Metabolic network-guided binning of metagenomic sequence fragments.

ABSTRACT:

Motivation

Most microbes on Earth have never been grown in a laboratory, and can only be studied through DNA sequences. Environmental DNA sequence samples are complex mixtures of fragments from many different species, often unknown. There is a pressing need for methods that can reliably reconstruct genomes from complex metagenomic samples in order to address questions in ecology, bioremediation, and human health.

Results

We present the SOrting by NEtwork Completion (SONEC) approach for assigning reactions to incomplete metabolic networks based on a metabolite connectivity score. We successfully demonstrate proof of concept in a set of 100 genome-scale metabolic network reconstructions, and delineate the variables that impact reaction assignment accuracy. We further demonstra

SUBMITTER: Biggs MB 

PROVIDER: S-EPMC6169484 | biostudies-literature | 2016 Mar

REPOSITORIES: biostudies-literature