Journalartikel

Jahr der Veröffentlichung: 2009

Seiten: 430-

Zeitschrift: BMC Genomics

Bandnummer: 10

ISSN: 1471-2164

eISSN: 1471-2164

DOI Link: https://doi.org/10.1186/1471-2105-10-430

Verlag: BioMed Central

Abstract: 
Background: Metagenomics is a new field of research on natural microbial communities. High-throughput sequencing techniques like 454 or Solexa-Illumina promise new possibilities as they are able to produce huge amounts of data in much shorter time and with less efforts and costs than the traditional Sanger technique. But the data produced comes in even shorter reads (35-100 basepairs with Illumina, 100-500 basepairs with 454-sequencing). CARMA is a new software pipeline for the characterisation of species composition and the genetic potential of microbial samples using short, unassembled reads.Results: In this paper, we introduce WebCARMA, a refined version of CARMA available as a web application for the taxonomic and functional classification of unassembled (ultra-) short reads from metagenomic communities. In addition, we have analysed the applicability of ultra-short reads in metagenomics.Conclusions: We show that unassembled reads as short as 35 bp can be used for the taxonomic classification of a metagenome.

Harvard-Zitierstil: Gerlach, W., Jünemann, S., Tille, F., Goesmann, A. and Stoye, J. (2009) WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads, BMC Genomics, 10, p. 430. https://doi.org/10.1186/1471-2105-10-430

APA-Zitierstil: Gerlach, W., Jünemann, S., Tille, F., Goesmann, A., & Stoye, J. (2009). WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads. BMC Genomics. 10, 430. https://doi.org/10.1186/1471-2105-10-430