Great find! thanks. PacBio Blog, WEDNESDAY, APRIL 2, 2014, FDA-Supported Pathogen Database to Expand with SMRT Sequencing. We’re delighted to report that Single Molecule, Real-Time (SMRT®) Sequencing will be a crucial technology in a new research program conducted by the University of Maryland School of Medicine. The Institute for Genome Sciences at the university’s medical school was awarded a contract from the FDA to sequence bacterial pathogens and contribute annotated assemblies to a database accessible through NCBI. Sequencing efforts will be performed by the Genomics Resource Center (GRC) at the institute.
The goal of the program is to help develop a reliable database containing the genome sequences of pathogens and other microbes, providing users a comprehensive source for microbial identification. The data will also be useful for sequencing-based diagnostics aiming to identify pathogens in vitro.
The GRC is a natural fit for the program, having sequenced more than 5,000 microbial genomes in the last five years. For more on GRC’s great track record of genome sequencing, check out our profile of the core facility.
“This database will be an important reference for the scientific and medical diagnostic communities,” stated Claire Fraser, Director of the Institute for Genome Sciences. “We have worked with federal agencies and global scientific partners to sequence and analyze an extensive population of bacterial pathogens since our Institute launched in 2007 and are pleased to develop this reference database with the FDA.”
PacBio will be showcasing our rapid, affordable pipeline for de novo microbial genome sequence and assembly at the upcoming American Society for Microbiology annual conference in May — stop by and see us in booth #1034.
pacbio is composed of just SMRT cells, a camera and a laser source. compare to other sequencers, minimal fluid handling/washing steps is required. so it should be quite easy for them to scale it down. The current bulky pacbio RS definitely has lots, lots of room for engineering improvement.
pacb is planning to use it first in the field of diagnostic cancer genomics, then HLA typing. it will also be very useful for microbial sequencing, both for academic research and for infectious disease outbreak surveillance.
pacbio is simple as a smrt cell plus a camera. they should be able to roll out the bench top model very soon.
Scientists from Frederick National Laboratory for Cancer Research and pacbio have developed and validated an amplification-free method for generating DNA sequencing libraries from very low amounts of input DNA, in the scale of 1000-fold less starting material. potential application: needle biopsy material, forensic
or ChIP-seq samples, microorganisms refractory to growth in synthetic media, or when searching
for rare sequence variants in unamplified nucleic acid samples, rapid identification of infectious disease
It's amazing to see the short interest increased from under 2 million at the beginning of the year to over 6 million now. must be very hard for them to cover on such low daily volume.
besides, if nanopore is that good, Illumina wouldn't have easily given up there stake. a piece of junk, hahaha.
hahaha, nanopore has never shown any kind of data except for some "squiggles" on a computer screen. I'm glad to see the nanopore drama is unfolding faster. without surprise, I would predict they will announce the delay of the so called Early access program for "technical reason" later this month.
Our SMRT technology has the potential to impact scientific study beyond DNA sequencing. We, and our scientific collaborators, have published a number of peer-reviewed articles in journals including Science, Nature and Nature; Methods highlighting the power and potential applications of the SMRT platform. Potential commercial applications we have demonstrated include the study of chemical and structural modifications of DNA and the processing of RNA and; proteins. Our research and development efforts are focused on expanding our DNA sequencing capabilities and commercializing products based on these research findings. We believe that our SMRT platform represents a new paradigm in biological science, which we refer to as SMRT Biology, that has the potential to significantly impact a number of areas critical to humankind, including the diagnosis and treatment of disease as well as efforts to improve the world’s food and energy supply.
Our mission is to transform the way humankind acquires, processes and interprets data from living systems through the design, development and commercialization of innovative tools for biological research.
We have developed a novel approach to studying the synthesis and regulation of DNA, RNA and protein. Combining recent advances in nanofabrication, biochemistry, molecular biology, surface chemistry and optics, we created a powerful technology platform called single molecule, real-time, or SMRT, technology. SMRT technology enables real-time analysis of biomolecules with single molecule resolution, which has the potential to transform our understanding of biological systems by providing a window into these systems that has not previously been open for scientific study.
Our initial focus is on the DNA sequencing market where we have developed and introduced a novel sequencing platform, the PacBio RS II. We believe that the PacBio RS II, which uses our proprietary SMRT technology, maintains many of the key attributes of currently available sequencing technologies while solving many of the inherent limitations of previous technologies. Our system provides long readlengths, flexibility in experimental design, fast time to result and significant ease of use. The PacBio RS II consists of an instrument platform that uses our consumables including our proprietary SMRT Cell. The system is designed to be integrated into existing laboratory workflows and information systems, which should facilitate rapid adoption. Currently, our focus is on applications for clinical, basic and agricultural research, with potential uses in molecular diagnostics, drug discovery and development, food safety, forensics, biosecurity and biofuels.