High-throughput sequencing of nematode communities from total soil DNA extractions.

ABSTRACT:

Background

Nematodes are extremely diverse and numbers of species are predicted to be more than a million. Studies on nematode diversity are difficult and laborious using classical methods and therefore high-throughput sequencing is an attractive alternative. Primers that have been used in previous sequence-based studies are not nematode specific but also amplify other groups of organisms such as fungi and plantae, and thus require a nematode enrichment step that may introduce biases.

Results

In this study an amplification strategy which selectively amplifies a fragment of the SSU from nematodes without the need for enrichment was developed. Using this strategy on DNA templates from a set of 22 agricultural soils, we obtained 64.4% sequences of nematode origin in total, wher

SUBMITTER: Sapkota R 

PROVIDER: S-EPMC4331302 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature