RT Journal Article
SR Electronic
T1 Phylogenetic factorization of compositional data
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 074112
DO 10.1101/074112
A1 Alex D Washburne
A1 Justin D Silverman
A1 Jonathan W Leff
A1 Dominic J Bennett
A1 John L. Darcy
A1 Sayan Mukherjee
A1 Noah Fierer
A1 Lawrence A David
YR 2016
UL http://biorxiv.org/content/early/2016/09/12/074112.abstract
AB Marker gene sequencing of microbial communities has generated big datasets of microbial relative abundances varying across environmental conditions, sample sites and treatments. These data often come with putative phylogenies, providing unique opportunities to investigate how shared evolutionary history affects microbial abundance patterns. Here, we present a method to identify the phylogenetic factors driving patterns in microbial community composition. We use the method, “phylofactorization”, to re-analyze datasets from human body and soil microbial communities, demonstrating how phylofactorization can be a dimensionality-reducing tool, an ordination-visualization tool, and also mass-produce inferences on the edges in the phylogeny in which meaningful differences arose.