From crop improvement to breeding healthier livestock to modeling human disease, scientists are using PacBio Sequencing to advance understanding of plant and animal genomes. In this article, we look at four examples of plant and animal genome references improved or made possible with SMRT Sequencing, including an early example of transcriptome sequencing of a chicken for improved annotation. These examples highlight insights gained with SMRT Sequencing that are missed with short-read data, such as complex regions or novel genes.
At the University of Arizona, a leading genomics research facility benefits from decades of BAC- based sequencing expertise, original studies of crop genomes, and a unique emphasis on high molecular weight DNA.
Scientists are utilizing long-read PacBio sequencing to provide uniquely comprehensive views of complex plant and animal genomes. These efforts are uncovering novel biological mechanisms, enabling progress in crop development, and much more. To date, scientists have published over 1000 papers with Single Molecule, Real-Time (SMRT) Sequencing, many covering breakthroughs in the plant and animal sciences. In this case study, we look at examples in model organisms Drosophila and C. elegans and non-model organisms coffee, Oropeitum, danshen, and sugarbeet, where SMRT Sequencing has contributed to a more accurate understanding of biology. These efforts underscore the broad applicability of long-read sequencing in…
At the University of Maryland’s Genomics Resource Center, SMRT Sequencing has become an integral tool for generating complete microbial genomes, improving plant and animal genome assemblies, and exploring human genome variation.
To understand the genetic factors underlying health and disease and to address hidden heritability, scientists require a more comprehensive view of all the variations in the human genome. Single Molecule, Real-Time (SMRT) Sequencing delivers the read lengths, uniform coverage, and accuracy needed for accessing the complete size spectrum of sequence variant types — from single nucleotides to complex structural variants. PacBio’s long single-molecule reads also provide direct variant phasing information across full-length genes and chromosome haplotype blocks. With SMRT Sequencing, scientists gain new insight into the genetic basis of health and disease.
Explore how high-quality genomes contribute to critical scientific endeavors.
It is now easier and more affordable than ever to do a genome project with PacBio Single Molecule, Real-Time (SMRT) Sequencing—the gold standard for generating contiguous, highly accurate reference genomes. Assembly is no longer a challenge with the wealth of bioinformatics tools developed and optimized for SMRT Sequencing data, enabling you to generate high-quality genome assemblies on any budget.
The Agilent 5200, 5300, and 5400 Fragment Analyzer instruments are fast, high-resolution benchtop capillary electrophoresis (CE) platforms that utilize proprietary markers to accurately size fragments ranging from 10 to 50 kb. This platform allows important DNA quality checkpoints to be completed in one hour for de novo large-genome sequencing projects and other PacBio applications leveraging multi-kilobase read lengths. The instrument can be used in place of time-consuming QC steps involving pulsed field gel electrophoresis (PFGE), saving time by avoiding multiple overnight gel runs when preparing large-insert SMRTbell libraries. Alternative DNA-sizing instruments cannot accurately resolve large DNA fragments in this range.
With Single Molecule, Real-Time (SMRT) Sequencing and the Sequel Systems, you can easily and affordably sequence complete transcript isoforms in genes of interest or across the entire transcriptome. The Iso-Seq method allows users to generate full-length cDNA sequences up to 10 kb in length — with no assembly required — to confidently characterize full-length transcript isoforms.
Learn how Single Molecule, Real-Time (SMRT) Sequencing and the Sequel II System and will accelerate your research by delivering highly accurate long reads to provide the most comprehensive view of genomes, transcriptomes and epigenomes.
Single Molecule, Real-Time (SMRT) Sequencing on the Sequel II System enables easy and affordable generation of high-quality de novo assemblies. With megabase size contig N50s, accuracies >99.99%, and phased haplotypes, you can do more biology – capturing undetected SNVs, fully intact genes, and regulatory elements embedded in complex regions.
Interested to learn about pangenomes? Explore this guide to learn how they provide a more complete picture of the core genes of a given species and how that can provide better biological understanding.
Richard Kuo’s research at the Roslin Institute exploring non-coding RNA of avian species requires high accuracy. SMRT Sequencing on the PacBio Sequel II System and the Iso-Seq method have given him confidence in annotations across entire genomes and transcriptomes.
The Earlham Institute was one of the first labs to adopt the PacBio Sequel II System. Karim Gharbi, Head of Genomics Pipelines, discusses how SMRT Sequencing and HiFi reads have increased throughput and reduced costs for genome, transcriptome, and metagenomics projects.