Tag Archives: PacBio

Antibiotic discovery throughout the Small World Initiative: A molecular strategy to identify biosynthetic gene clusters involved in antagonistic activity

Posted on February 25, 2017 by Alex

January 2017 Authors: Elizabeth Davis, Tyler Sloan, Krista Aurelius, Angela Barbour, et al. Info: Through a citizen science program, college students analyzed 77 soil-derived bacteria to promote genetic characterization and antibiotic discovery for the fight against drug-resistant pathogens. They chose … more »

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Targeted capture and sequencing of gene-sized DNA molecules

Posted on January 9, 2017 by Alex

December 2016 Authors: Michael Giolai, Pirita Paajanen, Walter Verweij, Lawrence Percival-Alwyn, et al. Info: Scientists adapted the RenSeq capture method for long-read PacBio sequencing, optimizing the method through improved shearing, size selection, and PCR amplification. They used SageELF extensively to … more »

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Single-Molecule Sequencing (PacBio) of the Staphylococcuscapitis NRCS-A Clone Reveals the Basis of Multidrug Resistance and Adaptation to the Neonatal Intensive Care Unit Environment

Posted on January 6, 2017 by Alex

December 2016 Authors: Patrícia MartinsSimões, HajarLemriss, YannDumont, SanâaLemriss, et al. Info: Scientists in France and Morocco fully sequenced the genome and accessory genome of a Staphylococcus capitis clone that has proven resistant to many drugs and is particularly detrimental to … more »

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Plasmids from Shiga Toxin-Producing Escherichia coli Strains with Rare Enterohemolysin Gene (ehxA) Subtypes Reveal Pathogenicity Potential and Display a Novel Evolutionary Path

Posted on December 9, 2016 by Alex

November 2016 Authors: Sandra C. Lorenz, Steven R. Monday, Maria Hoffmann, Markus Fischer and Julie A. Kase Info: Scientists from the US FDA and the University of Hamburg used PacBio sequencing to characterize plasmids associated with heightened virulence in Shiga … more »

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Building two indica rice reference genomes with PacBio long-read and Illumina paired-end sequencing data

Posted on October 15, 2016 by Alex

September 2016 Authors: Jianwei Zhang, Ling-Ling Chen, Shuai Sun, et al. Info: In this paper, researchers report generating two reference-quality genome assemblies for Oryza sativa subspecies. They publicly released both assemblies, which were built using PacBio and Illumina sequencing technology. … more »

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Production of the Bioactive Compounds Violacein and Indolmycin Is Conditional in a maeA Mutant of Pseudoalteromonas luteoviolaceaS4054 Lacking the Malic Enzyme

Posted on October 12, 2016 by Alex

September 2016 Authors: Mariane S. Thøgersen, Marina W. Delpin, Jette Melchiorsen, Mogens Kilstrup, Maria Månsson, Boyke Bunk, Cathrin Spröer, Jörg Overmann, Kristian F. Nielsen, and Lone Gram Info: A team of scientists analyzed biological compounds produced by Pseudoalteromonas luteoviolacea, a … more »

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At the University of Florida, SageELF Delivers Better Sizing for ddRAD-seq and Long-Read Pipelines

Posted on October 12, 2016 by Alex

Clients of the NextGen DNA Sequencing core at the University of Florida in Gainesville rely on Scientific Director David Moraga Amador to find and validate the best technologies for their projects. In addition to bringing in the best sequencers, that … more »

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The two chromosomes of the mitochondrial genome of a sugarcane cultivar: assembly and recombination analysis using long PacBio reads

Posted on October 9, 2016 by Alex

August 2016 Authors: Jeremy R. Shearman, Chutima Sonthirod, Chaiwat Naktang, Wirulda Pootakham, Thippawan Yoocha, Duangjai Sangsrakru, Nukoon Jomchai, Somvong Tragoonrung, and Sithichoke Tangphatsornruang Info: Scientists in Thailand used long-read sequencing to assemble the mitochondrial genome of a sugarcane cultivar from … more »

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Complete Genome Sequence of a Klebsiella pneumoniae Strain Carrying blaNDM-1 on a Multidrug Resistance Plasmid

Posted on August 20, 2016 by Alex

July/August 2016 Authors: Sean Conlan, Anna F. Lau, NISC Comparative Sequencing Program, Tara N. Palmore, Karen M. Frank, and Julia A. Segre Info: NIH scientists sequenced the genome of the first blaNDM-1-positive strain of Klebsiella pneumoniae detected in the institute’s hospital. They found three plasmids, … more »

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Analysis of tandem gene copies in maize chromosomal regions reconstructed from long sequence reads

Posted on August 19, 2016 by Alex

July 2016 Authors: Jiaqiang Dong, Yaping Feng, Dibyendu Kumar, Wei Zhang, Tingting Zhu, Ming-Cheng Luo, and Joachim Messing Info: Scientists from Rutgers University and the University of California, Davis, analyzed copy number variation in the highly repetitive maize genome using … more »

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