Thesis (M. Tech. Agriculture, Tshwane University of Technology, 2011. / To increase local growth linkages of smallholder broiler enterprises in rural areas a single-phase, on-farm processed, mash diet, consisting of boiled and ground full-fat soya beans and ground yellow maize grain fortified with lysine, methionine and selected mineral nutrients was first developed and then tested. Financial analysis showed that net operating expenses of broiler enterprises that used the experimental diet were higher than those of similar enterprises using the control diet, but differences in net operating income were only significant in one of the two runs of the experiment. The main economic benefit of using the experimental diet was the added value to the local economy, which increased from 20 % of the retail value of broiler chickens in the case of enterprises using the control diet to 70 % when using the experimental diet.

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Lipochitooligosaccharides (LCOs) are molecules secreted by rhizobia during the establishment of rhizobia-legume N2-fixing symbiosis. Some recent reports have shown that there are physiological effects on host and non-host rhizobia after LCO treatment. However, the cellular mechanisms underlying these observations are not known. Therefore, the study was aimed at assessing phenotypic changes by measuring photosynthesis, leaf area and dry weight on a non-host plant (tobacco). Our results did not show any significant physiological changes following LCO treatment. We also wanted to explore the molecular basis of changes in the plant cell by looking at gene and protein profiling following LCO treatment in a natural host plant (soybean) using real-time RT-PCR and SDS-PAGE. To do so, a reproducible stimulation method for soybean seed germination by LCO was successfully developed. The results obtained on soybean did not reveal significant differences in gene expression between water and LCO-treated seeds for the genes cdc2, WASI, ICL1 and 14-3-3 studied. In addition, LCO treatment did not change the protein profile compared to the water control in a significant way.

Studies were conducted in 2009 and 2010 under field and growth room conditions to determine a) cultivar tolerance of soybean to preemergence (PRE) applications of saflufenacil and b) the biologically effective rate of saflufenacil/dimethenamid-p for control of annual weeds applied PRE alone and prior to an in-crop application of glyphosate. Environmental conditions following application influenced the amount of soybean injury caused by saflufenacil, as well as the rate of saflufenacil/dimethenamid-p required for the control of annual weeds. Increased soybean injury from saflufenacil was observed when soybean emergence was delayed due to cool, wet conditions following planting. Injury decreased with time; however, sensitive soybean cultivars were unable to fully recover from early season injury under adverse environmental conditions. OAC Hanover was the most sensitive cultivar in both field and hydroponic testing. With adequate moisture and above average temperatures in 2010, between 224 and 374 g a.i. ha-1 of saflufenacil/dimethenamid-p was required for 80% control of common ragweed, common lambsquarters, and green foxtail 4 weeks after treatment (WAT). In contrast, with below average temperatures and excessive moisture in 2009, between 528 and 613 g a.i. ha-1 of saflufenacil/dimethenamid-p was necessary for the same level of weed control. Pigweed species were least affected by environmental conditions after application with only 245 g a.i. ha-1 required for 80% control 4 WAT in both years. Excellent full season control of all weed species was achieved with saflufenacil/dimethenamid-p applied PRE followed by glyphosate postemergence (POST). However, there was no difference in yield when saflufenacil/dimethenamid-p was followed by glyphosate POST compared to a single glyphosate POST application. / BASF Canada

The objective of this thesis was to investigate the genomic changes that have occurred due to the effects of long-term artificial selection applied by soybean breeders. A total of 42 cultivars from six different breeding programs, comprising the multi-generational pedigree of OAC Bayfield were genotyped with molecular markers and chromosomal inheritance was tracked throughout the pedigree. The graphical genotype profile of the 20 chromosomes revealed substantial allelic structure that has been built up in certain chromosomes, in the form of specific linkage blocks, which have been conservatively inherited. A selective sweep analysis using microsatellite markers was performed using the members of OAC Bayfield’s pedigree to identify genomic regions that have retained a molecular selective signature through OAC Bayfield in the varieties derived from it. Overall, there was a high level of agreement between the identified quantitative trait loci (QTL) and the phenotypic traits that would have been expected to be under breeders’ selection.

As more contaminated sites are being discovered, new in situ remediation techniques need to be developed. Chemically treating soil with lime to increase soil pH is a method that may decrease the bioavailability of the contaminant. To test the usefulness of rendering metal-contaminated soils alkaline with dolomitic lime, to improve crop performance, field trials at a site in Port Colborne, ON, with soil nickel concentration (as high as 5000 mg/kg) from refinery emissions were completed. Oat and soybean yield, as well as plant uptake and bioavailabilty of nickel in soil were evaluated. Liming Ni-contaminated soils decreased soybean foliar Ni concentrations from 36.68 µg/g in unlimed fields to 19.98 µg/g in 50 t/ha limed fields in the 2007 growing season; yield of both oat and soybean in unlimed soils was the same (p>0.05) as at a reference site, suggesting that for these soils, remediation is not necessary for yield.

Soybean [Glycine max (L.) Merr.] seed is a major source of edible oil in the world and the main renewable raw material for biodiesel production in North America. Oil, which on average accounts for 20% of the soybean seed weight, is a complex quantitative trait controlled by many genes with mostly minor effects and influenced by environmental conditions. Because of its quantitative nature, the seed oil concentration may have an indirect effect on other economically important and agronomic traits such as seed yield and protein concentration. Increasing the oil concentration in soybean has been given more attention in recent years due to increasing demand for both edible oil and feedstock. To achieve this objective, it is important to understand the genetic control of the oil accumulation and its relationship with other traits. The main objectives of this thesis were to identify quantitative trait loci (QTL) and genes involved in oil biosynthesis in soybean. Two recombinant inbred line (RIL) populations were developed from crosses between moderately high oil soybean cultivars with high seed yield and protein concentration. In a population of 203 F3:6 RILs from a cross of ‘OAC Wallace’ and ‘OAC Glencoe’, a total of 11 genomic regions located on nine different chromosomes were identified as associated with oil concentration using multiple QTL mapping (MQM) and single-factor ANOVA. Among the 11 oil-associated QTL, four QTL were also validated in a population of 211 F3:5 RILs from a cross of ‘RCAT Angora’ and ‘OAC Wallace’. There were six oil QTL identified in this study that were co-localized with seed protein QTL and four for seed yield QTL. The oil-beneficial allele of the QTL tagged by marker Sat_020, on Chromosome 9, was positively associated with seed protein concentration. The oil-enhancing alleles at markers Satt001 and GmDGAT2B were positively correlated with seed yield. In this study, three sequence mutations were also discovered in either the coding or non-coding regions of three DGAT soybean genes (GmDGAT2B, GmDGAT2C, and GmDGAT1B) between ‘OAC Wallace’ and ‘OAC Glencoe’ that showed significant effects on some of the traits evaluated. GmDGAT2B showed significant association with seed oil and yield across different environments. The oil-favorable allele of the gene GmDGAT2B from ‘OAC Glencoe’ was also positively correlated with seed yield. GmDGAT2C was associated with seed yield, whereas GmDGAT1B showed significant effects on seed yield and protein concentration. However, neither of these two genes showed any association with seed oil. The yield-enhancing allele of GmDGAT1B showed negative association with protein concentration. The identification of oil QTL that were either positively associated with seed yield and protein or neutral to both traits and the development of new gene-based markers will facilitate marker-assisted breeding to develop high oil soybean cultivars with high yield and minimal effect on protein concentration. / Generous funding to conduct this research was provided by the Alternative Renewable Fuels II Program of the Ontario Ministry of Agriculture, Food and Rural Affairs (OMAFRA) and by the Grain Farmers of Ontario.

This study used environmental life cycle assessment (LCA) to investigate waste vegetable oil (WVO) biodiesel production at the University of Guelph, Ridgetown Campus, Centre for Agricultural Renewable Energy and Sustainability (CARES). CARES production data and Natural Resources Canada’s GHGenius LCA data were utilized to conduct a well-to-gate LCA. A range of scenarios were studied including using soybean oil feedstock and implementing methanol recovery. Results suggest that methanol is the environmental bottleneck of the WVO biodiesel production system. Results also suggest soybean biodiesel production released more GHG emissions and consumed more energy than both WVO biodiesel or petroleum diesel production. LCA is an iterative process. Due to the study’s limited scope, and status as a screening study, it is recommended that the study of the impacts of the CARES facility be redone with more reliable facility data, that it include the anaerobic digester, as well as a well-to-wheels boundary. / University of Guelph

Ca2+ functions as a second messenger in all eukaryotes. Such Ca2+ signaling is used to coordinate plant responses to numerous stimuli, both developmental and environmental. Ca2+ signals are often transduced via the action of the ubiquitous Ca2+ sensor calmodulin (CaM). CaM-dependent protein phosphorylation forms an important component of such signal transduction pathways, including that regulating the initiation and development of symbiotic rhizobial nodules in legumes such as soybean (Glycine max). To further understand the role of Ca2+/CaM during nodule organogenesis, a nodule cDNA expression library was screened using radiolabeled CaM as a probe to identify novel CaM-binding proteins (CaMBPs). This screen resulted in the identification of a previously uncharacterized receptor-like kinase, termed GmCaMK1. The CaM-binding domain (CaMBD) of GmCaMK1 is located in a 24 residue region of GmCaMK1, which overlaps with the subdomain XI of a conserved Ser/Thr kinase domain. This CaMBD bound CaM in a Ca2+-dependent manner, and with high affinity (Kd = 1.4 nM). Furthermore, two hydrophobic residues (V372 and L375) were identified as critical for GmCaMK1-CaM interaction. Recombinant GmCaMK1 exhibited protein kinase activity in vitro, with autophosphorylation activity unaffected by the presence or absence of Ca2+/CaM. GmCaMK1 expression is enriched in developing nodules and main roots, and highest expression level was observed in lateral roots. While the function of CaM-binding to GmCaMK1 remains unclear, the affinity and Ca2+-dependence of the GmCaMK1-CaM interaction strongly suggests that GmCaMK1 is a physiologically relevant CaM target. The Arabidopsis ortholog of GmCaMK1, AtCaMK1 also bound CaM when expressed as a recombinant protein. GmCaMK1 is part of a multi-member family in soybean, as are putative homologs across taxa, suggesting that this is a novel, conserved family of CaMBPs. / Thesis (Master, Biology) -- Queen's University, 2010-01-28 16:00:48.69

Fertilizer applications of urea and triple superphosphate (TSP) may affect availability of plant nutrients in the soil through alteration of soil pH and sorption-displacement effects. The objectives of this experiment were to evaluate urea and TSP effects on nutrient availability to soybean (Glycine max L.). Field experiments were carried out on three Quebec soils; a Chicot sandy clay loam (Gleyed Melanic Brunisol), an Ormstown silty clay loam (Luvic Gleysol) and a Ste. Rosalie clay (Humic Gleysol). Three levels of TSP (0, 40, 80 kg $ rm P sb2O sb5 ha sp{-1}),$ and three levels of urea (0, 25, 50 kg N ha$ sp{-1})$ were incubated in the field and sampled at 4, 8, 12, and 16 weeks. Added TSP increased extractable P and decreased NO$ sb3$-N. Overall, alterations in nutrients other than N and P with added TSP or urea were not agronomically significant. There was increased concentration of N, P and Mo in soybean in some soils due to TSP application. Added urea increased Mg concentration in soybean. The concentration and uptake of Mo was positively correlated with soil extractable P and Mg. Consequently, application of TSP and urea together improved Mo uptake in the Chicot soil, while in slightly acid soils, Ormstown and Ste. Rosalie, TSP alone increased Mo uptake.