Cargando…

Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates

DNA metabarcoding is promising for cost-effective biodiversity monitoring, but reliable diversity estimates are difficult to achieve and validate. Here we present and validate a method, called LULU, for removing erroneous molecular operational taxonomic units (OTUs) from community data derived by hi...

Descripción completa

Detalles Bibliográficos
Autores principales:	Frøslev, Tobias Guldberg, Kjøller, Rasmus, Bruun, Hans Henrik, Ejrnæs, Rasmus, Brunbjerg, Ane Kirstine, Pietroni, Carlotta, Hansen, Anders Johannes
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Nature Publishing Group UK 2017
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662604/ https://www.ncbi.nlm.nih.gov/pubmed/29084957 http://dx.doi.org/10.1038/s41467-017-01312-x

Ejemplares similares

Predicting provenance of forensic soil samples: Linking soil to ecological habitats by metabarcoding and supervised classification
por: Fløjgaard, Camilla, et al.
Publicado: (2019)

Scrub encroachment promotes biodiversity in temperate European wetlands under eutrophic conditions
por: Brunbjerg, Ane Kirstine, et al.
Publicado: (2022)

A systematic survey of regional multi-taxon biodiversity: evaluating strategies and coverage
por: Brunbjerg, Ane Kirstine, et al.
Publicado: (2019)

Light detection and ranging explains diversity of plants, fungi, lichens, and bryophytes across multiple habitats and large geographic extent
por: Moeslund, Jesper Erenskjold, et al.
Publicado: (2019)

Dark diversity reveals importance of biotic resources and competition for plant diversity across habitats
por: Fløjgaard, Camilla, et al.
Publicado: (2020)

Detecting flying insects using car nets and DNA metabarcoding
por: Svenningsen, Cecilie S., et al.
Publicado: (2021)

Strong microsite control of seedling recruitment in tundra
por: Graae, Bente J., et al.
Publicado: (2010)

Taxonomy of Tricholoma in northern Europe based on ITS sequence data and morphological characters
por: Heilmann-Clausen, J., et al.
Publicado: (2016)

Large-scale differences in microbial biodiversity discovery between 16S amplicon and shotgun sequencing
por: Tessler, Michael, et al.
Publicado: (2017)

New Type of Papillomavirus and Novel Circular Single Stranded DNA Virus Discovered in Urban Rattus norvegicus Using Circular DNA Enrichment and Metagenomics
por: Hansen, Thomas Arn, et al.
Publicado: (2015)

The Global Registry of Biodiversity Repositories: A Call for Community Curation
por: Schindel, David E., et al.
Publicado: (2016)

Total RNA sequencing reveals multilevel microbial community changes and functional responses to wood ash application in agricultural and forest soil
por: Bang-Andreasen, Toke, et al.
Publicado: (2020)

Natural Biodiversity Breaks Plant Yield Barriers
Publicado: (2004)

Interrater Reliability of Diagnostic Methods in Traditional Indian Ayurvedic Medicine
por: Kurande, Vrinda, et al.
Publicado: (2013)

Corrected data re-harvested: curating literature in the era of networked biodiversity informatics
por: Miller, Jeremy A., et al.
Publicado: (2015)

Complementary Use of Cultivation and High-Throughput Amplicon Sequencing Reveals High Biodiversity Within Raw Milk Microbiota
por: Breitenwieser, Franziska, et al.
Publicado: (2020)

Wood Ash Induced pH Changes Strongly Affect Soil Bacterial Numbers and Community Composition
por: Bang-Andreasen, Toke, et al.
Publicado: (2017)

Nanopore sequencing of long ribosomal DNA amplicons enables portable and simple biodiversity assessments with high phylogenetic resolution across broad taxonomic scale
por: Krehenwinkel, Henrik, et al.
Publicado: (2019)

Amplicon-based metagenomics identified candidate organisms in soils that caused yield decline in strawberry
por: Xu, Xiangming, et al.
Publicado: (2015)

Application of wood ash leads to strong vertical gradients in soil pH changing prokaryotic community structure in forest top soil
por: Bang-Andreasen, Toke, et al.
Publicado: (2021)

An expert curated global legume checklist improves the accuracy of occurrence, biodiversity and taxonomic data
por: le Roux, M. Marianne, et al.
Publicado: (2022)

Curated and harmonized gut microbiome 16S rRNA amplicon data from dietary fiber intervention studies in humans
por: Rodriguez, Cynthia I., et al.
Publicado: (2023)

Improving comparability between microarray probe signals by thermodynamic intensity correction
por: Bruun, Georg M., et al.
Publicado: (2007)

Global evidence of positive impacts of freshwater biodiversity on fishery yields
por: Brooks, Emma Grace Elizabeth, et al.
Publicado: (2016)

A global database of diversified farming effects on biodiversity and yield
por: Jones, Sarah K., et al.
Publicado: (2021)

Characterizing novel endogenous retroviruses from genetic variation inferred from short sequence reads
por: Mourier, Tobias, et al.
Publicado: (2015)

Removing Noise From Pyrosequenced Amplicons
por: Quince, Christopher, et al.
Publicado: (2011)

Use of corticosteroids during pregnancy and risk of asthma in offspring: a nationwide Danish cohort study
por: Byrjalsen, Anna, et al.
Publicado: (2014)

Maternal inflammatory bowel disease and hypospadias in male offspring: a population-based study in Denmark
por: Andersen, Ane Birgitte Telén, et al.
Publicado: (2016)

Autism spectrum disorders in children of parents with inflammatory bowel disease – a nationwide cohort study in Denmark
por: Andersen, Ane Birgitte Telén, et al.
Publicado: (2014)

Parental Inflammatory Bowel Disease and Risk of Asthma in Offspring: A Nationwide Cohort Study in Denmark
por: Andersen, Ane Birgitte Telén, et al.
Publicado: (2013)

Nightlife activity and crime: The impact of COVID-19 related nightlife restrictions on violent crime
por: Ejrnæs, Anders, et al.
Publicado: (2022)

In utero exposure to antidepressant drugs and risk of attention deficit hyperactivity disorder: a nationwide Danish cohort study
por: Laugesen, Kristina, et al.
Publicado: (2013)

Fungal community analysis by high-throughput sequencing of amplified markers – a user's guide
por: Lindahl, Björn D, et al.
Publicado: (2013)

A Protocol to Retrieve and Curate Spatial and Climatic Data from Online Biodiversity Databases Using R
por: Coca-De-La-Iglesia, Marina, et al.
Publicado: (2023)

Competitive amplification of differentially melting amplicons (CADMA) improves KRAS hotspot mutation testing in colorectal cancer
por: Kristensen, Lasse Sommer, et al.
Publicado: (2012)

Ectomycorrhizal Fungal Communities and Their Functional Traits Mediate Plant–Soil Interactions in Trace Element Contaminated Soils
por: Gil-Martínez, Marta, et al.
Publicado: (2018)

Effects of Chemical and Mechanical Lysis on Microbial DNA Yield, Integrity, and Downstream Amplicon Sequencing of Rumen Bacteria and Protozoa
por: Ma, Zhi Yuan, et al.
Publicado: (2020)

Intrarater and interrater reliability of pulse examination in traditional Indian Ayurvedic medicine
por: Kurande, Vrinda, et al.
Publicado: (2013)

A quasi-experimental study of ethnic and gender bias in university grading
por: Bischoff, Carina Saxlund, et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_dvh6ut98ousu9htnpo7qa41bvs