Hear how scientists have used PacBio sequencing to develop pangenome collections and to study population genetics of plant and animal species to power their research. Learn about the advantages of sequencing multiple individuals to gain comprehensive views of genetic variation, and understand the speed, cost, and accuracy benefits of using highly accurate long reads (HiFi reads) to sequence your species of interest.
Scientists at the sequencing core facility in the McGill University and Génome Québec Innovation Centre have raised the bar on assembly performance and read length at an affordable price using their PacBio RS II Sequencing System.
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.
Single Molecule, Real-Time (SMRT) Sequencing offers affordable characterization of complete microbial genomes and populations. With this technology, scientists have the ability to simultaneously detail base modifications and mobile elements, quantify low-level variants, and achieve strain-level resolution within communities.
Scientists from WashU, Macrogen, and Mount Sinai are using long-read sequencing with single-molecule, next-generation genome mapping to create gold-quality de novo assemblies of human genomes. Unbiased de novo assembled genomes also highlight the substantial amount of structural variation unique to individuals and populations, which cannot be accessed by short-read technologies that use a reference-based re-sequencing approach.
Scientists at the USDA and Cold Spring Harbor Laboratory know that better breeding of maize to feed a growing population will depend on an accurate reference assembly. They tackled the previously intractable crop with a combination of PacBio Sequencing and BioNano Genomics® genome maps, leading to the first-ever high-quality reference assembly.
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…
Single Molecule, Real-Time (SMRT) Sequencing directly detects DNA modifications by measuring variation in the polymerase kinetics of DNA base incorporation during sequencing. With high throughput, long reads, and the sensitivity to detect epigenetic modification without amplification or chemical conversions, the PacBio Systems offer scalable solutions for assessing DNA modifications in bacterial and eukaryotic genomes.
With PacBio long-read sequencing, scientists are making exciting new discoveries about the microbes that live around and within us. From viruses to bacteria to fungi, SMRT Sequencing is shedding light on how these organisms function and evolve.
Scientists in Brazil paired PacBio long-read sequencing with Dovetail Genomics chromatin proximity ligation to generate a highly contiguous genome assembly for the cashew tree. With this resource, they are on their way to improving breeding programs to protect the plant from disease and boost yield.
Single Molecule, Real-Time (SMRT®) Sequencing combines long reads with uniform coverage to provide uniquely comprehensive views of plant and animal genomes and transcriptomes. High-quality genome assemblies and evidence-based annotations promote improved genetic marker development, discovery of novel genes, and structural variation characterization.
At DuPont Pioneer, DNA sequencing is paramount for R&D to reveal the genetic basis for traits of interest in commercial crops such as maize, soybean, sorghum, sunflower, alfalfa, canola, wheat, rice, and others. They cannot afford to wait the years it has historically taken for high-quality reference genomes to be produced. Nor can they rely on a single reference to represent the genetic diversity in its germplasm.
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 SMRTbell Express Template Prep Kit 2.0 provides a streamlined, single-tube reaction strategy to generate SMRTbell libraries from 500 bp to >50 kb insert size targets to support large-insert genomic libraries, multiplexed microbial genomes and amplicon sequencing. With this new formulation, we have increased both the yield and efficiency of SMRTbell library preparation for SMRT Sequencing while further minimizing handling-induced DNA damage to retain the integrity of genomic DNA (gDNA). This product note highlights the key benefits, performance, and resources available for obtaining complete microbial genome assemblies with multiplexed sequencing. By using a single-tube, addition-only strategy, the streamlined workflow reduces…
Obtaining microbial genomes with the highest accuracy and contiguity is extremely important when exploring the functional impact of genetic and epigenetic variants on a genome-wide scale. A comprehensive view of the bacterial genome, including genes, regulatory regions, IS elements, phage integration sites, and base modifications is vital to understanding key traits such as antibiotic resistance, virulence, and metabolism. SMRT Sequencing provides complete genomes, often assembled into a single contig. Our streamlined microbial multiplexing procedure for the Sequel System, from library preparation to genome assembly, can be completed with less than 8 hours bench time. Starting with high-quality genomic DNA (gDNA),…