ES1 -- Illumina Miseq Sequencing Investigation on The Soil Bacterial Community Profiles At Lander University
Document Type
Event
Abstract
Lander University’s campus is a unique built environment that serves as a hub of high human and animal activity. Most bioactive microorganisms are found in the first few inches of the soil that also contain pollutants, agricultural products, and fecal matter, so Lander’s soil environment should be a of unique microorganisms. After a brief literature review, it has been noted that little research has been published on the bioactivity and diversity of microbial communities on college campuses. Soil samples were collected on campus in areas of high animal, human, and automobile traffic. Each soil sample was analyzed independently for microbial community analysis. DNA was extracted from 2.5 g of soil using Quiagen DNeasy PowerSoil Pro Kit following the standard manufacturer's protocol. Concentrations of extracted DNA were assessed using a Nanodrop spectrophotometer to ensure successful DNA extraction and quantification for sequence library preparation. DNA samples were sent to University of Michigan’s Microbiome Core (Ann Arbor, MI) for library preparation and next generation sequencing. The V4 region of the 16S rRNA gene was amplified for downstream sequencing with the commonly used primers 16Sf-V4 (515f) and 16Sr-V4 (806r) and a previously developed protocol (Caporaso et al. 2012; Kozich et al. 2013). Sequencing was accomplished via a MiSeq high-throughput sequencer (Illumina, San Diego, CA). Acquired DNA sequences were filtered for quality and analyzed using MOTHUR v 1.47.0 (Schloss et al. 2009) following the MiSeq SOP (available at https://www.mothur.org/) with modifications. This study has provided an initial characterization of microbial communities collected on the Lander University college campus in Greenwood, South Carolina.
Keywords
Ecological Science
ES1 -- Illumina Miseq Sequencing Investigation on The Soil Bacterial Community Profiles At Lander University
URC Greatroom
Lander University’s campus is a unique built environment that serves as a hub of high human and animal activity. Most bioactive microorganisms are found in the first few inches of the soil that also contain pollutants, agricultural products, and fecal matter, so Lander’s soil environment should be a of unique microorganisms. After a brief literature review, it has been noted that little research has been published on the bioactivity and diversity of microbial communities on college campuses. Soil samples were collected on campus in areas of high animal, human, and automobile traffic. Each soil sample was analyzed independently for microbial community analysis. DNA was extracted from 2.5 g of soil using Quiagen DNeasy PowerSoil Pro Kit following the standard manufacturer's protocol. Concentrations of extracted DNA were assessed using a Nanodrop spectrophotometer to ensure successful DNA extraction and quantification for sequence library preparation. DNA samples were sent to University of Michigan’s Microbiome Core (Ann Arbor, MI) for library preparation and next generation sequencing. The V4 region of the 16S rRNA gene was amplified for downstream sequencing with the commonly used primers 16Sf-V4 (515f) and 16Sr-V4 (806r) and a previously developed protocol (Caporaso et al. 2012; Kozich et al. 2013). Sequencing was accomplished via a MiSeq high-throughput sequencer (Illumina, San Diego, CA). Acquired DNA sequences were filtered for quality and analyzed using MOTHUR v 1.47.0 (Schloss et al. 2009) following the MiSeq SOP (available at https://www.mothur.org/) with modifications. This study has provided an initial characterization of microbial communities collected on the Lander University college campus in Greenwood, South Carolina.