Mar 22, 2015

The advent of genome-wide association studies for bacteria

BioRxiv : the Preprint Server for Biology
Peter E Chen, B Jesse Shapiro

Abstract

Highlights • The advent of the genome-wide association study (GWAS) approach provides a promising framework for dissecting the genetic basis of bacterial or archaeal phenotypes. • Bacterial genomes tend to be shaped by stronger positive selection, stronger linkage disequilibrium and stronger population stratification than humans, with implications for GWAS power and resolution. • An example GWAS in Mycobacterium tuberculosis genomes highlights the potentially confounding effects of linkage disequilibrium and population stratification. • A comparison of the traditional GWAS approach versus a somewhat orthogonal method based upon evolutionary convergence (phyC) shows strengths and weaknesses of both approaches. Abstract Significant advances in sequencing technologies and genome-wide association studies (GWAS) have revealed substantial insight into the genetic architecture of human phenotypes. In recent years, the application of this approach in bacteria has begun to reveal the genetic basis of bacterial host preference, antibiotic resistance, and virulence. Here, we consider relevant differences between bacterial and human genome dynamics, apply GWAS to a global sample of Mycobacterium tuberculosis genomes to highlight the im...Continue Reading

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Mentioned in this Paper

Genome-Wide Association Study
Study
Genome
Stratification
Dysequilibrium Syndrome
Sequencing
Contrast Used
Virulence
Molecular Genetic Technique
Asthenia

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