Co-chaperone Hsp70/Hsp90 organizing protein (Hop) is Required for Transposon Silencing and piRNA Biogenesis
February 2017
Authors:
Joseph A. Karam, Rasesh Y. Parikh, Dhananjaya Nayak, David Rosenkranz and Vamsi K. Gangaraju
Info:
Scientists from South Carolina and Mainz, Germany, studied Hop, a co-chaperone that interacts with a piRNA in Drosophila. They found that knocking down Hop activates transposons and that it has an important role in maintaining genome integrity. RNA-seq was performed on an Illumina HiSeq 2500 after Pippin Prep was used for size selection.
Citation:
Journal of Biological Chemistry
doi: 10.1074/jbc.C117.777730
Metagenomic survey of the taxonomic and functional microbial communities of seawater and sea ice from the Canadian Arctic
February 2017
Authors:
Etienne Yergeau, Christine Michel, Julien Tremblay, Andrea Niemi, Thomas L. King, Joanne Wyglinski, Kenneth Lee, and Charles W. Greera
Info:
Scientists from Canada and Australia studied how climate change may be affecting microbial communities by performing metagenomic and 16S rRNA gene analysis of bacteria collected from Arctic sea ice and nearby sea water. The different habitats harbored very different microbial populations. Metagenomic sequencing was performed with the Ion Torrent PGM after size selection with the Pippin Prep system.
Citation:
Sci Rep. 2017; 7: 42242
Two stable variants of Burkholderia pseudomallei strain MSHR5848 express broadly divergent in vitro phenotypes associated with their virulence differences
February 2017
Authors:
A. A. Shea, R. C. Bernhards, C. K. Cote, C. J. Chase, et al.
Info:
Scientists from the United States Army Medical Research Institute of Infectious Diseases compared two strains of Burkholderia pseudomallei to find variants that might explain why one version was significantly more lethal than the other. They hope this work could lead to biomarkers in cases of infection. For genome analysis, they used BluePippin to size-select libraries for PacBio sequencing.
Citation:
PLoS One
Detection of individual ploidy levels with genotyping‐by‐sequencing (GBS) analysis
February 2017
Authors:
Zachariah Gompert, Karen E. Mock
Info:
Utah State University researchers developed a statistical approach to detect low-level ploidy variants using genotyping data from a sequencing workflow. The method does not require prior ploidy information to function. An evaluation was performed on Populus tremuloides, in which it successfully distinguished diploids, triploids and tetraploids. For this work, BluePippin was used to select 300 bp – 400 bp fragments prior to sequencing.
Citation:
Molecular Ecology Resources
DOI: 10.1111/1755-0998.12657
Rapid genetic and morphologic divergence between captive and wild populations of the endangered Leon Springs pupfish, Cyprinodon bovinus
February 2017
Authors:
Andrew N. Black, Heidi A. Seears, Christopher M. Hollenbeck, and Paul B. Samollow
Info:
Scientists studied members of two remaining populations of the endangered Leon Springs pupfish, one in a desert spring and the other in captivity. By analyzing SNPs, they found significant genetic differentiation between the populations. BluePippin was used for tight size selection.
Citation:
Molecular Ecology
DOI: 10.1111/mec.14028