Exciting strain-level resolution studies of the food microbiome

FoodMicrobionet: A database for the visualisation and exploration of food bacterial communities based on network analysis

(2016) Eugenio Parente et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Polymorphism of the phosphoserine phosphatase gene in Streptococcus thermophilus and its potential use for typing and monitoring of population diversity

(2016) Annamaria Ricciardi et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Strain-level microbial epidemiology and population genomics from shotgun metagenomics

(2016) Matthias Scholz et al.   NATURE METHODS

Metatranscriptomics reveals temperature-driven functional changes in microbiome impacting cheese maturation rate

(2016) Francesca De Filippis et al.   Scientific Reports

ConStrains identifies microbial strains in metagenomic datasets

(2015) Chengwei Luo et al.   NATURE BIOTECHNOLOGY

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

Anvi’o: an advanced analysis and visualization platform for ‘omics data

(2015) A. Murat Eren et al.   PeerJ

Zooming into food-associated microbial consortia: a ‘cultural’ evolution

(2015) Luca Cocolin et al.   Current Opinion in Food Science

Cheese Rind Communities Provide Tractable Systems for In Situ and In Vitro Studies of Microbial Diversity

(2014) Benjamin E. Wolfe et al.   CELL

A Selected Core Microbiome Drives the Early Stages of Three Popular Italian Cheese Manufactures

(2014) Francesca De Filippis et al.   PLoS One

High-Throughput Sequencing and Metagenomics: Moving Forward in the Culture-Independent Analysis of Food Microbial Ecology

(2013) Danilo Ercolini   APPLIED AND ENVIRONMENTAL MICROBIOLOGY