Introducing mothur
Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Datos Bibliográficos
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.
Biology · Computational biology · Data mining · Gene · Laptop · Metagenomics · Operating system · Programming language · Pyrosequencing · Software engineering · Computer Science · Genetics · Genomics and Phylogenetic Studies · Gut microbiota and health · Microbial Community Ecology and Physiology · Software
Infant Fecal Fermentations with Galacto-Oligosaccharides and 2′-Fucosyllactose Show Differential Bifidobacterium longum Stimulation at Subspecies Level
Water Quality and Microbial Community in the Context of Ecological Restoration
Gut Microbiota Diversity and Composition Across Shift Types and the Effects of Walnut Supplementation—An Observational and Interventional Study
Dynamics of Microbial Communities during the Removal of Copper and Zinc in a Sulfate-Reducing Bioreactor with a Limestone Pre-Column System
Vertical Distribution of Bacterial Community Diversity and Water Quality during the Reservoir Thermal Stratification
Soil Pollution Characteristics and Microbial Responses in a Vertical Profile with Long-Term Tannery Sludge Contamination in Hebei, China
Can Probiotics Improve the Environmental Microbiome and Resistome of Commercial Poultry Production
Responses of Legume‐Associated Rhizobacterial Communities to Plant Diversity and Soil Traits in Alpine Grassland
Restoring Soil Health Through Plant Diversity
Hospitality and Re-Orientalist Thresholds
Global ecosystem thresholds driven by aridity
Reproducible, interactive, scalable and extensible microbiome data science using Qiime 2
Environmental biodiversity, human microbiota, and allergy are interrelated
Metagenomic biomarker discovery and explanation
Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa
Phyloseq
Qiime allows analysis of high-throughput community sequencing data
The Silva ribosomal RNA gene database project
Dada2
Differential soil fungus accumulation and density dependence of trees in a subtropical forest
Biochar amendment decreases soil microbial biomass and increases bacterial diversity in Moso bamboo ( Phyllostachys edulis ) plantations under simulated nitrogen deposition
Molecular characterization of phototrophic microorganisms in the forefield of a receding glacier in the Swiss Alps
Agroforestry alters the fluxes of greenhouse gases of Moso bamboo plantation soil
Recharge from glacial meltwater is critical for alpine springs and their microbiomes
Effects of Different Land Use Types and Soil Depths on Soil Mineral Elements, Soil Enzyme Activity, and Fungal Community in Karst Area of Southwest China
Dietary Intake Is Unlikely to Explain Symptom Severity and Syndrome-Specific Microbiome Alterations in a Cohort of Women with Fibromyalgia
Effects of Oenanthe javanica on Nitrogen Removal in Free-Water Surface Constructed Wetlands under Low-Temperature Conditions
Anti-Biofouling Performance of an Immobilized Indigenous Quorum Quenching Bacterium Bacillus cereus HG10 and Its Influence on the Microbial Community in a Bioreactor
A Preliminary Study of Bacterioplankton Community Structure in the Taiyangshan Wetland in Ningxia and Its Driving Factors
Pollen Monitoring by Optical Microscopy and DNA Metabarcoding
Dynamics of Bacterial and Fungal Communities during the Outbreak and Decline of an Algal Bloom in a Drinking Water Reservoir
Bioaerosols Play a Major Role in the Nasopharyngeal Microbiota Content in Agricultural Environment
Revealing Cryptic Changes of Cyanobacterial Community Structure in Two Eutrophic Lakes Using eDNA Sequencing
Diversity and Distribution Characteristics of Soil Microbes across Forest–Peatland Ecotones in the Permafrost Regions
Changes in Microbial Community Structures under Reclaimed Water Replenishment Conditions
A Community Multi-Omics Approach towards the Assessment of Surface Water Quality in an Urban River System
Assessing the Beneficial Effects of the Immunomodulatory Glycan LNFPIII on Gut Microbiota and Health in a Mouse Model of Gulf War Illness
Gut Microbiome Composition Associated With Major Depressive Disorder and Sleep Quality
Do Rural Second Homes Shape Commensal Microbiota of Urban Dwellers? A Pilot Study among Urban Elderly in Finland
Sludge Biochar Amendment and Alfalfa Revegetation Improve Soil Physicochemical Properties and Increase Diversity of Soil Microbes in Soils from a Rare Earth Element Mining Wasteland
Analysis of the Gut Microbiota and Inflammatory Factors in mGluR5-Knockout Mice
The Bioinformatics Virtual Coordination Network
Distinctive patterns of soil microbial community during forest ecosystem restoration in southwestern China
Conversion of rainforest to rubber plantations impacts the rhizosphere soil mycobiome and alters soil biological activity
Forest conversion alters the structure and functional processes of tropical forest soil microbial communities
Response of the plant–soil system to desertification in the Hulun Buir Sandy Land, China
Linking microbial community structure to function underneath moss‐dominated biocrusts in rare earth elements mine areas under a subtropical climate
Effect of selective logging on soil microbial communities in a Pinus yunnanensis forest
Microbial structure of carbon source utilization in rice rhizosphere and non‐rhizosphere soils with different short‐term tillage management
The incorporation of straw into the subsoil increases C, N, and P enzyme activities and nutrient supply by enriching distinctive functional microorganisms
Soil bacterial and fungal communities and associated nutrient cycling in relation to rice cultivation history after reclamation of natural wetland
Comparative effects of two humic substances on microbial dysbiosis in the rhizosphere soil where cucumber ( Cucumis sativus L.) is grown
Bacterial communities as indicators of soil health under a continuous cropping system
Response of ammonia‐oxidizing archaea and bacteria to streptomycin sulfate and penicillin in coastal wetlands along the Bohai Rim
Applying high-throughput rRNA gene sequencing to assess microbial contamination of a 40-year old exposed archaeological profile
Rhizosphere soil characteristics at different stand ages affect on plant organs’ nutrient distribution of Dendrocalamus giganteus forests following recovery of half-clump harvesting
Open Social Scholarship Annotated Bibliography
Urban microbial ecology of a freshwater estuary of Lake Michigan
Associations between human impacts and forest soil microbial communities
Wetland management strategies lead to tradeoffs in ecological structure and function
An introduction to microbiome analysis for human biology applications
Fecal bacterial diversity of wild Sichuan snub‐nosed monkeys ( Rhinopithecus roxellana )
Influence of age, reproductive cycling status, and menstruation on the vaginal microbiome in baboons ( Papio anubis )
Age‐related changes in the marmoset gut microbiome
A descriptive analysis of gut microbiota composition in differentially reared infant rhesus monkeys ( Macaca mulatta ) across the first 6 months of life
Molecular Diversity of Methanogens in Fecal Samples From Captive S umatran Orangutans ( P ongo abelii)
Feasibility of fecal microbiota transplantation via oral gavage to safely alter gut microbiome composition in marmosets
Assessing shifts in soil fungal community structure during the conversion of tropical semi-evergreen forest
Optimal conditions for biocrust propagation and changes in the abundance of microbial carbon and nitrogen fixation
The mechanism of Qing-Fei-Yin decoction against influenza
The anti-obesity effect of Ephedra sinica through modulation of gut microbiota in obese Korean women
Banxia Xiexin Decoction Alleviates as Co-Depression Disease by Regulating the Gut Microbiome-Lipid Metabolic Axis
Gancao-Gansui combination impacts gut microbiota diversity and related metabolic functions
Identification and action mechanism of lipid regulating components from Rhei Radix et rhizoma
Adolescent exposure to a solid high-fat, high-sugar ‘cafeteria’ diet leads to more pronounced changes in metabolic measures and gut microbiome composition than liquid sugar in female rats
Bones, barcodes, and biodiversity
| Obras citantes distintas | 76 |
|---|---|
| Citas por año | 4,75 |
| Intervalo de citas | 2010 - 2026 (17) |
| Velocidad de citación | current |
| Altamente citado | No |
| Tipos de cita | Neutras: 66 |