Sequencing of
Customer-Prepared Libraries

The newest of the Illumina^® fleet, the NovaSeq X series includes the NovaSeq X Plus 10B and the NovaSeq X Plus 25B. With faster run times, higher outputs, increased reads per run, and new reagent methodologies, the new X Series produces cost-effective, fast sequencing with deeper coverage. NovaSeq X Plus Series offers the flexibility to submit multiple pooled libraries to run within one flowcell, or alternatively to run one library on multiple lanes in a flowcell to yield the maximum amount of coverage per library. These extremely cost-effective machines are best suited for large scale applications with a 300 cycle modality (2x150bp) for studies such as high volume whole genome, whole exome, or whole transcriptome sequencing.

The Revio™ is the latest, highest output PacBio sequencing system. Long Read sequencing with the Revio™ is suitable for a variety of applications that benefit from long reads, including but not limited to the following: more comprehensive profiling of variants in human whole genomes; full isoform sequencing in single cell and bulk transcriptomes. A single SMRT™ Cell is expected to produce ≥4 million reads.

Producing ≥5 million reads per flowcell, the MiSeq is recommended for small whole genome sequencing (microbe, virus), targeted gene sequencing (amplicon-based or gene panels), and 16S metagenomic sequencing, but can also be used for targeted gene expression profiling, microRNA and small RNA sequencing, and DNA-protein interaction (ChIP-Seq).

Producing ≥320 million reads per flowcell, the NextSeq 500 is recommended for low scale or small whole genome sequencing, targeted sequencing (amplicon or panel-based sequencing), and higher throughput transcriptome sequencing such as total RNA-Seq, mRNA-Seq and gene expression profiling. It is also suitable for exome sequencing, ChIP-Seq, methylation sequencing, metagenomics including 16S, and transcriptome sequencing for single-cell profiling, targeted gene expression studies, and miRNA and small RNA sequencing.

Producing ≥800 million reads per flowcell on the NextSeq 2000 P3 flowcell (≥320M for P2), the faster turnaround time of this mid-throughput technology is suitable for a wide variety of studies including: low-throughput whole genome, exome, and transcriptome sequencing; targeted applications such as amplicon sequencing or gene panels of various sizes; a wide variety of transcriptome applications including both single-cell and bulk transcriptome studies; microbiome studies that may need metagenomic, metatranscriptomic, or 16S profiling.

With a wide variety of modalities (see below), the NovaSeq 6000 Series offers high-throughput processing that generates consistent data at scale for a variety of studies. With variable loading per lane, the NovaSeq 6000 Series offers the flexibility to submit multiple pooled libraries to run within one flowcell, or alternatively to run one library on multiple lanes in a flowcell to yield the maximum amount of coverage per library. These machines are typically utilized for high-throughput studies such as large scale whole genome, whole exome, or whole transcriptome sequencing.

With independent dual flowcells and the flexibility of 150 or 300 cycle runs, the Element AVITI™ System utilizes a novel rolling circle amplification technology to reduce PCR error propagation, AT/GC bias, and provide accurate sequencing data for a wide variety of applications. With typical runs yielding ~600GB of data, this mid-throughput machine is suitable for a variety of cost-effective studies such as exome, low-pass genome, and bulk and single-cell RNA sequencing. Compatible with linear libraries generated for Illumina^® machines, the Element Adept Library Compatibility Workflow can adapt libraries prepared with third-party kits for use on the Element AVITI™ System, producing circularized libraries in <2 hours.

The UG 100™ from Ultima Genomics is a cost-competitive, high-throughput sequencing alternative. Adopting open silicon wafers as the sequencing substrate, the flow-based sequencing technology can run numerous wafers in succession without user intervention and yields 7B Reads in under 24 hours. The technology is single-ended with sequencing runs up to ~315bp reads. Cost saving advantages come from both the silicon wafer technology and cheaper oligonucleotide manufacturing. The UG 100™ is suitable for large scale projects of whole genome sequencing, whole exome sequencing, CRISPR/Perturb-seq, and single cell RNA sample types, but is flexible and fast enough to enable small-batch sequencing projects.