Tillage increases erosion rates and diminishes the quality of soils but has traditionally been a way to manage weeds and prepare a seedbed. No-till vegetable production can ameliorate the ill-effects of tillage in an economically effective way but has not been studied much in California. The objective of this thesis was to determine the viability of no-till vegetable cropping on the Central Coast of California. Tomatoes were grown in no-till and conventionally tilled treatments. Total yield, fruit weight, weed emergence, soil bulk density, soil aggregate stability, and soil organic carbon content were measured and compared. Yields and soil tests in both treatments were similar while weed emergence in the tilled plots was significantly higher than in no-till plots. The results may help vegetable producers determine how to make vegetable production on the Central Coast more sustainable.

<p>Plant microbiomes are increasingly recognized for their potential to help plants with critical functions such as nutrient acquisition. Nitrogen is the most limiting nutrient in agriculture and growers apply substantial amounts to meet crop needs. Only 50% of N fertilizers are generally taken up by plants and the rest is subject to loss which negatively affects environmental quality. Organic fertilizers such as cover crops and animal manure can help reduce this loss, though these materials must mineralize via microbial mediated processes before they are available for plant uptake, which makes managing fertility using these sources difficult. Some plants can scavenge nutrients from organic materials by stimulating positive priming processes in soil. Carrot (<i>Daucus carota.</i> L) is known as an N scavenging crop, making it an ideal model crop to study these interactions. In a greenhouse trial, soils were amended with an isotopically labeled corn residue to track N movement, and planted with one of five carrot genotypes expected to differ in nitrogen use efficiency (NUE). Changes in soil b-glucosidase activity, ammonium (NH₄⁺-N) and nitrate (NO₃^--N) concentrations, soil bacterial community composition, weight and carbon and N concentrations, and total δ¹⁵N of above and below ground carrot biomass were determined. Results indicate that there are genetic differences in the ability of carrots to promote priming under N limited conditions, which could be exploited to enhance NUE in carrots. Soil microbial communities differed between genotypes, indicating that some of these microbes could play a role in the differential N scavenging responses observed, and/or contribute to other important functions such as resistance to pests. Endophytic microbes residing inside carrot taproots also have potential to contribute to NUE and other benefits, but are notoriously difficult to isolate and culture. New next generation sequencing technologies have revolutionized the study of microbiomes, though using these tools to study bacterial endophytes in plants is still difficult due to co-amplification of plant organelles. Consequently, a second study was conducted to determine if subjecting carrot tissues to hollow fiber microfiltration followed by enzymatic digestion could enhance recovery and amplification of bacterial endophytes. Carrot taproot digests were subject to amplification using a standard V3-V4 16S primer set, as well as two alternative (blocking and mismatch) primer sets that have prevented amplification of plastids/mitochondria in other plant species. Results indicate that the microfiltration/digestion procedure can increase the number of bacterial endophyte OTUs assigned and could be further optimized for use in carrots. The blocking and mismatch primer sets were not as effective in blocking co-amplification of plant products as they are in other studies, possibly due to the presence of a high number of chromoplasts in carrot tissues. Taxonomic assignment of bacterial endophytes differed significantly between the primer sets, indicating that multiple primer sets may be needed to fully characterize these communities in carrots. The enzymatic digestion procedure could artificially inflate certain taxa, which could be helpful if targeting specific taxa. These studies demonstrate that carrots are intimately connected with microbes residing in the soil and within their taproots, and further exploration of these plant-soil-microbial relationships could enhance the yield and sustainability of carrot production systems.</p>

The soil microbial community has a major impact on ecosystem processes on a global scale. Anthropogenic stress has a significant effect on the composition, biomass and activity of the microbial community. In addition, this effect depends not only on the anthropogenic activity, but also on the environmental conditions. Modern analytical and molecular methods, including the use of biochemical markers, can be well used to monitor changes in the microbial community. These methods do not monitor the community directly, but detect the substances that are secreted and transformed by microbes and, last but not least, those that are part of them. The amount of these biochemical markers reflects the biomass, condition and taxonomic composition of a particular microbial community. In the presented work, these markers were used to monitor the response of microorganisms in various ecosystems which are affected directly or indirectly by human activity. The results of the dissertation are presented in four articles. Three of them have been published in international journals with IF and one is prepared in the form of a manuscript for publication. The first publication presents the results of research exploring the impact of traditional agriculture in Papua New Guinea on the soil microbial communities, soil...

This study looks at relationships along the hydrologic gradient between and within six pools; including the vegetation community, soil characteristics and hydrology. Pool conditions were monitored weekly throughout the 2011 and 2012 growing seasons. Each pool was equipped with permanent platinum-tipped redox probes to quantify the severity and duration of soil reduction. We described and analyzed 12 soil profiles in each pool, distributed in summit/upland, basin, and rim/transition positions as defined by the high water line. The pools were systematically surveyed for understory vegetation during the 2012 growing season. Vegetation patterns varied between study areas. No clear pattern of unique vegetation was evident from an ordination of the gradient communities. Time series redox potential data showed a visual relationship to water table fluxuation, but also a dampening effect from soil organic matter content in the basin positions.

<p> The vegetational colonization and development preceding the establishment of lichen-heath was examined on a Hudson Bay coastal raised-beach system. A continuous and directional developmental sequence of approximately 200 years was quantified on both a coastal intraridge sample sequence and on an inland interridge sample sequence. Increasing gradients of elevation, soil peat thickness and soil organic matter coincide with the vegetational development, however no appreciable changes in soil pH or concentrations of available nutrients were detected and it is concluded that these parameters have little influence on the development of lichen-heath at this site. Community composition over the ridge profile forms a second major vegetational gradient which appears to be affected primarily by environmental factors related to ridge morphology and orientation. The interactions of environmental factors in the development of lichen-heath are discussed.</p> / Thesis / Master of Science (MSc)

Current Virginia nitrogen (N) fertilizer recommendations do not include site-specific estimates of N supply from cover crops (CCs) or soil organic matter (SOM). Recent research successfully predicted the contribution of N from SOM and CCs to corn (Zea mays L.) in Pennsylvania. The objective of this work was to validate the biophysical model developed in Pennsylvania under Virginia conditions and to evaluate the decomposition rates of different surface-applied CC residues and the relationship between their chemical composition and decomposition rate. For the first objective, 83 N response trials were conducted in different regions of Virginia across 9 years using a randomized complete block design with four replications. The model was able to explain 47% and 15% of variability in unfertilized corn yield (RMSE = 1.6 Mg ha-1) and economical optimum N rate (EONR) (RMSE = 30 kg N ha-1) respectively. Efforts to improve the model by adding economically unresponsive sites improved the model performance to explain 45% of the variability in EONR. For the second objective, a lab incubation was performed to compare carbon (C) and N mineralization from four different CCs {Cereal Rye (CR), Hairy vetch (HV), Crimson clover (Cc) and Rapeseed (R)} on a sandy loam soil. Destructive sampling was performed at 6 different sampling dates – 3, 7, 14, 28, 56 and 112 days. ANOVA test revealed that the effects of CC species, incubation days and their interaction had a significant effect on mass decomposed, plant biochemical composition and net N mineralization. Variation in mass loss was positively related to lignin content for all the CCs while it was moderately correlated to C:N ratio for CR and R and weakly to HV and Cc. Biomass loss and N release was highest in HV followed by Cc, R and CR. Net N mineralization was highest in HV followed by R, Cc and CR amended soils. / Master of Science / Current Virginia nitrogen (N) fertilizer recommendations do not include site-specific estimates of N supply from cover crops or soil organic matter, both of which can influence crop N need. Recent research successfully predicted the contribution of N from cover crops and soil to corn (Zea mays L.) in Pennsylvania. The objectives of this work were to validate the biophysical model developed in Pennsylvania under Virginia conditions and to evaluate the decomposition rates of different surface-applied cover crop residues and the relationship between their chemical composition and decomposition rate. The Pennsylvania-developed model was able to successfully estimate the economical optimum N rate for corn and predict the yield of unfertilized corn. Corn yield did not increase with increasing N rates in some fields. When these sites were omitted, the accuracy of the model improved. For the second objective, a lab incubation study was performed comparing C and N released from Cereal Rye (CR), Hairy vetch (HV), Crimson clover (Cc) and Rapeseed (R)} on a sandy loam soil. Destructive sampling was performed at 6 different sampling dates – 3, 7, 14, 28, 56 and 112 days. Variation in mass loss was positively related to lignin content for all the cover crops while it was moderately correlated to C:N ratio for CR and R and weakly to HV and Cc. Biomass loss and N release was highest in HV followed by Cc, R and CR.

The aim of this thesis was the experimental evaluation of thermogravimetry (TG) to assess the status of organic matter supply in agricultural soils. TG is an innovative analytical method for recording thermal mass losses (TML) during heating of soil samples from room temperature to 950 °C. The determination of TML in 10 °C temperature increments (TG indicators) is a central method of TG data evaluation. There is a very close correlation between selected temperature ranges and classically determined soil properties (organic carbon, total nitrogen and clay content). The regression parameters of these relationships can be used to estimate soil properties and to assess the quality of SOM.:List of Tables VI List of Figures VII List of Abbreviations VIII Summary 10 Zusammenfassung 13 Chapter One – Synthesis: Thermogravimetry – a promising technique to assess the status of organic matter supply in agricultural soils 16 1 Introduction 16 1.1 Soils and agriculture 16 1.2 The Importance of soil organic matter (SOM) 17 1.3 Current challenges in the assessment of SOM as an indicator of soil quality 18 1.4 Main objectives 20 2 Methodological Approach 22 2.1 General approach 22 2.2 Experimental areas and soil description 22 2.3 Application of thermogravimetric analysis (TG) 28 2.4 Experimental design 29 2.4.1 SOC content determination using TML (chapter two and chapter five) 29 2.4.2 Detectability of thermal stabilities of organic amendments in soil samples using TML (chapter two) 30 2.4.3 Comparison between biological and thermal stability of SOM (chapter two and chapter three) 30 2.4.4 Linking thermogravimetric data with soil properties, thermal stability of SOM and SOC fractions (chapter four and chapter five) 31 3 Results and Discussion 32 3.1 Thermogravimetric-based fingerprint predictions of soil properties and soil organic matter stability (chapter two and chapter three) 32 3.2 Linking thermogravimetric indicators with functional SOC fractions to assess SOM quality (chapter four and chapter five) 35 4. Research needs and perspectives 37 5. Conclusion 40 References 40 Chapter Two: Contribution of organic amendments to soil organic matter detected by thermogravimetry 51 Chapter Three: Detectability of degradable organic matter in agricultural soils by thermogravimetry 52 Chapter Four: Linking soil organic matter thermal stability with contents of clay, bound water, organic carbon and nitrogen 53 Chapter Five: Linking thermogravimetric data with soil organic carbon fractions 54 Appendix 55 List of publications 55 Acknowledgments 56

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