporal resolutions.

Methods

In this synthesis, we describe implicit and explicit examples of studies that incorporate both neo- and paleoecological approaches. We propose ways to build on the strengths of both approaches in an explicit and proactive fashion.

Results

Linking the two approaches is a powerful way to surpass their respective limitations. Aligning spatial scales is critical: Paleoecological sampling design should incorporate knowledge of the spatial characteristics of the disturbance process, and neoecological studies benefit from a longer-term context to their conclusions. In some cases, modeling can incorporate non-spatial data from paleoecological records or emerging spatial paleo-data networks with mechanistic disturbance/recovery processes that operate at fine spatiotemporal scales.

Conclusions

Linking these two complementary approaches is a powerful way to build a complete understanding of ecosystem disturbance and resilience.

     

Response of alluvial fan systems to the late Pleistocene to Holocene climatic transition: contrasts between the margins of pluvial Lakes Lahontan and Mojave, Nevada and California, USA

Dated shorelines of late Pleistocene pluvial Lakes Lahontan (Great Basin Desert, northwest Nevada) and Mojave (Mojave Desert, eastern California) provide timelines for the assessment of alluvial fan sedimentation at the lake margins during the late Pleistocene to early Holocene. Two sets of alluvial fan systems have been mapped: the Stillwater fans, feeding Lake Lahontan; and the Zzyzx fans, feeding Lake Mojave. Their contrasting morphologies suggest different responses of the two fan systems to late Pleistocene to early Holocene climatic change. At the time the Stillwater fan systems underwent minimal sedimentation, with the catchment hillslopes apparently stable. The Zzyzx fans experienced major changes in water and sediment supply from the catchment hillslopes. There was a major phase of hillslope debris-flow activity, followed by fanhead trenching and distal fan progradation. Both areas were wetter and colder in the late Pleistocene than they are today, but during the transition to the Holocene the Zzyzx area was more likely to experience intense rains associated with the monsoonal penetration of warm moist tropical air into the Southwest. Vegetation reconstructions for the late Pleistocene to the early Holocene suggest that catchment hillslopes in the Mojave supported a desert shrub vegetation, but those in the Stillwaters supported juniper woodland and grasses at low elevations and pine at higher elevations. Contrasts in hillslope vegetation cover together with storm activity may account for the different responses of the alluvial fans to climatic change during the Pleistocene to Holocene climatic transition. After the falls in lake levels of Lakes Lahontan and Mojave in the early Holocene, both areas underwent aridification, resulting in reductions in hillslope vegetation cover. Increased storm runoff led to fanhead trenching and distal progradation of the alluvial fans. Variations in fan style at that time may relate primarily to base-level conditions resulting from different gradients on the exposed lake shores.