Long-Read Sequencing

Fully finished genomes from a single sample

What are the benefits of long-reads?

Resolve repeat sequences

Long repeats that exceed short-read length (>150 bp)

Tandem repeats

Interspersed repeats

Short interspersed nuclear elements (SINE’s)

Long interspersed nuclear elements (LINE’s)

Transposable elements

Microsatellites

Identify large structural variants

Large insertions and deletions

Segmented duplications

Gene duplications

Gene loss

Fusion events

Copy number variation

Inversions

Translocations

Mobile elements

Resolve high and low GC-content regions

Direct sequencing of ultra-long DNA sequences without PCR bias

De novo assembly

Discover the benefits of long-read de novo assembly and long-read/short-read hybrid assembly

Create fully finished, complete reference genomes

De novo assembly without guidance from existing genomes

Improve accuracy of complete genomes

Perform long-read sequencing alone or combine with Illumina short-read sequencing

Which sequencing technology is

right for my project?

	Short-Read Only	Long-Read Only	Hybrid Assembly (short-read + long-read)
Single nucleotide polymorphism (SNP)	✔ Yes	✔ Yes	✔ Yes
Short indels (insertions / deletions)	✔ Yes	✔ Yes	✔ Yes
Copy number variations (CNV’s)	✔ Yes	✔ Yes	✔ Yes
Q-score (Phred score) > 99.99%	✔ Yes	✖ No	✔ Yes
Large structural variants	✖ No	✔ Yes	✔ Yes
Long repeat sequences	✖ No	✔ Yes	✔ Yes
Translocations	✖ No	✔ Yes	✔ Yes
Inversions	✖ No	✔ Yes	✔ Yes
Duplications	✖ No	✔ Yes	✔ Yes
Long N50 length	✖ No	✔ Yes	✔ Yes
Generate a reference genome	✖ No	✖ No	✔ Yes

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Use Cases

Create a new reference genome

You can use a combination of Nanopore long-reads, Illumina short-reads and hybrid de novo assembly to generate a novel, fully finished, complete reference genome. We can run a combination long-read/short-read project for you, including hybrid assembly, to create a unique reference genome.

Compare multiple samples

If you create your own reference genome as described here, you can run sequence alignments and variant calls of multiple samples against the new reference genome. If your project includes multiple samples, you can choose one of the samples to be a reference genome. Then use long-reads, or long-read/short-read hybrid assembly, to create a reference genome from that sample. With the new genome, you can run sequence alignments and variant calls for the remaining samples against the new reference genome.

Bacterial and plasmid genomes

You may have a bacterial isolate sample that contains an unknown or uncertain species. With long-read sequencing alone, or a combination long-read/short-read hybrid assembly, you can generate a fully finished, complete bacterial genome. Furthermore, if there are associated plasmids in the sample, you can generate complete genomic sequences for all of the plasmids.

Identify bacterial strains

Bacterial strains are often identified using Multilocus Sequence Typing (MST). Illumina short-reads alone may not resolve all loci sufficiently for accurate MST. You can try long-reads alone, or long-read/short-read hybrid assembly, to use MST to identify the particular bacterial strain in your sample.

Bacteriophage and viral genomes

Phage and viral genomes are often quite small (< 100 kilobases). With long-read sequencing alone, you can often generate fully finished, complete genomes, without the need for hybrid long-read/short-read assembly. De novo assembly is often not required for these small genomes. And numerous samples can be multiplexed in a single sequencing run for cost-effective generation of many phage/viral genomes.

Leading research institutions trust us

“That was a really quick turn around on the sequencing! Thank you so much!”

Keira OsbournUnited States Department of Agriculture

“This was the fastest turnaround time ever! From cells to full genome sequence in 5 days! We will definitely work together in the future. Thank you!”

Craig RouskeyPando Nutrition

“Many thanks for the quick results. The files are so easy to look at and have very thorough data readout.”

Michele McElvainA2 Biotherapeutics

“The results look excellent. It’s been a pleasure working with you.”

Daniel PrestonGreffex

About

The Sequencing Center is a USA-owned and operated next-generation genome sequencing company offering affordable genome sequencing and bioinformatics for research, pharmaceutical, and clinical organizations. Our services are designed for organizations performing research on bacterial, viral, and human-oriented research. Among these services, our facility offers targeted sequencing methods for research fields including inherited diseases, oncology, neurodegenerative diseases, antibiotic-resistant gene analysis, and biomarker discovery for drug development optimization.