微生物生态科学问题及实验设计.pptx

微生物生态：科学问题与实验设计;致谢;Institute for Environmental Genomics, Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK 73019;共同关心的问题;;研究背景;材料与方法;采样 ;采样量的影响;;测序量的影响;;;;15;估算方法的影响;;;CEE结论;Uncovering the soil microbial diversity in a subtropical forest;;;1.1 Soil microbial community composition;1.4 Species-accumulation curves;Tedersoo et al., Science 2014;Sampling;3. Conclusions;CEE结论;16S测序策略;宏基因组与GeoChip;What are the functional activities of a microbial community? What are the relationships between microbial community functional structure and ecosystem functioning? How does microbial community functional structure respond to environmental changes such as climate warming? ;Open format detection Could not assure the same genes/proteins/organisms can be compared across different samples. The results could be expected and thus are open High throughput Sequencing 454 sequencing, Illumina, PacBio Proteomics, Metabolomics Functional metagenomics Single cell genomics Closed format Ensure that the same genes/proteins/organisms can be compared across different samples. The results can be expected, and thus are close. BioLog Plates PhyloChip: 16S genes GeoChip: functional genes ;;Technical reproducibility measured by similarity among technical replicates;35;CEE评论;Microarrays: Glass slides or other solid surface containing thousands of genes arrayed by automated equipment. FGAs contain probes from the genes involved in various geochemical, ecological and environmental processes. C, N, S, P cylcings Organic contaminant degradation Metal resistance and reduction Antibiotic resistance Typical format: 50mer oligonucleotide arrays Useful for studying microbial communities Functional gene diversity and activity Limited phylogenetic diversity. ;GeoChip: A high throughput tool for linking community structure to functions;R D 100, among most outstanding 100 technological innovations and breakthrough in 2009;GeoChip Roadmap;Summary of GeoChip 5.0 probe information by