Use of microarray hybrid capture and next-generation sequencing to identify the anatomy of a transgene
January 2013
Authors:
Amanda J. DuBose, Stephen T. Lichtenstein, Narisu Narisu, Lori L. Bonnycastle, Amy J. Swift, Peter S. Chines and Francis S. Collins
Info:
The authors designed a general method to study the arrangement of foreign DNA and host DNA rearrangements in trangenic animals. The protocol involves standard Illumina PE library generation, using the Pippin Prep for size selection, followed by microarray hybridization capture to isolate fragments containing the transgene.
Citation:
Nucleic Acids Research, 2013, 1-5
Discrete genetic modules are responsible for complex burrow evolution in Peromyscus mice
January 2013
Authors:
Jesse N. Weber, Brant K. Peterson & Hopi E. Hoekstra
Info:
The work seeks to identify genetic influences on a complex behavior in mice, burrow formation. The authors used a modified RADseq procedure to genotype two species of wild mice with distinct burrowing behavior. Pippin Prep was used for size selection in their RADseq protocol.
Citation:
Letter, Nature 493:402-405
A Hybrid Genetic Linkage Map of Two Ecologically and Morphologically Divergent Midas Cichlid Fishes(Amphilophus spp.) Obtained by Massively Parallel DNA Sequencing (ddRADSeq)
January 2013
Authors:
Hans Recknagel, Kathryn R. Elmer, and Axel Meyer
Info:
RADseq was used to develop linkage maps for two highly divergent Cichlid fish. Pippin Prep was used to size select the libraries.
Citation:
G3 (Bethesda) 3(1):65-74 January 2013
IL-10 Produced by Induced Regulatory T Cells (iTregs) Controls Colitis and Pathogenic Ex-iTregs during Immunotherapy
December 2012
Authors:
Erica G. Schmitt, Dipica Haribhai, Jason B. Williams, Praful Aggarwal, Shuang Jia, Louis-Marie Charbonnier, Ke Yan, Rachel Lorier, et al.
Info:
The study included sequencing of the T-cell receptor. For this sequencing, the authors used Ion Torrent platform. The Pippin Prep was used for size-selection as per the standard Life/Ion library construction protocols.
Citation:
J Immunology 189(12): 5638-5648: December 2012
Bactobolin Resistance is Conferred by Mutations in the L2 Ribosomal Protein
December 2012
Authors:
Josephine Chandler, Thao T. Truong, Patricia M. Silva, Mohammad R. Seyedsayamdost, Galvin Carr, Matthew Radey, Michael A. Jacobs, Elizabeth H. Sims, Jon Clardy, E. Peter Greenberg
Info:
Authors were searching for cause of resistance to antibiotic Bactobolin. Performed Illumina paired-end sequencing on resistant strains. Library construction used size-selection of library on Pippn Prep. Discovery of mutation was straightforward for two of four strains. Other two strains harbored a three base insertion which was not recognized in the initial Illumina sequencing.
Citation:
mBio 3(6):e00499-12: December 2012