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Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

Patrick D. Schloss; Sarah L. Westcott; Thomas Ryabin; Justine R. Hall; Martin Hartmann; Emily B. Hollister; Ryan A. Lesniewski; Brian B. Oakley · Applied and Environmental Microbiology · 2009

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Author / responsible party
Patrick D. Schloss; Sarah L. Westcott; Thomas Ryabin; Justine R. Hall; Martin Hartmann; Emily B. Hollister; Ryan A. Lesniewski; Brian B. Oakley
Publisher
Applied and Environmental Microbiology
Year
2009
Language
English

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mothur aims to be a comprehensive software package that allows users to use a single piece of software to analyze community sequence data. It builds upon previous tools to provide a flexible and powerful software package for analyzing sequencing data. As a case study, we used mothur to trim, screen, and align sequences; calculate distances; assign sequences to operational taxonomic units; and describe the alpha and beta diversity of eight marine samples previously characterized by pyrosequencing of 16S rRNA gene fragments. This analysis of more than 222,000 sequences was completed in less than 2 h with a laptop computer.

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APA 7

Schloss, P. D, Westcott, S. L, Ryabin, T, Hall, J. R, Hartmann, M, Hollister, E. B, Lesniewski, R. A, & Oakley, B. B. (2009). Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities. https://doi.org/10.1128/aem.01541-09

MLA

Schloss, Patrick D, et al. "Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities." 2009. https://doi.org/10.1128/aem.01541-09.

Chicago

Schloss, Patrick D, Sarah L. Westcott, Thomas Ryabin, Justine R. Hall, Martin Hartmann, Emily B. Hollister, Ryan A. Lesniewski, and Brian B. Oakley. 2009. "Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities.". https://doi.org/10.1128/aem.01541-09.

Harvard

Schloss, P. D. et al. 2009, Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities, Applied and Environmental Microbiology, available at: https://doi.org/10.1128/aem.01541-09 [Accessed 8 Aug. 2026].

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Title
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Author / contributors
Patrick D. Schloss; Sarah L. Westcott; Thomas Ryabin; Justine R. Hall; Martin Hartmann; Emily B. Hollister; Ryan A. Lesniewski; Brian B. Oakley
Publisher
Applied and Environmental Microbiology
Publication year
2009
Language
English

Subjects

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Laptop; Software; Pyrosequencing; Computer science; Metagenomics; Data mining; Computational biology; Biology; Software engineering; Genetics; Gene; Programming language
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