Naslov
Codon usage bias in metagenomes

Autori
Lucić, Vedran ; Perica, Tina ; Vlahoviček, Kristian

Vrsta, podvrsta i kategorija rada
Sažeci sa skupova, sažetak, znanstveni

Izvornik
EMBO YIP PhD Course, Spotlights on Current Biology / Gerlind Wallon - Heidelberg, 2008, 11-11

Skup
EMBO YIP PhD Course 2008

Mjesto i datum
Heidelberg, Njemačka, 21.09.2008. - 28.09.2008

Vrsta sudjelovanja
Predavanje

Vrsta recenzije
Nije recenziran

Ključne riječi
metagenomes; codon; bias; bioinformatics

Sažetak
Codon usage (CU) bias is an effect predominant in prokaryotes whereby synonymous codons are used with different frequencies between different species and even between genes within a single genome. This effect is related to tRNA abundance and can be used to predict expressivity of proteins by comparing their CU with that of a reference set of housekeeping genes. Our aim was to investigate codon usage patterns within metagenomic sequences and test for a presence or absence of CU bias at the level of a microbial community. We investigated synonymous CU frequencies in three metagenome samples and have demonstrated that a) different metagenomes exhibit different patterns in codon usage, and b) gene functions within a metagenome with high predicted expressivity (compared to the meta-ribosomal set) correlate well with the ecological requirements within the environment, suggesting that different species within a microbial community indeed behave as a meta-genome.

Izvorni jezik
Engleski

Znanstvena područja
Biologija

POVEZANOST RADA