High depth, whole-genome sequencing of cholera isolates from Haiti and the Dominican Republic.

ABSTRACT:

Background

Whole-genome sequencing is an important tool for understanding microbial evolution and identifying the emergence of functionally important variants over the course of epidemics. In October 2010, a severe cholera epidemic began in Haiti, with additional cases identified in the neighboring Dominican Republic. We used whole-genome approaches to sequence four Vibrio cholerae isolates from Haiti and the Dominican Republic and three additional V. cholerae isolates to a high depth of coverage (>2000x); four of the seven isolates were previously sequenced.

Results

Using these sequence data, we examined the effect of depth of coverage and sequencing platform on genome assembly and identification of sequence variants. We found that 50x coverage is sufficient to construct a

SUBMITTER: Sealfon R 

PROVIDER: S-EPMC3473251 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature