Andrea Minio, Mélanie Massonnet, Rosa Figueroa-Balderas, Amanda M. Vondras, Barbara Blanco-Ulate, and Dario Cantu
Researchers used PacBio’s Iso-Seq method to sequence full-length cDNA transcripts from ripening Cabernet Savignon berries resulting in 1,5000 cultivar-specific genes. The authors discuss using transcriptome profiles for comprehensive referencing as an alternative to costly genome referencing.
The BluePippn was used to size select 1-2 kbp, 2-3 kbp, 3-6 kbp, and 5-10 kbp fractions for cDNA SMRTbell library construction for the Iso-Seq method.
University of California, Davis
G3: Genes, Genomes, Genetics
Florent Mouliere et al.
This study from Cancer Research UK and a large team of collaborators is a continuation of work evaluating circulating tumor DNA (ctDNA) and the significance of sub-167 base pair cell-free DNA as a marker for tumors. Samples from a cohort of 200 patients were tested and show significantly improved detection of ctDNA by size selecting DNA between 90-150 bp, and using the TAm-Seq technique to detect mutations. PippinHT was used for DNA size selection.
Science Translational Medicine
Michael Hagemann-Jensen, Ilgar Abdullayev, Rickard Sandberg and Omid R Faridani
A new protocol from researchers at the Karolinska Institutet and the Ludwig Institute for Cancer Research outline a method for making small RNA sequencing libraries from a single mammalian cell. The method increases sensitivity compared with other methods by using a oligonucleotides to mask ribosomal RNA rather than using a pulldown strategy. Pippin Prep is recommended to isolated miRNA away from other small RNAs.
Nature Protocols 13, pages2407–2424 (2018)
N.R. Faria, et al.
A large collaboration between international and Brazilian researchers used a suite of epidemiological, spatial, and genomic approaches to characterize Yellow Fever virus transmission in Brazil. The study potentially establishes a framework for monitoring the disease in real time to prevent future epidemics. Pippin Prep used to size select RNA-seq libraries for paired end Illumina sequencing.
Science 361 (6405), 894-899
Highly sensitive detection of mutations in CHO cell recombinant DNA using multi‐parallel single molecule real‐time DNA sequencing
Joseph Cartwright, Karin Anderson, Joseph Longworth, Philip Lobb, and David James
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 analysis. The protocol can sequence 40,000 individual recombinant DNA molecules at once to find point mutations. BluePippin was used for purification prior to sequencing.
Biotechnology and Bioengineering