Citations

quaddRAD: a new high-multiplexing and PCR duplicate removal ddRAD protocol produces novel evolutionary insights in a nonradiating cichlid lineage

May 2017

Authors:
Franchini P, Monné Parera D, Kautt AF, Meyer A

Info:
Scientists from the University of Konstanz modified the original ddRAD-seq protocol to make it faster, more cost-effective, and higher-capacity. They report results from validating the new method on a population of Neotropical cichlid fish. Pippin Prep was used to size-select fragments prior to Illumina sequencing.

Citation:
Mol Ecol. 2017 May;26(10):2783-2795
doi: 10.1111/mec.14077

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Comparative Analysis of Ralstonia solanacearum Methylomes

April 2017

Authors:
Ivan Erill, Marina Puigvert, Ludovic Legrand, Rodrigo Guarischi-Sousa, et al.

Info:
Scientists report results of analyzing epigenetic patterns in two strains of a plant pathogen. They determined that methylation regulates virulence and adaptation to different host plants. BluePippin was used to remove smaller library fragments prior to sequencing with PacBio.

Citation:
Front Plant Sci. 2017; 8: 504
doi: 10.3389/fpls.2017.00504

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Tripartite species interaction: eukaryotic hosts suffer more from phage susceptible than from phage resistant bacteria

April 2017

Authors:
Carolin Wendling, Agnes Piecyk, Dominik Refardt, Cynthia Chibani, et al.

Info:
Scientists investigated the extent to which a bacterium’s susceptibility or resistance to prophages alters its own effect as a pathogen, finding that bacteria that were more likely to take in phages were also more harmful to their eukaryotic host organism. Whole genome sequencing was performed with PacBio, and BluePippin was used to prepare 10 Kb libraries.

Citation:
BMC Evolutionary Biology 2017 17:98

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The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity

April 2017

Authors:
Alexander Rialdi, Judd Hultquist, David Jimenez-Morales, Zuleyma Peralta, et al.

Info:
Scientists in New York and California teamed up to study the role of nuclear RNA exosomes in viral transcription, using influenza A. They found that the exosome coordinates transcription and that viral growth is suppressed when the RNA exosome’s activity is reduced. In the Illumina sequencing workflow, BluePippin was used to size-select PCR products.

Citation:
Cell

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Impaired human immunodeficiency virus type 1 replicative fitness in atypical viremic non-progressor individuals

March 2017

Authors:
Jan Weber, Richard Gibson, Lenka Sácká, Dmytro Strunin, et al.

Info:
In this publication, scientists describe an analysis of the rates of HIV progression in several patients. They determined that reduced viral replicative fitness appears to be associated with patients whose infections do not progress to advanced AIDS. Deep sequencing of the HIV-1 genome was performed on the Ion PGM after size-selection with Pippin Prep.

Citation:
AIDS Res Ther (2017) 14:15
DOI 10.1186/s12981-017-0144-0

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