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Reference databases for taxonomic assignment in metagenomics

Autor
Santamaria, M.; Fosso, B.; Consiglio, A.; De Caro, G.; Grillo, G.; Licciulli, F.; Liuni, S.; Marzano, M.; Alonso-Alemany, D.; Valiente, G.; Pesole, G.
Tipus d'activitat
Article en revista
Revista
Briefings in bioinformatics
Data de publicació
2012-11
Volum
13
Número
6
Pàgina inicial
682
Pàgina final
695
DOI
https://doi.org/10.1093/bib/bbs036 Obrir en finestra nova
Repositori
http://hdl.handle.net/2117/20108 Obrir en finestra nova
URL
http://bib.oxfordjournals.org/content/13/6/682.abstract?sid=5154a6fb-c9f6-4b6a-b982-7559426865e9 Obrir en finestra nova
Resum
Metagenomics is providing an unprecedented access to the environmental microbial diversity. The amplicon-based metagenomics approach involves the PCR-targeted sequencing of a genetic locus fitting different features. Namely, it must be ubiquitous in the taxonomic range of interest, variable enough to discriminate between different species but flanked by highly conserved sequences, and of suitable size to be sequenced through next-generation platforms. The internal transcribed spacers 1 and 2 (IT...
Citació
Santamaria, M. [et al.]. Reference databases for taxonomic assignment in metagenomics. "Briefings in bioinformatics", Novembre 2012, vol. 13, núm. 6, p. 682-695.
Paraules clau
16S rRNA, ITS, Metagenomics, microbial communities, reference database
Grup de recerca
ALBCOM - Algorismia, Bioinformàtica, Complexitat i Mètodes Formals

Participants

  • Santamaria, Monica  (autor)
  • Fosso, Bruno  (autor)
  • Consiglio, Arianna  (autor)
  • De Caro, Giorigio  (autor)
  • Grillo, Giorgio  (autor)
  • Licciulli, Flavio  (autor)
  • Liuni, Sabino  (autor)
  • Marzano, Marinella  (autor)
  • Alonso Alemany, Daniel  (autor)
  • Valiente Feruglio, Gabriel Alejandro  (autor)
  • Pesole, Graziano  (autor)