ArticleGigaScience2019
Galaxy mothur Toolset (GmT): a user-friendly application for 16S rRNA gene sequencing analysis using mothur.
Article in GigaScience, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Substrate-driven microbial specialization and cooperative dechlorination of chlorinated pollutants in estuarine ecosystems.Applied and environmental microbiology · 2026Article
- Alkaline-Acid Intestine Environment Controlled by A Carbonic Anhydrase Gene Influences Synthesis of Sex Pheromone by Symbionts.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Evaluating the protective effects of Aurodox in a murine model of Shiga toxin-producing Escherichia coli.npj antimicrobials and resistance · 2025Article
- Article
- Soil Microbial Communities Altered by Titanium Ions in Different Agroecosystems of Pitaya and Grape.Microbiology spectrum · 2022Article
- Development of rapid and precise approach for quantification of bacterial taxa correlated with soil health.Frontiers in microbiology · 2022Article
- Article
- Hormetic effect of 17α-ethynylestradiol on activated sludge microbial community response.Frontiers in microbiology · 2022Article
- Standardization of microbiome studies for urolithiasis: an international consensus agreement.Nature reviews. Urology · 2021Article
- Differences in the intestinal microbiota between insecticide-resistant and -sensitive Aedes albopictus based on full-length 16S rRNA sequencing.MicrobiologyOpen · 2021Article
- The Bacterial Community Diversity of Bathroom Hot Tap Water Was Significantly Lower Than That of Cold Tap and Shower Water.Frontiers in microbiology · 2021Article
- Effects of Different Hosts on Bacterial Communities of Parasitic WaspFrontiers in microbiology · 2020Article
- Understanding and overcoming the pitfalls and biases of next-generation sequencing (NGS) methods for use in the routine clinical microbiological diagnostic laboratory.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2019Review
- Galaxy mothur Toolset (GmT): a user-friendly application for 16S rRNA gene sequencing analysis using mothur.GigaScience · 2019Article
- MetaDEGalaxy: Galaxy workflow for differential abundance analysis of 16s metagenomic data.F1000Research · 2019Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe determination of microbial communities using the mothur tool suite (https://www.mothur.org) is well established. However, mothur requires bioinformatics-based proficiency in order to perform calculations via the command-line. Galaxy is a project dedicated to providing a user-friendly web interface for such command-line tools (https://galaxyproject.org/).
resultsWe have integrated the full set of 125+ mothur tools into Galaxy as the Galaxy mothur Toolset (GmT) and provided a set of workflows to perform end-to-end 16S rRNA gene analyses and integrate with third-party visualization and reporting tools. We demonstrate the utility of GmT by analyzing the mothur MiSeq standard operating procedure (SOP) dataset (https://www.mothur.org/wiki/MiSeq_SOP).
conclusionsGmT is available from the Galaxy Tool Shed, and a workflow definition file and full Galaxy training manual for the mothur SOP have been created. A Docker image with a fully configured GmT Galaxy is also available.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.