Improved Small RNA Library Preparation Workflow for Next-Generation Sequencing
Poster May 06, 2015
Sabrina Shore, Jordana Henderson, Anton McCaffrey, Gerald Zon, Richard Hogrefe
Next-generation sequencing (NGS) is used to analyze microRNA (miRNA), a class of small non-coding RNAs that are important therapeutic targets and diagnostic markers. Commercially available small RNA sequencing library preparation kits require large inputs (>100 ng) and a laborious gel purification step. Additionally, commercial kits are hindered by adapter dimer formation, where 5' and 3' adapters ligate without an intervening RNA insert. Adapter dimers preferentially amplify during PCR. This is exacerbated at low RNA inputs where adapter dimer formation can greatly diminish usable sequencing reads.
We describe an optimized workflow which suppresses adapter dimers, works with low RNA input and eliminates the need for a gel purification step. Our workflow introduces chemically modified adapters that efficiently form libraries while reducing adapter dimer formation. TriLink’s modified adapter workflow allows RNA inputs as low as 1 ng with less than 1% adapter dimer reads when gel purified. Furthermore, when our workflow is combined with bead-based size selection purification, automation becomes possible.
The novel ‘K’ DNA extraction protocol offers a reliable alternative for preparing fecal specimens for 16S rRNA gene amplicon sequencing that maintains representation of microbial populations in a sample, with the added benefits that the K method reduces hands-on time by up to 20 x for 96 sample preparations.READ MORE