Evaluation of magnetic cellulose bead-based DNA extraction from faecal materials for high-throughput bacterial community analyses
Studies on host-associated microbial communities using faecal samples has been providing important insights into the health, ecology and evolution of various animals. Many gut microbiome studies currently use manual kit-based DNA extraction methods, yet new methods that allow high-throughput sample processing are in demand. In this study, we evaluated magnetic cellulose bead-based DNA extraction methods, which can be automated in a work station, using mouse, Mus musculus (Linnaeus), and bovine, Bos taurus (Linnaeus), faeces as a model. Our data showed that those methods can provide good quantity and quality of extracted DNA suitable for 16S-rRNA-based microbiome analyses for a wide variety of samples, comparable to or more efficiently than the widely used standard method. The automated extraction requires less time and fewer manual steps, which makes these methods suitable for high-throughput faecal microbiome analyses.
KeywordsMicrobiome 16S-rRNA amplicon sequencing analysis Maxwell RSC automated workstation DNA extraction methods Faecal material
We thank Atsushi Iguchi and the veterinary parasitology laboratory in University of Miyazaki for providing faecal samples, and Ryusei Tanaka, Yasunobu Maeda and Aya Adachi for technical assistance.
This study was partly supported by the Japan Society for the Promotion of Science KAKENHI (Grant nos. 16H04722, 16K15267, and 26292178).
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