Introducing DOTUR, a Computer Program for Defining Operational Taxonomic Units and Estimating Species Richness
نویسندگان
چکیده
منابع مشابه
Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness.
Although copious qualitative information describes the members of the diverse microbial communities on Earth, statistical approaches for quantifying and comparing the numbers and compositions of lineages in communities are lacking. We present a method that addresses the challenge of assigning sequences to operational taxonomic units (OTUs) based on the genetic distances between sequences. We de...
متن کاملDefining DNA-based operational taxonomic units for microbial-eukaryote ecology.
DNA sequence information has increasingly been used in ecological research on microbial eukaryotes. Sequence-based approaches have included studies of the total diversity of selected ecosystems, studies of the autecology of ecologically relevant species, and identification and enumeration of species of interest for human health. It is still uncommon, however, to delineate protistan species base...
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The scale of diversity of life on this planet is a significant challenge for any scientific programme hoping to produce a complete catalogue, whatever means is used. For DNA barcoding studies, this difficulty is compounded by the realization that any chosen barcode sequence is not the gene 'for' speciation and that taxa have evolutionary histories. How are we to disentangle the confounding effe...
متن کاملReconciliation between operational taxonomic units and species boundaries
The development of high-throughput sequencing technologies has revolutionised the field of microbial ecology via 16S rRNA gene amplicon sequencing approaches. Clustering those amplicon sequencing reads into operational taxonomic units (OTUs) using a fixed cut-off is a commonly used approach to estimate microbial diversity. A 97% threshold was chosen with the intended purpose that resulting OTUs...
متن کاملEstimating species richness
Measuring species richness is an essential objective for many community ecologists and conservation biologists. The number of species in a local assemblage is an intuitive and natural index of community structure, and patterns of species richness have been measured at both small (e.g. Blake & Loiselle 2000) and large (e.g. Rahbek & Graves 2001) spatial scales. Many classic models in community e...
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ژورنال
عنوان ژورنال: Applied and Environmental Microbiology
سال: 2005
ISSN: 0099-2240,1098-5336
DOI: 10.1128/aem.71.3.1501-1506.2005