Comparison of multiple metagenomes using phylogenetic networks based on ecological indices View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2010-04-29

AUTHORS

Suparna Mitra, Jack A Gilbert, Dawn Field, Daniel H Huson

ABSTRACT

Second-generation sequencing technologies are fueling a vast increase in the number and scope of metagenome projects. There is a great need for the development of new methods for visualizing the relationships between multiple metagenomic data sets. To address this, a novel approach is presented that combines the use of taxonomic analysis, ecological indices and non-hierarchical clustering to provide a network representation of the relationships between different metagenome data sets. The approach is illustrated using several published data sets of different types, including metagenomes, metatranscriptomes and 16S ribosomal profiles. Application of the approach to the same data summarized at different taxonomical levels gives rise to remarkably similar networks, indicating that the analysis is very robust. Importantly, the networks provide the both visual definition and metric quantification for the non-rooted relationship between samples, combining the desirable characteristics of other tools into one. More... »

PAGES

1236-1242

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/ismej.2010.51

DOI

http://dx.doi.org/10.1038/ismej.2010.51

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1000387248

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/20428222


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