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Pacific Biosciences

Scientists Publish Unique Discoveries in Plant and Animal Genomic Investigations With Single Molecule, Real-Time Sequencing From PacBio

Wednesday, November 11, 2015

MENLO PARK, Calif., Nov. 11, 2015 (GLOBE NEWSWIRE) — New scientific publications demonstrate the increasing use of Single Molecule, Real-Time (SMRT®) Sequencing from Pacific Biosciences of California, Inc., (Nasdaq:PACB) to elucidate complex genomes and traits for plant and animal species. These papers show that SMRT Sequencing enables critical discoveries that cannot be found with other sequencing technologies, the company announced.

“These publications add to the mounting evidence demonstrating it is possible to produce very high-quality, complete genome assemblies for model and non-model organisms with SMRT Sequencing,” said Jonas Korlach, Chief Scientific Officer at Pacific Biosciences. “These assemblies serve as invaluable long-term resources for the plant and animal research communities and are rapidly advancing our understanding of important biological mechanisms in complex organisms, even for organisms thought to be fully characterized already.”

A new paper released in Nature today reported the virtually complete draft genome of Oropetium thomaeum, a grass species that can regrow after extreme drought when water becomes available. The plant’s 245 Mb genome was analyzed with 72x coverage on the PacBio® RS II Sequencing System by scientists at the Donald Danforth Plant Science Center and collaborating institutions. The resulting assembly is > 99.999% accurate and includes telomere and centromere sequence, long terminal repeat retrotransposons, tandem duplicated genes, and other difficult-to-access genomic elements. This plant was sequenced through Pacific Biosciences’ “Most Interesting Genome in the World” grant program to help scientists determine the biological mechanisms behind its drought resistance for potential application in crop engineering.

A paper recently published in Proceedings of the National Academy of Sciences (PNAS) described the use of SMRT Sequencing to reveal a previously intractable region of the Y chromosome in Drosophila melanogaster. The authors discovered a new gene duplicated from a different chromosome that acquired a functional reproductive role in male fruit flies. The gene was found in a 55 kb region consisting of pseudogenes, transposable elements, and highly repetitive sequence — a stretch of the genome the authors had spent years trying to decode. “PacBio produced a seemingly error-free assembly of the FDY region, something that has eluded us for years of hard work,” they wrote.

In Genome Biology, another publication reported the use of the Iso-Seq™ method to produce full-length transcripts for the prediction and validation of gene models, as well as for genome annotation. Using the sugar beet as an example, the scientists validated more than 2,000 existing gene predictions and identified 665 novel gene structures. Gene model predictions based on Iso-Seq data resulted in a 17% improvement in genome annotation for sugar beet.

“Our customers often tell us that SMRT Sequencing helps them make completely new discoveries in the organisms they study,” said Dr. Korlach. “With the highest-quality genome assemblies, targeted sequencing for incredibly complex regions, and the ability to study full-length isoforms as well as epigenetics, PacBio technology portrays a truly comprehensive view of biology that no other sequencing technology can offer.”

Papers cited:

Robert VanBuren, Doug Bryant, et al. “Single-molecule sequencing of the desiccation tolerant grass Oropetium thomaeum.” Nature. http://www.nature.com/nature/journal/vaop/ncurrent/full/nature15714.html

Bernardo Carvalho et al. “Birth of a new gene on the Y chromosome of Drosophila melanogaster.” PNAS: http://www.pnas.org/content/112/40/12450.full

Minoche, A.E., Dohm, J.C., Schneider, J., Holtgräwe, D., et al.
“Exploiting single-molecule transcript sequencing for eukaryotic gene prediction.” Genome Biology. 16184.

About Pacific Biosciences

Pacific Biosciences of California, Inc. (NASDAQ:PACB) offers sequencing systems to help scientists resolve genetically complex problems. Based on its novel Single Molecule, Real-Time (SMRT®) technology, Pacific Biosciences’ products enable: de novo genome assembly to finish genomes in order to more fully identify, annotate and decipher genomic structures; full-length transcript analysis to improve annotations in reference genomes, characterize
alternatively spliced isoforms in important gene families, and find novel genes; targeted sequencing to more comprehensively characterize genetic variations; and DNA base modification identification to help characterize epigenetic regulation and DNA damage. Pacific Biosciences’ technology provides the industry’s highest consensus accuracy over the longest read lengths in combination with the ability to detect real-time kinetic information. PacBio sequencing systems, including consumables and software, provide a simple, fast, end-to-end workflow for SMRT Sequencing. More information is available at www.pacb.com.

Forward-Looking Statements

All statements in this press release that are not historical are forward-looking statements, including, among other things, statements relating to future uses or performance of, or benefits of using, products or technologies and other future events. You should not place undue reliance on forward-looking statements because they involve known and unknown risks, uncertainties, changes in circumstances and other factors that are, in some cases, beyond Pacific Biosciences’ control and could cause actual results to differ materially from the information expressed or implied by forward-looking statements made in this press release. Factors that could materially affect actual results can be found in Pacific Biosciences’ most recent filings with the Securities and Exchange Commission, including Pacific
Biosciences’ most recent reports on Forms 8-K, 10-K and 10-Q, and include those listed under the caption “Risk Factors.”

Pacific Biosciences undertakes no obligation to revise or update information in this press release to reflect events or circumstances in the future, even if new information becomes available.

Media: Nicole Litchfield




Trevin Rard



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PacBio Grants Equity Incentive Award to New Employee

Friday, January 14, 2022


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