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IMG/M provides tools for analyzing the functional capability of microbial communities based on their metagenome sequence

Tutorial and training materials by OpenHelix

The Integrated Microbial Genomes with Microbiome samples (IMG/M) resource is a Data Management & Analysis System which provides tools for analyzing microbial community genomes (metagenomes). IMG/M offers analysis of the functional capability of microbial communities based on their metagenome sequence, in the context of reference isolate genomes included from the Integrated Microbial Genomes (IMG) system. IMG/M also provides tools which allow for genomic comparisons, and examination of the phylogenetic affiliations of genes within the genome.

You'll learn:

  • how to analyze the diversity and abundance of the microbes in a community
  • how to search for genes and navigate the gene details page
  • how to examine the relative abundance of various protein families in a microbial community
  • how to use tools for functional comparisons of genomes
  • how to examine the phylogenetic affiliations of genes within the genome

Related tutorials

This tutorial is a part of the tutorial group IMG resources. You might find the other tutorials in the group interesting:


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Recent BioMed Central research articles citing this resource

Gladden M John et al., Discovery and characterization of ionic liquid-tolerant thermophilic cellulases from a switchgrass-adapted microbial community. Biotechnology for Biofuels (2014) doi:10.1186/1754-6834-7-15

Wang Hui et al., The CtrA phosphorelay integrates differentiation and communication in the marine alphaproteobacterium Dinoroseobacter shibae Prokaryote microbial genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-130

Mercer G Ryan et al., Identification of a predicted partner-switching system that affects production of the gene transfer agent RcGTA and stationary phase viability in Rhodobacter capsulatus Signaling and cellular microbiology. BMC Microbiology (2014) doi:10.1186/1471-2180-14-71

Liu Yongchu et al., Gene prediction in metagenomic fragments based on the SVM algorithm Proceedings of the Third Annual RECOMB Satellite Workshop on Massively Parallel Sequencing (RECOMB-seq 2013) RECOMB-seq: Third Annual Recomb Satellite Workshop on Massively Parallel Sequencing. BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S5-S12

Thakur Subarna et al., Contrasted evolutionary constraints on secreted and non-secreted proteomes of selected Actinobacteria Comparative and evolutionary genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-474

More about the resource:

The Integrated Microbial Genomes with Microbiome samples, or IMG/M system, is an extension of the IMG system. It was developed jointly by the Genome Biology and Microbial Ecology Programs at the Joint Genome Institute of the U.S. Department of Energy, and by the Biological Data Management and Technology Center at Lawrence Berkeley National Laboratory. IMG/M currently contains a number of metagenomes and thousands of traditional genomes.

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Copyright 2009, OpenHelix, LLC.

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