Metagenomic approaches are increasingly recognized as a baseline for understanding the ecology and evolution of microbial ecosystems. The development of methods for pathway inference from metagenomics data is of paramount importance to link a phenotype to a cascade of events stemming from a series of connected sets of genes or proteins. Biochemical and regulatory pathways have until recently been thought and modelled within one cell type, one organism, one species. This vision is being dramatically changed by the advent of whole microbiome sequencing studies, revealing the role of symbiotic microbial populations in fundamental biochemical functions. The new landscape we face requires a clear picture of the potentialities of existing tools and development of new tools to characterize, reconstruct and model biochemical and regulatory pathways as the result of integration of function in complex symbiotic interactions of ontologically and evolutionary distinct cell types

De Filippo, C.; Ramazzotti, M.; Fontana, P.; Cavalieri, D. (2012). Bioinformatic approaches for functional annotation and pathway inference in metagenomics data. BRIEFINGS IN BIOINFORMATICS, 13 (6): 696-710. doi: 10.1093/bib/bbs070 handle: http://hdl.handle.net/10449/21562

Bioinformatic approaches for functional annotation and pathway inference in metagenomics data

De Filippo, Carlotta;Fontana, Paolo;Cavalieri, Duccio
2012-01-01

Abstract

Metagenomic approaches are increasingly recognized as a baseline for understanding the ecology and evolution of microbial ecosystems. The development of methods for pathway inference from metagenomics data is of paramount importance to link a phenotype to a cascade of events stemming from a series of connected sets of genes or proteins. Biochemical and regulatory pathways have until recently been thought and modelled within one cell type, one organism, one species. This vision is being dramatically changed by the advent of whole microbiome sequencing studies, revealing the role of symbiotic microbial populations in fundamental biochemical functions. The new landscape we face requires a clear picture of the potentialities of existing tools and development of new tools to characterize, reconstruct and model biochemical and regulatory pathways as the result of integration of function in complex symbiotic interactions of ontologically and evolutionary distinct cell types
Pathway Analysis
Next Generation Sequencing
Metagenomics
Pathway reconstruction
Settore BIO/18 - GENETICA
2012
De Filippo, C.; Ramazzotti, M.; Fontana, P.; Cavalieri, D. (2012). Bioinformatic approaches for functional annotation and pathway inference in metagenomics data. BRIEFINGS IN BIOINFORMATICS, 13 (6): 696-710. doi: 10.1093/bib/bbs070 handle: http://hdl.handle.net/10449/21562
File in questo prodotto:
File Dimensione Formato  
2012 BiB De Filippo et al.pdf

accesso aperto

Licenza: Creative commons
Dimensione 363.73 kB
Formato Adobe PDF
363.73 kB Adobe PDF Visualizza/Apri

Questo articolo è pubblicato sotto una Licenza Licenza Creative Commons Creative Commons

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10449/21562
Citazioni
  • ???jsp.display-item.citation.pmc??? ND
  • Scopus 66
  • ???jsp.display-item.citation.isi??? 54
social impact