Citations

Genomic and transcriptomic resources for assassin flies including the complete genome sequence of Proctacanthus coquilletti (Insecta: Diptera: Asilidae) and 16 representative transcriptomes

January 2017

Authors:
Rebecca B. Dikow, Paul B. Frandsen, Mauren Turcatel, and Torsten Dikow

Info:
Researchers at the Smithsonian Institution published a high-quality draft genome, 16 transcriptomes, and a time-calibrated phylogeny for the assassin fly. They also include bioinformatics tools to help other scientists looking to produce similar resources for organisms without a reference genome. BluePippin was used to size RNA libraries prior to Illumina sequencing.

Citation:
PeerJ 5:e2951
DOI 10.7717/peerj.2951

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Pharmacologic activation of estrogen receptor β increases mitochondrial function, energy expenditure, and brown adipose tissue

January 2017

Authors:
Suriyan Ponnusamy, Quynh T. Tran, Innocence Harvey, Heather S. Smallwood, et al.

Info:
Scientists in Memphis, Tenn., studied obesity in mice, finding that estrogen receptor β and its ligands had a strong anti-obesity effect, reducing weight gain and adiposity in mice without any changes to activity levels or food intake. This could indicate a new opportunity for safe anti-obesity therapeutics in humans. For this project, Pippin Prep was used for library sizing prior to sequencing on an Ion Torrent Proton.

Citation:
The FASEB Journal vol. 31 no. 1 266-281
doi:10.1096/fj.201600787RR

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Genomics-Based Marker Discovery and Diagnostic Assay Development for Wheat Blast

January 2017

Authors:
Michael L. Pieck, Amy Ruck, Mark L. Farman, Gary L. Peterson, James P. Stack, Barbara Valent, and Kerry F. Pedley

Info:
Plant researchers published this look at Magnaporthe oryzae Triticum pathotype, the pathogen responsible for wheat blast in South America. The work was motivated by concerns that the species could spread to other parts of the world, so genetic information may prove critical in efforts to detect it. They used Pippin Prep to select 500 bp fragments for sequencing.

Citation:
Plant Disease
Volume 101, Number 1, Pages 103-109
http://dx.doi.org/10.1094/PDIS-04-16-0500-RE

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Comprehensive evaluation of extracellular small RNA isolation methods from serum in high throughput sequencing

January 2017

Authors:
Yan Guo, Kasey Vickers, Yanhua Xiong, Shilin Zhao, Quanhu Sheng, Pan Zhang, Wanding Zhou and Charles R. Flynn

Info:
Scientists from Vanderbilt University and Van Andel Research Institute compared methods for isolating circulating extracellular small non-coding RNAs. They used five kits on samples taken from one healthy individual. RNA-seq was performed on an Illumina NextSeq 500 following size selection with Pippin Prep.

Citation:
BMC Genomics201718:50
DOI: 10.1186/s12864-016-3470-z

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Whole Genome Amplification and Reduced-Representation Genome Sequencing of Schistosoma japonicum Miracidia

January 2017

Authors:
Jonathan A. Shortt, Daren C. Card, Drew R. Schield, Yang Liu, Bo Zhong, Todd A. Castoe, Elizabeth J. Carlton, and David D. Pollock

Info:
Researchers used ddRAD-seq to study the schistosome species S. japonicum miracidia, finding that they could analyze up to 30,000 loci from archived samples. The approach offers significantly more information than microsatellite genotyping and is cost-effective. They used Pippin Prep to size-select libraries prior to sequencing on an Illumina MiSeq instrument.

Citation:
PLoS Neglected Tropical Diseases

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