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

Applied and Environmental Microbiology - Tập 75 Số 23 - Trang 7537-7541 - 2009
Patrick D. Schloss1,2, Sarah L. Westcott1,2, Thomas Ryabin2, Justine R. Garcia3, Martin Hartmann4, Emily B. Hollister5, Ryan A. Lesniewski6, Brian B. Oakley7, Donovan H. Parks8, Courtney J. Robinson1, Jason W. Sahl9, Blaž Stres10, Gerhard Thallinger11, David J. Horn1, Carolyn F. Weber12
1Department of Microbiology and Immunology, University of Michigan, Ann Arbor, Michigan
2Department of Microbiology, University of Massachusetts, Amherst, Massachusetts
3Department of Biology, University of New Mexico, Albuquerque, New Mexico
4Department of Microbiology and Immunology, University of British Columbia, Vancouver, BC, Canada
5Department of Soil and Crop Sciences, Texas A&M University, College Station, Texas
6Department of Soil, Water, and Climate, University of Minnesota, St. Paul, Minnesota
7Department of Biological Sciences, University of Warwick, Coventry, United Kingdom
8Faculty of Computer Science, Dalhousie University, Halifax, NS, Canada
9Environmental Science and Engineering, Colorado School of Mines, Golden, Colorado
10Department of Animal Science, University of Ljubljana, Ljubljana, Slovenia
11Institute for Genomics and Bioinformatics, Graz University of Technology, Graz, Austria
12Department of Biological Sciences, Louisiana State University, Baton Rouge, Lousiana

Tóm tắt

ABSTRACT 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 α and β 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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Thông tin xuất bản

Applied and Environmental Microbiology

Tập 75 Số 23

7537-7541

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