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Metagenomics

 

Metagenomics has become one of the most sophisticated tools for the detection and identification of new genes, gene products, metabolic pathways and secondary metabolites, through the identification of the phylogenetic and functional composition of microbial communities in different ecosystems.

The Center for Bioinformatics and Computational Biology -BIOS has the computational capacity, bioinformatics tools and experts for conducting exhaustive analyses on metagenome data in order to infer the composition and metabolic potential of microbial communities present in different environments.

To carry out a reconstruction of complete genomes from a metagenomics sample, it is necessary to have robust bioinformatics tools. A well-known method called "binning" is employed in order to perform an assembly of each of the metagenomes found by means of a classification of the contigs that are assembled.

Workflows or pipelines for this analysis include:

  • Quality analysis of the sequences
  • Assembling and Binning
  • Functional and structural annotation of genomes

The Center for Bioinformatics and Computational Biology -BIOS has the bioinformatics tools for performing taxonomic and functional analyses associated with:

  • Taxonomic analysis using 16S rRNA sequencing data (or 18S rRNA in the case of eukaryotes). The information present in these molecules is used for phylogenetic classification and identification and allows the study of the taxonomic diversity of a microbial community.
  • Taxonomic analysis of complete genomes

The analyses required include data pre-processing, followed by taxonomic mapping using different databases specific for 16S rRNA or 18S RNA genes (such as GreenGenes, SILVA, RDP, NCBI, rRNA-Central databases) and the use of computer programs, such as MEGAN, QIIMME, RDP Classifier, that allow taxonomic classification.