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.     

Lactation feed disappearance and weaning to estrus interval for sows fed spray-dried plasma

Four experiments involving 265, 410, 894, and 554 sows (Exp. 1 to 4, respectively) were conducted to determine the effect of spray-dried plasma (SDP) at 0 or 0.25% (Exp. 1 and 2) and 0 or 0.50% (Exp. 3 and 4) in lactation diets on average daily feed disappearance (FD), sum of sow BW, fetal and placental loss from d 110 gestation to weaning (SWL), litter size at weaning, litter weight at weaning, and average days from weaning to first estrus (WEI). Experiments 1, 3, and 4 were conducted during summer months, and Exp. 2 was conducted during fall to winter months. Experiment 1 used only parity 1 and parity 2 sows and Exp. 4 used only mature (>2 parities) sows, whereas Exp. 2 and 3 used all parity groups. Sows fed SDP in Exp. 1 had increased (P < 0.01) FD and a tendency for reduced (P = 0.06) SWL and WEI (P = 0.06). Sows fed SDP in Exp. 2 had a tendency for increased (P = 0.09) sow BW at weaning and reduced (P = 0.09) SWL, whereas other variables were not different between diets. Parity 1 and 2 sows fed SDP in Exp. 3 had increased (P < 0.01) FD, but mature sows fed SDP had reduced (P = 0.02) FD. Pig survival and litter size at weaning for all parity groups was not different between diets. The WEI for parity 1 sows fed SDP was reduced (P = 0.02) and tended to be reduced (P = 0.10) for mature sows fed SDP, but was not different between diets for parity 2 sows. More parity 1 sows fed SDP were detected (P = 0.01) in estrus 4 to 6 d after weaning, and fewer were detected (P < 0.01) in estrus 6 d after weaning compared with control parity 1 sows. In Exp. 4, FD was reduced (P < 0.01) for mature sows fed SDP; however, litter weight and average pig BW at weaning was increased (P < 0.01) with more (P < 0.01) marketable pigs (pig BW > 3.6 kg) weaned per litter. Relatively low dietary levels of SDP (0.25 to 0.50%) fed to parity 1 sows farrowed during summer months increased lactation FD and reduced WEI. Mature sows fed SDP during summer months consumed less lactation feed without compromising WEI, but had an increased litter weight, average pig BW, and number of marketable pigs at weaning.     

Identification and validation of cold responsive microRNAs of <Emphasis Type="Italic">Hevea brasiliensis</Emphasis> using high throughput sequencing

Cold stress is one of the major abiotic factors that influence the productivity and geographical distribution of many agriculturally important crops like Hevea brasiliensis. Cultivation of H. brasiliensis in India is being extended to northeastern regions, where low temperature during winter adversely affects its survival, growth, and productivity. Developing cold-tolerant genotypes is a primary requisite to maximize the productivity under such challenging environmental conditions. However, lack of methods for early evaluation of cold tolerance in the newly developed clones and the extensive time required for assessing their tolerance in the field are major constraints for clonal selection. The present study was initiated with an objective to identify and characterize cold stress responsive miRNAs from H. brasiliensis that show stronger association with cold tolerance. Next generation sequencing using Illumina HiSeq method revealed the expression of 21 and 29 conserved miRNA (from clone RRIM 600) families in cold-stressed and control samples, respectively. Forty-two novel miRNAs were identified from this study. Upon differential expression analysis, eight conserved miRNAs were found commonly expressed in both the samples. When expression analyses were performed subsequently with six selected miRNAs in two Hevea clones (viz. RRII 105 and RRIM 600), miR169 showed a strong association with cold tolerance. miRNAs such as miR482 and miR159 also exhibited association with cold tolerance. This study suggests the possibility of employing these miRNAs as markers for cold tolerance after validation in more number of genotypes with varying levels of cold tolerance.     

The 1997-1998 classical swine fever epidemic in The Netherlands--a survival analysis

The aim of this analysis was to characterise the temporal pattern of infection during the 1997/98 classical swine fever (CSF) epidemic in The Netherlands and hence identify and quantify risk factors for infection in different enterprise types and areas. Survival analysis and Cox proportional hazards regression were used to describe the epidemic. Substantial differences in temporal survival patterns (herd breakdown rate) were found between areas where different control policies operated. Factors with a significant influence on the infection hazard of individual herds included: sow numbers as a percentage of total sows and fatteners (HR = 3.38 for mixed herds (0.1–60% sows) vs. fattening herds (0% sows) and HR = 2.74 for breeding herds (60–100% sows) vs. fattening herds), the number of ‘transport contacts per month’ (>0.3 vs. <0.3; HR = 4.11), pig density (pigs/km²) in the area (HR_{1000 pigs} 1.48) and herd size (HR_{100 pigs} = 1.01).

Pre-emptive slaughter in an area appeared to be associated with lower subsequent disease levels. Higher frequency of transport contacts for welfare slaughter during the epidemic, however, well regulated and controlled, was associated with a substantially higher risk of becoming infected. The positive association of a higher pig density with CSF indicates the potential importance of local spread as a factor in disease transmission and emphasizes that dilution of the pig population can contribute to reduction in CSF occurrence. This analysis suggests however, that if pre-emptive slaughter can promptly be applied effectively in an area after initial diagnosis, pig density is then not a significant factor. Mixed and breeding herds had a higher probability of becoming infected than fattening herds, possibly due to different types and frequencies of inter-herd contacts. These contacts continue to some extent during the epidemic, despite the standstill of animal movements.     

Epidemiological study on clinical bovine dermatophilosis in northern Ethiopia

A total of 5586 indigenous and cross breed cattle were examined for clinical dermatophilosis, and 292 (5.22%) were positive. In indigenous cattle, statistically discernible (p < 0.05) difference was recorded between the prevalence in wet (5.5%) and dry (4.0%) seasons. During both seasons, infestation with A. Variegatum significantly (p < 0.05, chi 2 = 59.9) influenced clinical dermatophilosis. A. variegatum-infested cattle were at 7x higher risk (OR, Odds Ratio = 6.8) of acquiring the disease than non-infested ones. Logistic regression analysis of the overall prevalence showed a significant difference (p < 0.05) between prevalence in indigenous and cross breeds; the crossbreeds being at about 3x higher risk (OR = 2.68). Improved management reduced the prevalence in cross breeds from 15.1% in dry to 8.6% in wet season suggesting the significance of management in the epidemiology of dermatophilosis. The disease occurrence was also significantly (p < 0.05, chi 2 = 133.05) affected by agro-climatic (altitude) variation suggesting the impact of rainfall, humidity, vegetation and vector population that varied with altitude. Age and gender had no influence (p > 0.05) on the disease. Our result showed that season of the year, breed, management, infestation with A. variegatum and agro climatic difference are important risk factors influencing the disease pattern in the region. A tick control strategy and a better and adequate management particularly when keeping cross breeds are recommended.