Tag Archives: PacBio

Highly sensitive detection of mutations in CHO cell recombinant DNA using multi‐parallel single molecule real‐time DNA sequencing

June 2018 Authors: Joseph Cartwright, Karin Anderson, Joseph Longworth, Philip Lobb, and David James Info: To improve the quantitative assessment of recombinant DNA in cell lines, University of Sheffield scientists and collaborators developed a PacBio-based method for high-throughput rDNA sequence … more »

Posted in Citation | Tagged , | Comments Off on Highly sensitive detection of mutations in CHO cell recombinant DNA using multi‐parallel single molecule real‐time DNA sequencing

A Validation Approach of an End-to-End Whole Genome Sequencing Workflow for Source Tracking of Listeria monocytogenes and Salmonella enterica

March 2018 Authors: Anne-Catherine Portmann, Coralie Fournier, Johan Gimonet, Catherine Ngom-Bru, et al. Info: Scientists from Nestle Research Center and Nestle Institute of Health Sciences aimed to establish guidelines for whole-genome sequencing used in contamination investigations in the food industry. … more »

Posted in Citation | Tagged , | Comments Off on A Validation Approach of an End-to-End Whole Genome Sequencing Workflow for Source Tracking of Listeria monocytogenes and Salmonella enterica

Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

March 2018 Authors: Seyed Yahya Anvar, Guy Allard, Elizabeth Tseng, Gloria Sheynkman, et al. Info: Researchers from Leiden University Medical Center and other institutions studied the relationships between transcription initiation and splicing and polyadenylation events in breast cancer cells and … more »

Posted in Citation | Tagged , | Comments Off on Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

The DNA Methylome of the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius

February 2018 Authors: Mohea Couturier and Ann-Christin Lindås Info: Scientists from Stockholm University investigated the impact of DNA methylation in archaeal genomes by analyzing the complete DNA methylome of S. acidocaldarius using PacBio sequencing. The team used BluePippin to remove … more »

Posted in Citation | Tagged , | Comments Off on The DNA Methylome of the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius

Transcription-associated mutation promotes RNA complexity in highly expressed genes — a major new source of selectable variation

February 2018 Authors: Shengkai Pan, Michael Bruford, Yusong Wang, Zhenzhen Lin, et al. Info: In this project, researchers studied transcriptomes in falcons, mice, and chickens and found that highly expressed genes are more likely to alternatively spliced. They also studied … more »

Posted in Citation | Tagged , | Comments Off on Transcription-associated mutation promotes RNA complexity in highly expressed genes — a major new source of selectable variation

Podcast: Blogger Keith Robison on the State of Sequencing

A new podcast from Mendelspod takes a look at the state of sequencing in 2018. It’s a lively and interesting discussion about the current and future landscape of genomics between host Theral Timpson and Keith Robison, founder of the Omics! … more »

Posted in Blog | Tagged , , , | Comments Off on Podcast: Blogger Keith Robison on the State of Sequencing

SageELF Enables Targeted RenSeq Capture for PacBio Sequencing

We’ve had targeted capture on the brain lately as we work with collaborators to put the finishing touches on our HLS-CATCH method for selecting large genomic elements using Cas9 guides and the SageHLS system. So today, we wanted to revisit … more »

Posted in Blog | Tagged , , | Comments Off on SageELF Enables Targeted RenSeq Capture for PacBio Sequencing

Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients

January 2018 Authors: K. Nudel, X. Zhao, S. Basu, X. Dong, et al. Info: Scientists from Harvard Medical School and other institutions used whole genome sequencing and MALDI/TOF to analyze seven C. striatum infections, all resistant to multiple drugs. They … more »

Posted in Citation | Tagged , | Comments Off on Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients

Isoform Sequencing and State-of-Art Applications for Unravelling Complexity of Plant Transcriptomes

January 2018 Authors: Dong An, Hieu X. Cao, Changsheng Li, Klaus Humbeck and Wenqin Wang Info: In this paper, researchers offer best practices for using the Iso-Seq method with PacBio sequencing to analyze plant transcriptomes. They recommend BluePippin for size … more »

Posted in Citation | Tagged , | Comments Off on Isoform Sequencing and State-of-Art Applications for Unravelling Complexity of Plant Transcriptomes

Characterization of plasmids harboring blaCTX-M and blaCMY genes in E. coli from French broilers

January 2018 Authors: Fabrice Touzain, Laetitia Le Devendec, Claire de Boisséson, Sandrine Baron, et al. Info: In this study of avian E. coli collected from slaughterhouses or diseased broilers, scientists analyzed resistance to extended-spectrum cephalosporins. Sequencing was performed with Illumina … more »

Posted in Citation | Tagged , | Comments Off on Characterization of plasmids harboring blaCTX-M and blaCMY genes in E. coli from French broilers