The microbial community structure is always a fundamental question in understanding the ecological significance of their activities in biogeochemical elemental cycles. Microorganisms are ubiquitously distributed in various marine depositional environments, such as subseafloor continental shelves and hydrothermal deposits along the Mid-Ocean Ridges.
Consequently, the M-SDS method resulted in higher DNA yield and cell lysis efficiency, lower DNA shearing, and higher diversity scores than other two methods, providing a comprehensive DNA assemblage of the microbial community on the seafloor depositional environment. In this regard, we standardized a modified SDS-based DNA extraction method (M-SDS), and its performance was then compared to those extracted by a recently developed hot-alkaline DNA extraction method (HA) and a commercial DNA extraction kit. This work aims to improve the previous SDS-based DNA extraction methods for high-biomass seafloor samples, such as pelagic sediments and metal sulfide chimney, to obtain high quality and high molecular weight of the genomic DNA applicable for the subsequent molecular ecological analyses. However, it is often challenging because of the difficulty of effective cell lysis without fragmenting the genomic DNA. Recovering high quality genomic DNA from environmental samples is a crucial primary step to understand the genetic, metabolic, and evolutionary characteristics of microbial communities through molecular ecological approaches.
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