Shoreline Biome’s all-in-one, easy-to-use microbiome assay kits are the solution for researchers at all levels seeking complete, high-quality microbiome assay data sets. Our kits are fast, complete, and uncomplicated systems designed to transform your complex samples from lysis to sequencing to analysis with precision barcoded results.

Researchers at the forefront of microbiome research trust our kits to generate reliable data while reducing sample handling time and eliminating the need to build their own end-to-end solution.

Shoreline Biome assay kits provide significant improvement over many of the standard protocols that are known to miss microbes or provide biased results. All aspects of the systems are designed from the ground up to work together on the industry leading long read PacBio and short read Illumina sequencing platforms.

Each Shoreline Biome assay kit includes the reagents and barcoded primers needed to easily and quickly lyse samples and prepare amplicons for 16S sequencing.

The assay kits for the Illumina sequencing platform contain one 96-well plate for lysis, one tube of DNA purification beads, and one 96-well PCR plate containing 96 barcoded primers targeting either the V1–V3 or V4 region of the 16S rRNA gene. Following PCR amplification, the amplicons containing the Illumina sequencing adaptor are pooled, purified, and are ready for sequencing.

The assay kits for the PacBio sequencing platform contain one 96-well plate for lysis, one tube of DNA purification beads, and one 96-well PCR plate containing 96 barcoded primers targeting either the full 16S rRNA gene or the 16S-ITS-23S region. Following PCR amplification, the amplicons are pooled and ready for the PacBio SMRTbell reaction.  There are additional 16-sample kits for both the full 16S and the 16S-ITS-23S that can be combined with the corresponding 96-well kit, or run separately.

Shoreline Biome, microbiome

THE TECHNOLOGY

Shoreline Biome’s proprietary technology combines a series of innovations; lysis, DNA prep, and PCR to significantly reduce hands-on time and time to result while improving coverage and representation of bacteria in microbiome samples.

While many lysis techniques fail to uniformly open the diverse array of cells in microbiome samples, Shoreline Biome’s lysis process rapidly and uniformly extracts DNA with very little handling. Our kit’s single-step PCR (with accompanying DNA barcodes) allows pooling of over 100 samples per run. And our software, provided with each PacBio kit, presents a GUI optimized for barcode ID, sample sorting, and taxonomic classification in one step.

Cell Lysis

The Shoreline Biome DNA preparation kit lyses the most difficult microbes that are mostly, or even entirely, missed by standard DNA preparation methods. This ensures that your final results reflect the taxonomic diversity and microbial population ratios in your samples of interest.

PCR Sequencing Targets

Based on your experimental needs and the availability of sequencing platforms, Shoreline Biome kits offer optimized PCR choices for parallel sequencing of over 100 individual samples targeting the 16S rRNA microbial gene. The kits take the guesswork out of which target sequences to choose, what polymerase to use, and the level of primer degeneracy. They are designed and validated with multiplex primers for sequencing many samples simultaneously in a single sequencing run. The PCR conditions were optimized by sequencing standard microbiomes to ensure conditions that result in correct microbial profiles.

Data Analysis

Shoreline Biome software, for the PacBio long-read sequencing data, sorts samples by barcode and allows tracking by user-selected sample names. Each sample’s reads are mapped to determine phylogenetic identity. Output can be transferred to a spreadsheet to compare results between individual samples or combine samples into virtual groups for comparison at the phylum, strain, or other taxonomic levels. Mapping allows investigators to quickly test hypotheses about variations in microbial types between microbiome cases and controls. Reads can also be used for custom analysis, as desired.