Metagenomics (16s amplicon sequencing) and dgge analysis of bacterial diversity of acid mine drainage

Abstract

Acid mine drainages (AMDs) are characterized as low pH water containing metal, which is the best-known habitat for the microorganisms described as acidophiles. Most of these members do not survive above pH 4.0; therefore they are acidophilic. Because of these metabolic properties of acidophilic microorganisms, AMD is accepted as a model system in biogeochemical studies on iron and sulfur cycles for the analysis of microbial ecology. In this study, microbial diversity of the acid mine drainage in Can (Canakkale) was investigated by using culture-independent techniques including Denaturing Gradient Gel Electrophoresis (DGGE) and high-throughput sequencing. A total of 105,593,810 and 115,689,952 bases read were performed. Following sequencing, raw data were proceeded in "Quantitative Insights Into Microbial Ecology" (QIIME 1.9.1). Acidiphilium, Acidocella and Acidosoma were genus obtained by bioinformatic analysis. The highest rate belonged to Acidiphilium for each water sample. Acidiphilium cryptum, Acidithiobacillus sp. and Acidibacter ferrireducens were determined according to DGGE analysis.