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Nextera DNA sample preparation, from Epicentre technologies, uses a modified transposase to simultaneously fragment intact genomic DNA and tag it with Illumina adapters. A limited number of PCR steps are required to generate complete Illumina libraries.

Nextera-prepared samples provided a similar quality of sequencing data compared with samples prepped in parallel on the SPRI-Works system. DNA from the same Colobacter sample was either sonicated for SPRI-prep or provided as intact DNA for Nextera prep. The samples were multiplexed and sequenced together on an Illumina GAII 40bp single-end lane. The total genomic coverage for both Nextera and SPRI-te samples was exactly the same at 97.8% coverage of Colobacter’s GC-rich genome, although complexity was greater in the sonicated samples. Nextera 2.png

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The Nextera transposase does exhibit a mild GC-insertion bias, shown by the increase in percent of the first few bases. This, however, did not affect the sequencing coverage. The Nextera-prepared sample has very consistent genome-wide coverage, while the SPRI-prepared samples have a more variable coverage density.

We have used Nextera DNA sample preparation for multiple samples and have seen high-quality data for all the samples. Below is an example of a CNV study prepared with Nextera DNA preparation:

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