The UMGC is pleased to now offer long-read sequencing on the PacBio Sequel platform. Released in mid-2016, the Sequel is PacBio’s most recent instrument, and uses single-molecule real-time (SMRT) technology to generate reads with modal lengths of 8-10 kb. With recently introduced “V2” chemistry and “V4” software, mean reads lengths are reported to increase to 10-18 kb, with half of data in reads > 20kb and read lengths up to 80 kb possible. One SMRT cell “run” on the Sequel generates between 5-8 Gb of primary data. The Sequel’s long reads are particularly suited to genome assembly, microbial genomics, detection of structural variants, and transcriptional isoform sequencing (Iso-Seq).
The NovaSeq 6000 is the latest production-scale sequencer from Illumina generating unprecedented output in less than two days. The instrument utilizes Illumina’s 2-channel sequencing by synthesis chemistry, which requires only two images per cycle, instead of the original 4-channel chemistry used by its predecessor, the HiSeq 2500. This simplified nucleotide detection reduces imaging and accelerates data processing times while preserving the same accuracy and quality found in the 4-channel chemistry. The UMGC offers all four NovaSeq flow cell options (SP, S1, S2, and the production-scale S4) as well as the XP protocol, which allows for loading of individual flow cell lanes with different library types, thereby expanding flow cell flexibility.
We provide microbiome marker gene (bacterial 16S, fungal 18S and ITS1/ITS2) survey analysis, beginning from crude biological samples (feces, other human fluids, soil samples, etc.) or from extracted DNA. Our technology is based on UMGC-developed dual-indexing PCR methods, that in a recent report in Nature Biotechnology were shown to provide more quantitatively accurate and qualitatively complete measurement of controlled mock communities than other commonly used protocols. Marker-gene sequencing is typically carried out using the Illumina MiSeq platform, but deep sequencing for metagenomic and meta-transcriptomic methods is also available.
Genotyping-by-sequencing (GBS) is an affordable “reduced representation” next-generation sequencing method for genotyping DNA from any source, without the need for arrayed content or targeted primers. The UMGC has obtained a license from KeyGene to provide this proprietary technology for both local UMN and external academic and commercial clients. SBG is ideal for the genetic characterization of species for which there are no well-established reference maps or commercially-available targeted reagents. We provide a complete sample-to-genotype workflow, including bioinformatic analysis and high-throughput DNA extraction when needed.