Design and evaluation of primer pairs for efficient detection of avian rotavirus

The use of molecular methods for rotavirus characterisation provides increased sensitivity for typing and allows the identification of putative reassortant strains. Reagents and methods for genotyping the virus need constant modification because of the reassortant nature of the virus. This study was aimed at designing and evaluating new oligonucleotide degenerate primer pairs that provide increased sensitivity and specificity for detecting avian rotavirus. Gene-specific primer pairs were designed by analysing different rotavirus strains isolated during the last decade by downloading them from the GenBank. The alignments were generated using clustal analysis from the BioEdit program. Degenerate nucleotides were included due to the reassortant nature of rotavirus. The consensus sequences were aligned using the BioEdit program and then treated with the Fast PCR software to derive the primers. The derived primer sequences were submitted for a BLAST search to ensure alignment was exclusive to the desired target genes. The designed primers had specific bands and were efficient in detecting rotavirus in faecal samples than previously published primers. Thus, a successful surveillance of rotaviruses requires that primer pairs be updated regularly in order to detect the emergence of novel or “unusual types”, which have occurred by genetic drift causing nucleotide changes at the primer binding sites that result in typing failures. We recommend the use of the proposed primers in molecular surveillance studies for efficient detection of avian rotavirus.     

Effects of cement production on the elemental composition of soils in the neighborhood of two cement factories

The effects of cement production on the elemental composition of soils in the neighborhood of two cement factories in Nigeria have been investigated using the XRF and PIXE/RBS techniques. The concentration of 21 elements viz:-Mg, Al, Si, P, S, K, Ca, Ti, V, Cr, Mn, Fe, Ni, Cu, Zn, Sr, Pb, As, Zr, Rb and Br, were determined in about 30 samples. Calcium, P, S, Cr, Ni, Cu and Zn, were found to be relatively enriched in the soils of the cement factory premises. Calcium, a cement marker element, was found to be well correlated with Mg, S, Fe, Ni and Cu in the soils, and inversely proportional to the Si and Ti concentrations. From Ca/Si ratios and enrichment factors of the marker elements, it was found that soil contamination due to cement drops sharply with distance from the factories, and with increasing depth from the surface.     

ABUNDANCE AND DISTRIBUTION OF ARBUSCULAR MYCORRHIZAL FUNGI SPECIES IN LONG-TERM SOIL FERTILITY MANAGEMENT SYSTEMS IN NORTHERN NIGERIA

Soil fertility management systems (SFMS) can influence the community structure of arbuscular mycorrhizal fungi (AMF). Hence, long-term SFMS was studied. The SFMS comprised three legume combinations, urea application and solely maize as control. Spores were extracted by wet sieving, characterized and identified using their morphology. Interrelationships between cropping systems and occurrence of AMF species were analyzed with genotype by environment (GGE) biplot. Seventeen species were identified with Glomus species (47.05%) having highest value while Gigaspora species had the least (11.76%). Legume residues significantly (P < 0.05) increased spore population with the highest spore count (120 spores/100 g soil) obtained in plot under cowpea residue. Shannon Weiner index (H′) of maize/Lablab purpureus plot was highest (1.996) while that of sole maize system was the least (1.550). The GGE indicated Glomus intraradices as a stable species across all the SFMS. Community structure of AMF and function can be preserved using appropriate SFMS.     

Influence of mycorrhizal inoculation and different pruning regimes on fresh root yield of alley and sole cropped cassava (manihot esculenta crantz) in Nigeria

The effect of mycorrhizal fungus inoculation on fresh root yield of cassava (Manihot esculenta crantz) cv TMS 4 (2) 1425 as influenced by two hedgerow tree species and their mixtures, subjected to 2- and 3-month pruning regimes were investigated in alley cropping experiments at three different sites within the same eco-climatic region in Nigeria. Mixture of the prunings of the two hedgerow tree species (Gliricidia sepium and Senna siamea) with mycorrhiza gave higher fresh root yield than the sole hedgerow tree with mycorrhizal inoculation. Gliricidia sepium prunings were found to give higher fresh root yield than the prunings from the Senna siamea. The 2-month prunings of G. sepium recorded higher yield than its 3-month prunings while 2-month prunings of Senna siamea recorded higher yield than its 3-month prunings. However, mycorrhiza inoculation with 2- and 3-month prunings in the two hedgerow species used were found higher than their counterparts without mycorrhizal inoculation in all the three sites. Mycorrhizal inoculation without the hedgerow prunings recorded the lowest fresh root yield but was still higher than the fresh root yield from the sole without mycorrhizal inoculation. Thus, inoculation with mycorrhiza increased alley-cropped cassava fresh root yield over uninoculated plants under both pruning regimes. Generally, this study shows that inoculation of cassava with mycorrhiza alone without mulching with prunings significantly increased cassava fresh root yield.     

Health of farmer-saved maize seed in north-east Nigeria

Many Nigerian farmers depend for their seed on seed-producing farmers, the so-called informal Seed System (SS), but seed quality of the SS is unknown. Farmers planting low quality seed risk poor field emergence and low plant vigour as a result of low physiological quality or infection with seed-borne pathogens. The objective of this research was to test seed quality of maize seed from the informal SS in north-east Nigeria. A total of 46,500 seeds (93 samples of 500 seeds each) were tested for germination, off-types and seed health. Seed pathology was quantified by plating disinfected seeds onto agar, and identifying the fungi present after 3 days incubation. Twelve seed-borne pathogens were identified including Bipolaris maydis (found in 45 % of the farmer-produced samples), Botryodiplodia theobromae (97 %) and Curvularia lunata (38 %). All samples were infected with Fusarium verticillioides, with a median infection incidence of 59 % (2009) and 51 % (2010). None of the 93 samples tested passed the demands for certified seed of the National Agricultural Seeds Council (NASC) in Nigeria, in particular the maximum limit of five off-types per kg seed sample. Based on these results, seed-producing farmers must improve the health of seed. The NASC should revise the standards for off-type seeds to minimize the time spent by farmers sorting planting material.     

Performance and nutrient digestibility in growing pigs fed wheat dried distillers’ grain with solubles‐containing diets supplemented with phytase and multi‐carbohydrase

Effect of supplementing wheat dried distillers’ grain with solubles (DDGS)‐containing diet with enzymes on nutrient utilization by growing pigs was evaluated in two experiments. In Experiment 1, 60 pigs weighing ~30 kg were fed five diets that included a corn‐based diet (Control), Control with 10% wheat DDGS (DDGS‐PC), DDGS‐PC without inorganic P source (DDGS‐NC), and DDGS‐NC plus phytase alone or with multi‐carbohydrase for 4 weeks to determine average daily gain (ADG), average daily feed intake (ADFI) and gain‐to‐feed ratio (G:F). In Experiment 2, 30 barrows weighing 22 kg were fed five diets fed in Experiment 1 to determine nutrient digestibility and retention. Pigs fed DDGS‐PC and Control diets had similar ADG and G:F. The ADG and G:F for DDGS‐PC diet were higher (P < 0.05) than those for DDGS‐NC diet. Phytase improved (P < 0.05) ADG, G:F, total tract P digestibility and P retention by 6.6, 8.7, 86.0 and 85.5%, respectively. Addition of multi‐carbohydrase to phytase‐supplemented diet did not affected growth performance, but reduced (P < 0.05) P retention. In conclusion, inclusion of 10% wheat DDGS in growing pig diet may not affect growth performance of growing pigs. Phytase supplementation to wheat DDGS‐containing diet can eliminate the need for inorganic P supplement in pig diets.     

Nutrient utilization and manure P excretion in growing pigs fed corn-barley-soybean based diets supplemented with microbial phytase

The effect of high levels of microbial phytase supplementation in diets for growing pigs was studied in a 2‐week performance and nutrient digestibility trial involving 28 growing pigs weighing 16.4 ± 1.06 (mean ± SD) kg. Seven corn‐barley‐soybean meal‐based diets consisting of a positive control (PC) formulated to meet or exceed NRC nutrient requirements; a negative control (NC) with non‐phytate P reduced by 0.1% unit from NRC requirement and fed without or with 500 or 1000 U/kg; a doubled negative control (DNC) with no added inorganic P and fed without or with 2000 or 4000 U/kg. Chromic oxide was added as an indigestible marker and all diets were fed as mash. Pigs fed the PC diet had a higher P digestibility compared with those fed the NC (P < 0.02) and the DNC (P < 0.001) diets. Supplementing the NC diet with pyhtase tended to improve P digestibility (P < 0.10). However, addition of phytase to the DNC diet resulted in linear (P < 0.001) and quadratic (P < 0.03) increases in P digestibility with an overall improvement of 8% and 121% at 4000 phytase U/kg of diet, respectively, compared with the PC and DNC diets. Apparent total tract digestibility of N, OM and DM were higher (P < 0.05) in the PC diet compared with the DNC diet, but not the NC diet (P < 0.10). No effect of phytase addition to NC was observed on Ca, N, DM and OM digestibility. Phytase addition to the DNC diet resulted in a linear increase (P < 0.05) in N, DM and OM digestibility but not Ca. Increasing the levels of phytase supplementation in the NC and the DNC diets linearly decreased fecal P (P < 0.05) content by 45 and 42%, respectively. Adding phytase at 1000 or 4000 U/kg increased P retention (P < 0.05) by 14.3 or 15.6% units, respectively, compared with the PC diet. Urinary P excretion was higher in the group fed the PC diet compared with those fed the NC and DNC diets (P < 0.05). The results of this study show that complete removal of inorganic P from growing pig diets coupled with phytase supplementation improves digestibility and retention of P and N, thus reducing manure P excretion without any negative effect on pig performance.     

Yam tuber and maize grain yield response to cropping system intensification in south-west Nigeria

Four factorial trials were conducted with yam (Dioscorea rotundata Poir.) at Ibadan, Nigeria from 2013 to 2015, investigating effects of (1) tillage (2) fertilizer (3) intercropping (4) yam plant densities. Yam tuber yields varied between years (2013: 16.44 Mg ha^?1; 2014: 10.08 Mg ha^?1; 2015 26.61 Mg ha^?1). In 2013 neither tillage nor fertilizer affected tuber yields. In 2014 tillage increased yields (+25.4%, P < 0.0001), fertilizer reduced yield (?10.5%; P = 0.0046). In 2015 tillage increased tuber yields by 8.1% (ns), fertilizer application increased yield (+17.5%, P = 0.0017). Across the years, tuber yields increased (P < 0.01) with increasing yam density with a constant increase in 2013 up to the highest density, yet yields leveled out above 14,815 plants ha^?1 in 2014 and 2015. Intercropping with maize (66,667 plants ha^?1) reduced tuber yield by 42.62% in 2013, 44.52% in 2014 and 30.68% in 2015 (P < 0.01 all years) across all yam densities. Maize grain yield was higher in sole crop in 2 years. Fertilizer increased yields in all years (P < 0.0001). Maize yield had no response to the yam densities. Ridging had a negative effect on grain yield in 2015 (?0.3 Mg ha^?1, P = 0.0002). Increasing plant density appears a safe measure to increase yam yields.