基于SSU rRNA基因序列甲拌磷污染底泥细菌多样性研究
毕业论文关键词：土壤宏基因组;SSU rRNA;16S rRNA;微生物群落;生物降解;甲拌磷污染
Study of bacterial persity in bottom sludge contaminated with phorate based on SSU rRNA gene sequence
Abstract:Pesticide plays an important role in the production and development of agriculture, but also caused serious environmental pollution. Phorate is the most toxic among these pesticides. The treatment of phorate pollution, in terms of biodegrading it, is probably today’s most important biotechnological process. To explore the superior strains in phorate-contaminated bottom sludge, we adopted metagenomic analysis based on Illumina high-throughput sequencing and used SSU rRNA as an indicator of taxonomy. Then 19291 SSU rRNA gene reads were derived from the land around a pesticide plant. The results showed that approximately 66.44% are Bacteria, and the Eukaryota and Archaea are 32.98%,0.58%, respectively. Among these, the most abundant phyla were Proteobacteria (27.09%), followed by Actinobacteria(14.78%), Firmicutes(4.48%). At the class level, about 16.82%, 12.74%, 5.66% were affiliated to class Gammaproteobacteria, no rank Actinobacteria, Alphaproteobacteria, respectively. Additionally, many other classes are also present in low abundances. Besides, we also found that the taxonomy based on 16S rRNA gene sequence showed us that about 41.07%, 36.28% and 7.34% were affiliated to Proteobacteria, followed by Actinobacteria, Firmicutes, respectively. These results were consistent with the taxonomy by SSU rRNA gene sequence analysis. In conclusion, this study demonstrated SSU rRNA gene sequence analysis can be used as one of taxonomy methods. In the present study, it showed the superior strains, proteobacteria may have the potential for use in bioremediation of phorate-contaminated bottom sludge.
Keywords: Soil metagenome; SSU rRNA; 16S rRNA; Microbial community; Biodagradation; Phorate contamination
目录
引言 1
1 材料与方法 2
1.1 底泥样品采集 2
1.2 DNA提取与纯化 2
1.3 Illumina公司(Solexa)测序 3
1.4 生物信息学分析 3
1.4.1 SSU rRNA基因序列分析 3
1.4.2 16S rRNA基因序列分析 3
2 结果与分析 4
2.1 基于SSU rRNA基因序列的底泥微生物群落的分类学分析 4
2.2 基于16S rRNA基因序列的底泥微生物群落的分类学分析 4
3 讨论 8
3.1 基于SSU rRNA和16S rRNA基因序列的分类学比较 8
3.2微生物降解作用 8