Boosting DNA metabarcoding for biomonitoring with phylogenetic estimation of operational taxonomic units’ ecological profiles
نویسندگان
چکیده
منابع مشابه
Surprisingly extensive mixed phylogenetic and ecological signals among bacterial Operational Taxonomic Units
The lack of a consensus bacterial species concept greatly hampers our ability to understand and organize bacterial diversity. Operational taxonomic units (OTUs), which are clustered on the basis of DNA sequence identity alone, are the most commonly used microbial diversity unit. Although it is understood that OTUs can be phylogenetically incoherent, the degree and the extent of the phylogenetic...
متن کاملThe effects of parameter choice on defining molecular operational taxonomic units and resulting ecological analyses of metabarcoding data.
The combination of DNA barcoding and high-throughput (next-generation) sequencing (metabarcoding) provides many promises but also serious challenges. Generating a reliable comparable estimate of biodiversity remains a central challenge to the application of the technology. Many approaches have been used to turn millions of sequences into distinct taxonomic units. However, the extent to which th...
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...
متن کاملDefining operational taxonomic units using DNA barcode data.
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 کاملEcological Consistency of SSU rRNA-Based Operational Taxonomic Units at a Global Scale
Operational Taxonomic Units (OTUs), usually defined as clusters of similar 16S/18S rRNA sequences, are the most widely used basic diversity units in large-scale characterizations of microbial communities. However, it remains unclear how well the various proposed OTU clustering algorithms approximate 'true' microbial taxa. Here, we explore the ecological consistency of OTUs--based on the assumpt...
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ژورنال
عنوان ژورنال: Molecular Ecology Resources
سال: 2018
ISSN: 1755-098X
DOI: 10.1111/1755-0998.12919