声明
Chapter 1 Introduction and Review of Literature
1.1 Protected cultivation of horticultural crops in China:a brief scenario
1.2 Sustainable intensification of greenhouse crops:a key challenge in China
1.3 Continuous cropping obstacles:a negative plant-soil feedbacks
1.4Phenomenon of allelopathy in agriculture
1.4.1 Allelopathic interference:insight into cropping system
1.4.2 Allelopathic regulation:insight into cropping system
1.4.3 Allelopathic of garlic application:a dynamic approach in crop production
1.5 Implication of sustainable agriculture practices and organic inputs in cross talk
1.6Crop residue as soil amendment:a sustainable biological input
1.6.1Effect on soil quality environment
1.6.2Effect on plant growth and productivity
1.7AMF Mycorrhiza:a compatible symbiosis for plant-microbe interaction
1.7.1AM-mutualistic associationfor soil productivity
1.7.2AM-mutualistic associationfor plant growth and cropproductivity
1.8Diversified cropping system:a key ecological tool for positive plant-soil feedback
1.9A metagenomic insight into the high-throughput sequencing of soil microbiome analysis
1.10Research project objectives and scope of study
Chapter 2 Response of Cucumber Growth, Soil Quality and Microbial Community Composition to Soil Amendment with Garlic Stalk
2.1 Materials and methods
2.1.1 Site description and crop residue used
2.1.2 Experimental design and set-up
2.2 Measurements and data analysis
2.2.1 Soil sampling and analyses of chemical characteristics
2.2.2 Soil enzyme assays
2.2.3 Plant morphological and physiological measurements
2.2.4 DNA extraction and PCR amplification of 16S rRNA and 18S rRNA
2.2.5 Sequence processing and analysis
2.2.6 Statistical analysis
2.3 Results
2.3.1Effect on soil biochemical characteristics
2.3.2 Effect on soil bacterial and fungal community composition
2.3.3 Effect on soil bacterial and fungal alpha diversity
2.3.4 Relationship between soil properties and the top phyla (bacteria, fungi)
2.3.5 Effect on chlorophyll and leaf gas exchange parameters of cucumber
2.3.6 Effect on plant growth and yield of cucumber
2.4 Discussion
2.4.1Effect on the soil chemical and biochemical properties
2.4.2Effect on soil microbial community and diversity
2.4.3Short-term effects on the growth and productivity of cucumber
2.5Brief summary
Chapter 3 Response of Soil Quality, Microbial Community Composition, Cucumber Growth and Fruit Quality to Soil Amendment with Garlic Stalk and AMF under Continuous Cucumber Planted Soil
3.1Materials and methods
3.1.1 Site description, soil and organic amendments
3.1.2 Source of inoculum and maize-trap culture of AMF propagation
3.1.3 Experimental set-up, plant materials and treatments applications
3.1.4 Soil and plant sampling
3.1.5 Assessment of AMF indices
3.1.6 Plant growth observations
3.1.7 Fruit nutrient analysis and quality evaluation
3.1.8 Determination of soil properties
3.1.9 Molecular profiling of soilbacterial communities using Illumina HiSeq analysis
3.1.10 Molecular profiling of AMF communities using Illumina MiSeq analysis
3.1.11 Statistical analysis
3.2 Results
3.2.1 Effect on soil physicochemical and biological characteristics
3.2.2 Effect on soil bacterial community composition
3.2.3 Spatial variability in bacterial communities within the soil samples
3.2.4 Bacterial alpha diversity and species richness
3.2.5 Implication of soil edaphic variables on bacterial communities
3.2.6 Illumina MiSeq analysis for the identification of the AM community
3.2.7 Effect on AMF community composition
3.2.8 AMF community richness and diversity
3.2.9 Relationship between AMF community structure and cucumber productivity
3.2.10 Effect of organic amendments on fruit quality development
3.2.11 Effect of AMF development on cucumber fruit productivity
3.2.12 Effect on AMF development and root activity
3.2.13 Effect on the cucumber yield and fruit nutrient uptake
3.2.14 Effect on plant growth attributes
3.3 Discussion
3.3.1 Effect of AMF and GS on soil quality
3.3.2 Effect of AMF and GS on soil bacterial community composition
3.3.3 Soil edaphic factors affecting the bacterial community structure
3.3.4 Effect of organic amendments for the AM community composition
3.3.5 Effect on AMF structural development and fusarium incidence response
3.3.6 Effectiveness of RGS and AMF on plan growth attributes
3.4 Brief summary
Chapter 4 Response of Soil Microbial Community Structure and Cucumber Yield to Winter Catch Leafy Vegetable Crops
4.1 Materials and methods
4.1.1 Field description and experimental site
4.1.2 Experimental design, crop establishment and management
4.1.3 Soil sampling and analysis
4.1.4 DNA extraction, PCR amplification, and metagenomic sequencing
4.1.5 Sequence data analysis, bioinformatics
4.1.6 Predictive functional profiling of microbial communities using 16S rRNA gene
4.1.7 Statistical analysis
4.2 Results
4.2.1 Effect of winter catch leafy vegetable on soil properties
4.2.2 Taxonomic characterization of rhizosphere microbiota
4.2.3 Changes in bacterial community composition
4.2.4 Comparative assessment of microbial biomarkers
4.2.5 Soil bacterial diversity responses to different planting types
4.2.6 Linking bacterial community to soil properties
4.2.7 Predictive metagenomics profiling
4.2.8 Effect of cropping system on cucumber yield
4.3 Discussion
4.3.1 Changes in community composition and functional profiling of active microbiome
4.3.2 Effect of different cropping system on soil bacterial diversity
4.3.3 Effect of compositional shift on predictive metabolic functions
4.3.4 Effect of different cropping system on soil quality and cucumber yield
4.4Brief summary
Chapter 5 Conclusion, Innovation and Prospective
5.1 Main conclusion
5.1.1 Soil amendment with garlic stalk influenced the soil properties, cucumber growth and microbiome structure
5.1.2 The combined application of garlic stalk and AMF significantly affected the cucumber growth, physiology, fruit quality and AMF community structure
5.1.3 The identified garlic stalk-AMF synergistic interaction induced the soil quality and microbial community structure
5.1.4 The winter catch leafy vegetables altered the soil quality, microbial community structure, and cucumber yield
5.2 Innovative points of study
5.3 Future Perspectives
参考文献
APPENDIXES
CURRICULUM VITAE
致谢
